Differential expression of c-Met between primary and metastatic sites in clear-cell renal cell carcinoma and its association with PD-L1 expression.

PubMed

Lalani, Aly-Khan A; Gray, Kathryn P; Albiges, Laurence; Callea, Marcella; Pignon, Jean-Christophe; Pal, Soumitro; Gupta, Mamta; Bhatt, Rupal S; McDermott, David F; Atkins, Michael B; Woude, G F Vande; Harshman, Lauren C; Choueiri, Toni K; Signoretti, Sabina

2017-11-28

In preclinical models, c-Met promotes survival of renal cancer cells through the regulation of programmed death-ligand 1 (PD-L1). However, this relationship in human clear cell renal cell carcinoma (ccRCC) is not well characterized. We evaluated c-Met expression in ccRCC patients using paired primary and metastatic samples and assessed the association with PD-L1 expression and other clinical features. Areas with predominant and highest Fuhrman nuclear grade (FNG) were selected. c-Met expression was evaluated by IHC using an anti-Met monoclonal antibody (MET4 Ab) and calculated by a combined score (CS, 0-300): intensity of c-Met staining (0-3) x % of positive cells (0-100). PD-L1 expression in tumor cells was previously assessed by IHC and PD-L1+ was defined as PD-L1 > 0% positive cells. Our cohort consisted of 45 pairs of primary and metastatic ccRCC samples. Overall, c-Met expression was higher in metastatic sites compared to primary sites (average c-Met CS: 55 vs. 28, p = 0.0003). Higher c-Met expression was associated with higher FNG (4 vs. 3) in primary tumors (average c-Met CS: 52 vs. 20, p = 0.04). c-Met expression was numerically greater in PD-L1+ vs. PD-L1- tumors. Higher c-Met expression in metastatic sites compared to primary tumors suggests that testing for biomarkers of response to c-Met inhibitors should be conducted in metastases. While higher c-Met expression in PD-L1+ tumors requires further investigation, it supports exploring these targets in combination clinical trials.

BRAF/NRAS mutation frequencies among primary tumors and metastases in patients with melanoma.

PubMed

Colombino, Maria; Capone, Mariaelena; Lissia, Amelia; Cossu, Antonio; Rubino, Corrado; De Giorgi, Vincenzo; Massi, Daniela; Fonsatti, Ester; Staibano, Stefania; Nappi, Oscar; Pagani, Elena; Casula, Milena; Manca, Antonella; Sini, Mariacristina; Franco, Renato; Botti, Gerardo; Caracò, Corrado; Mozzillo, Nicola; Ascierto, Paolo A; Palmieri, Giuseppe

2012-07-10

The prevalence of BRAF, NRAS, and p16CDKN2A mutations during melanoma progression remains inconclusive. We investigated the prevalence and distribution of mutations in these genes in different melanoma tissues. In all, 291 tumor tissues from 132 patients with melanoma were screened. Paired samples of primary melanomas (n = 102) and synchronous or asynchronous metastases from the same patients (n = 165) were included. Tissue samples underwent mutation analysis (automated DNA sequencing). Secondary lesions included lymph nodes (n = 84), and skin (n = 36), visceral (n = 25), and brain (n = 44) sites. BRAF/NRAS mutations were identified in 58% of primary melanomas (43% BRAF; 15% NRAS); 62% in lymph nodes, 61% subcutaneous, 56% visceral, and 70% in brain sites. Mutations were observed in 63% of metastases (48% BRAF; 15% NRAS), a nonsignificant increase in mutation frequency after progression from primary melanoma. Of the paired samples, lymph nodes (93% consistency) and visceral metastases (96% consistency) presented a highly similar distribution of BRAF/NRAS mutations versus primary melanomas, with a significantly less consistent pattern in brain (80%) and skin metastases (75%). This suggests that independent subclones are generated in some patients. p16CDKN2A mutations were identified in 7% and 14% of primary melanomas and metastases, with a low consistency (31%) between secondary and primary tumor samples. In the era of targeted therapies, assessment of the spectrum and distribution of alterations in molecular targets among patients with melanoma is needed. Our findings about the prevalence of BRAF/NRAS/p16CDKN2A mutations in paired tumor lesions from patients with melanoma may be useful in the management of this disease.

Comparison of CyTOF assays across sites: Results of a six-center pilot study.

PubMed

Leipold, Michael D; Obermoser, Gerlinde; Fenwick, Craig; Kleinstuber, Katja; Rashidi, Narges; McNevin, John P; Nau, Allison N; Wagar, Lisa E; Rozot, Virginie; Davis, Mark M; DeRosa, Stephen; Pantaleo, Giuseppe; Scriba, Thomas J; Walker, Bruce D; Olsen, Lars R; Maecker, Holden T

2018-02-01

For more than five years, high-dimensional mass cytometry has been employed to study immunology. However, these studies have typically been performed in one laboratory on one or few instruments. We present the results of a six-center study using healthy control human peripheral blood mononuclear cells (PBMCs) and commercially available reagents to test the intra-site and inter-site variation of mass cytometers and operators. We used prestained controls generated by the primary center as a reference to compare against samples stained at each individual center. Data were analyzed at the primary center, including investigating the effects of two normalization methods. All six sites performed similarly, with CVs for both Frequency of Parent and median signal intensity (MSI) values<30%. Increased background was seen when using the premixed antibody cocktail aliquots at each site, suggesting that cocktails are best made fresh. Both normalization methods tested performed adequately for normalizing MSI values between centers. Clustering algorithms revealed slight differences between the prestained and the sites-stained samples, due mostly to the increased background of a few antibodies. Therefore, we believe that multicenter mass cytometry assays are feasible. Copyright © 2017 The Author(s). Published by Elsevier B.V. All rights reserved.

Napsin A levels in epithelial lining fluid as a diagnostic biomarker of primary lung adenocarcinoma.

PubMed

Uchida, Akifumi; Samukawa, Takuya; Kumamoto, Tomohiro; Ohshige, Masahiro; Hatanaka, Kazuhito; Nakamura, Yoshihiro; Mizuno, Keiko; Higashimoto, Ikkou; Sato, Masami; Inoue, Hiromasa

2017-12-12

It is crucial to develop novel diagnostic approaches for determining if peripheral lung nodules are malignant, as such nodules are frequently detected due to the increased use of chest computed tomography scans. To this end, we evaluated levels of napsin A in epithelial lining fluid (ELF), since napsin A has been reported to be an immunohistochemical biomarker for histological diagnosis of primary lung adenocarcinoma. In consecutive patients with indeterminate peripheral lung nodules, ELF samples were obtained using a bronchoscopic microsampling (BMS) technique. The levels of napsin A and carcinoembryonic antigen (CEA) in ELF at the nodule site were compared with those at the contralateral site. A final diagnosis of primary lung adenocarcinoma was established by surgical resection. We performed BMS in 43 consecutive patients. Among patients with primary lung adenocarcinoma, the napsin A levels in ELF at the nodule site were markedly higher than those at the contralateral site, while there were no significant differences in CEA levels. Furthermore, in 18 patients who were undiagnosed by bronchoscopy and finally diagnosed by surgery, the napsin A levels in ELF at the nodule site were identically significantly higher than those at the contralateral site. In patients with non-adenocarcinoma, there were no differences in napsin A levels in ELF. The area under the receiver operator characteristic curve for identifying primary lung adenocarcinoma was 0.840 for napsin A and 0.542 for CEA. Evaluation of napsin A levels in ELF may be useful for distinguishing primary lung adenocarcinoma.

Preferential Allele Expression Analysis Identifies Shared Germline and Somatic Driver Genes in Advanced Ovarian Cancer

PubMed Central

Halabi, Najeeb M.; Martinez, Alejandra; Al-Farsi, Halema; Mery, Eliane; Puydenus, Laurence; Pujol, Pascal; Khalak, Hanif G.; McLurcan, Cameron; Ferron, Gwenael; Querleu, Denis; Al-Azwani, Iman; Al-Dous, Eman; Mohamoud, Yasmin A.; Malek, Joel A.; Rafii, Arash

2016-01-01

Identifying genes where a variant allele is preferentially expressed in tumors could lead to a better understanding of cancer biology and optimization of targeted therapy. However, tumor sample heterogeneity complicates standard approaches for detecting preferential allele expression. We therefore developed a novel approach combining genome and transcriptome sequencing data from the same sample that corrects for sample heterogeneity and identifies significant preferentially expressed alleles. We applied this analysis to epithelial ovarian cancer samples consisting of matched primary ovary and peritoneum and lymph node metastasis. We find that preferentially expressed variant alleles include germline and somatic variants, are shared at a relatively high frequency between patients, and are in gene networks known to be involved in cancer processes. Analysis at a patient level identifies patient-specific preferentially expressed alleles in genes that are targets for known drugs. Analysis at a site level identifies patterns of site specific preferential allele expression with similar pathways being impacted in the primary and metastasis sites. We conclude that genes with preferentially expressed variant alleles can act as cancer drivers and that targeting those genes could lead to new therapeutic strategies. PMID:26735499

Palatine tonsillar metastasis of a small pulmonary adenocarcinoma showing an invasive micropapillary carcinoma pattern and Pagetoid spread at the tonsil: a case suggesting retrograde lymphatic metastasis from bulky lymph node metastases of the neck.

PubMed

Tajima, Shogo; Koda, Kenji

2015-01-01

Metastasis rarely occurs in the palatine tonsils. Among primary pulmonary carcinoma subtypes, small cell carcinoma more frequently metastasizes to this site. Herein, we present an exceedingly rare case of a small pulmonary adenocarcinoma that metastasized to the cervical lymph nodes and the right palatine tonsil in a 62-year-old man. In spite of the small size of the primary site, such extensive metastasis may have occurred because of the invasive micropapillary carcinoma pattern seen in the metastatic sites. The manner of metastasis to the palatine tonsil was considered retrograde lymphatic metastasis originating from carcinoma cells in the cervical lymph nodes. Furthermore, Pagetoid spread was observed at the palatine tonsil. Although there have been only a few cases showing retrograde lymphatic metastasis and Pagetoid spread at the metastatic site, we should be careful when speculating about the primary site based on such metastatic sites, especially when dealing with a biopsy sample exhibiting Pagetoid spread.

Plant Communities Rather than Soil Properties Structure Arbuscular Mycorrhizal Fungal Communities along Primary Succession on a Mine Spoil

PubMed Central

Krüger, Claudia; Kohout, Petr; Janoušková, Martina; Püschel, David; Frouz, Jan; Rydlová, Jana

2017-01-01

Arbuscular mycorrhizal fungal (AMF) community assembly during primary succession has so far received little attention. It remains therefore unclear, which of the factors, driving AMF community composition, are important during ecosystem development. We addressed this question on a large spoil heap, which provides a mosaic of sites in different successional stages under different managements. We selected 24 sites of c. 12, 20, 30, or 50 years in age, including sites with spontaneously developing vegetation and sites reclaimed by alder plantations. On each site, we sampled twice a year roots of the perennial rhizomatous grass Calamagrostis epigejos (Poaceae) to determine AMF root colonization and diversity (using 454-sequencing), determined the soil chemical properties and composition of plant communities. AMF taxa richness was unaffected by site age, but AMF composition variation increased along the chronosequences. AMF communities were unaffected by soil chemistry, but related to the composition of neighboring plant communities of the sampled C. epigejos plants. In contrast, the plant communities of the sites were more distinctively structured than the AMF communities along the four successional stages. We conclude that AMF and plant community successions respond to different factors. AMF communities seem to be influenced by biotic rather than by abiotic factors and to diverge with successional age. PMID:28473828

Dynamic landscape and regulation of RNA editing in mammals

PubMed Central

Tan, Meng How; Li, Qin; Shanmugam, Raghuvaran; Piskol, Robert; Kohler, Jennefer; Young, Amy N.; Liu, Kaiwen Ivy; Zhang, Rui; Ramaswami, Gokul; Ariyoshi, Kentaro; Gupte, Ankita; Keegan, Liam P.; George, Cyril X.; Ramu, Avinash; Huang, Ni; Pollina, Elizabeth A.; Leeman, Dena S.; Rustighi, Alessandra; Sharon Goh, Y. P.; Chawla, Ajay; Del Sal, Giannino; Peltz, Gary; Brunet, Anne; Conrad, Donald F.; Samuel, Charles E.; O’Connell, Mary A.; Walkley, Carl R.; Nishikura, Kazuko; Li, Jin Billy

2017-01-01

Adenosine-to-inosine (A-to-I) RNA editing is a conserved post-transcriptional mechanism mediated by ADAR enzymes that diversifies the transcriptome by altering selected nucleotides in RNA molecules1. Although many editing sites have recently been discovered2–7, the extent to which most sites are edited and how the editing is regulated in different biological contexts are not fully understood8–10. Here we report dynamic spatiotemporal patterns and new regulators of RNA editing, discovered through an extensive profiling of A-to-I RNA editing in 8,551 human samples (representing 53 body sites from 552 individuals) from the Genotype-Tissue Expression (GTEx) project and in hundreds of other primate and mouse samples. We show that editing levels in non-repetitive coding regions vary more between tissues than editing levels in repetitive regions. Globally, ADAR1 is the primary editor of repetitive sites and ADAR2 is the primary editor of non-repetitive coding sites, whereas the catalytically inactive ADAR3 predominantly acts as an inhibitor of editing. Cross-species analysis of RNA editing in several tissues revealed that species, rather than tissue type, is the primary determinant of editing levels, suggesting stronger cis-directed regulation of RNA editing for most sites, although the small set of conserved coding sites is under stronger trans-regulation. In addition, we curated an extensive set of ADAR1 and ADAR2 targets and showed that many editing sites display distinct tissue-specific regulation by the ADAR enzymes in vivo. Further analysis of the GTEx data revealed several potential regulators of editing, such as AIMP2, which reduces editing in muscles by enhancing the degradation of the ADAR proteins. Collectively, our work provides insights into the complex cis- and trans-regulation of A-to-I editing. PMID:29022589

Dynamic landscape and regulation of RNA editing in mammals.

PubMed

Tan, Meng How; Li, Qin; Shanmugam, Raghuvaran; Piskol, Robert; Kohler, Jennefer; Young, Amy N; Liu, Kaiwen Ivy; Zhang, Rui; Ramaswami, Gokul; Ariyoshi, Kentaro; Gupte, Ankita; Keegan, Liam P; George, Cyril X; Ramu, Avinash; Huang, Ni; Pollina, Elizabeth A; Leeman, Dena S; Rustighi, Alessandra; Goh, Y P Sharon; Chawla, Ajay; Del Sal, Giannino; Peltz, Gary; Brunet, Anne; Conrad, Donald F; Samuel, Charles E; O'Connell, Mary A; Walkley, Carl R; Nishikura, Kazuko; Li, Jin Billy

2017-10-11

Adenosine-to-inosine (A-to-I) RNA editing is a conserved post-transcriptional mechanism mediated by ADAR enzymes that diversifies the transcriptome by altering selected nucleotides in RNA molecules. Although many editing sites have recently been discovered, the extent to which most sites are edited and how the editing is regulated in different biological contexts are not fully understood. Here we report dynamic spatiotemporal patterns and new regulators of RNA editing, discovered through an extensive profiling of A-to-I RNA editing in 8,551 human samples (representing 53 body sites from 552 individuals) from the Genotype-Tissue Expression (GTEx) project and in hundreds of other primate and mouse samples. We show that editing levels in non-repetitive coding regions vary more between tissues than editing levels in repetitive regions. Globally, ADAR1 is the primary editor of repetitive sites and ADAR2 is the primary editor of non-repetitive coding sites, whereas the catalytically inactive ADAR3 predominantly acts as an inhibitor of editing. Cross-species analysis of RNA editing in several tissues revealed that species, rather than tissue type, is the primary determinant of editing levels, suggesting stronger cis-directed regulation of RNA editing for most sites, although the small set of conserved coding sites is under stronger trans-regulation. In addition, we curated an extensive set of ADAR1 and ADAR2 targets and showed that many editing sites display distinct tissue-specific regulation by the ADAR enzymes in vivo. Further analysis of the GTEx data revealed several potential regulators of editing, such as AIMP2, which reduces editing in muscles by enhancing the degradation of the ADAR proteins. Collectively, our work provides insights into the complex cis- and trans-regulation of A-to-I editing.

Tracking the Primary Sources of Fecal Pollution in a Tropical Watershed in a One-Year Study

EPA Science Inventory

A study was conducted to determine the primary sources of fecal pollution in a subtropical watershed using host-specific assays developed in temperate regions. Water samples (n=534) from 10 different sites along the Rio Grande de Arecibo watershed were collected every two-three w...

Geochemical studies of rocks from North Ray Crater, Apollo 16

NASA Technical Reports Server (NTRS)

Lindstrom, M. M.; Salpas, P. A.

1982-01-01

The samples included in the study were all collected as individual specimens from Station 11 near the rim of North Ray Crater. Samples were selected to cover the entire range of rock types from anorthosites to subophitic impact melts, giving particular attention to the feldspathic breccias which predominate at the site. The chemical composition of North Ray Crater rocks is discussed along with the compositional variations among North Ray Crater samples, and the relationships between North Ray Crater and other Apollo 16 stations. It is pointed out that the primary objective in sampling the Apollo 16 site was to characterize materials from the Cayley Plains and Descartes Highlands.

A primer in lunar geology

NASA Technical Reports Server (NTRS)

Greeley, R. (Editor); Schultz, P. H. (Editor)

1974-01-01

Primary topics in lunar geology range from the evolution of the solar system to lunar photointerpretation, impact crater formation, and sampling to analyses on various Apollo lunar landing site geomorphologies.

Climatological Processing and Product Development for the TRMM Ground Validation Program

NASA Technical Reports Server (NTRS)

Marks, D. A.; Kulie, M. S.; Robinson, M.; Silberstein, D. S.; Wolff, D. B.; Ferrier, B. S.; Amitai, E.; Fisher, B.; Wang, J.; Augustine, D.;

Penetrator role in Mars sample strategy

NASA Technical Reports Server (NTRS)

Boynton, William; Dwornik, Steve; Eckstrom, William; Roalstad, David A.

1988-01-01

The application of the penetrator to a Mars Return Sample Mission (MRSM) has direct advantages to meet science objectives and mission safety. Based on engineering data and work currently conducted at Ball Aerospace Systems Division, the concept of penetrators as scientific instruments is entirely practical. The primary utilization of a penetrator for MRSM would be to optimize the selection of the sample site location and to help in selection of the actual sample to be returned to Earth. It is recognized that the amount of sample to be returned is very limited, therefore the selection of the sample site is critical to the success of the mission. The following mission scenario is proposed. The site selection of a sample to be acquired will be performed by science working groups. A decision will be reached and a set of target priorities established based on data to give geochemical, geophysical and geological information. The first task of a penetrator will be to collect data at up to 4 to 6 possible landing sites. The penetrator can include geophysical, geochemical, geological and engineering instruments to confirm that scientific data requirements at that site will be met. This in situ near real-time data, collected prior to final targeting of the lander, will insure that the sample site is both scientifically valuable and also that it is reachable within limits of the capability of the lander.

Prevalence of urinary tract infection (UTI) in sequential acutely unwell children presenting in primary care: exploratory study.

PubMed

O'Brien, Kathryn; Stanton, Naomi; Edwards, Adrian; Hood, Kerenza; Butler, Christopher C

2011-03-01

Due to the non-specific nature of symptoms of UTI in children and low levels of urine sampling, the prevalence of UTI amongst acutely ill children in primary care is unknown. To undertake an exploratory study of acutely ill children consulting in primary care, determine the feasibility of obtaining urine samples, and describe presenting symptoms and signs, and the proportion with UTI. Exploratory, observational study. Four general practices in South Wales. A total of 99 sequential attendees with acute illness aged less than five years. UTI defined by >10(5) organisms/ml on laboratory culture of urine. Urine samples were obtained in 75 (76%) children. Three (4%) met microbiological criteria for UTI. GPs indicated they would not normally have obtained urine samples in any of these three children. However, all had received antibiotics for suspected alternative infections. Urine sample collection is feasible from the majority of acutely ill children in primary care, including infants. Some cases of UTI may be missed if children thought to have an alternative site of infection are excluded from urine sampling. A larger study is needed to more accurately determine the prevalence of UTI in children consulting with acute illness in primary care, and to explore which symptoms and signs might help clinicians effectively target urine sampling.

Use of Passive Diffusion Samplers for Monitoring Volatile Organic Compounds in Ground Water

USGS Publications Warehouse

Harte, Philip T.; Brayton, Michael J.; Ives, Wayne

2000-01-01

Passive diffusion samplers have been tested at a number of sites where volatile organic compounds (VOC's) are the principal contaminants in ground water. Test results generally show good agreement between concentrations of VOC's in samples collected with diffusion samplers and concentrations in samples collected by purging the water from a well. Diffusion samplers offer several advantages over conventional and low-flow ground-water sampling procedures: * Elimination of the need to purge a well before collecting a sample and to dispose of contaminated water. * Elimination of cross-contamination of samples associated with sampling with non-dedicated pumps or sample delivery tubes. * Reduction in sampling time by as much as 80 percent of that required for 'purge type' sampling methods. * An increase in the frequency and spatial coverage of monitoring at a site because of the associated savings in time and money. The successful use of diffusion samplers depends on the following three primary factors: (1) understanding site conditions and contaminants of interest (defining sample objectives), (2) validating of results of diffusion samplers against more widely acknowledged sampling methods, and (3) applying diffusion samplers in the field.

USGS GeoData Digital Raster Graphics

USGS Publications Warehouse

,

2001-01-01

Passive diffusion samplers have been tested at a number of sites where volatile organic compounds (VOC?s) are the principal contaminants in ground water. Test results generally show good agreement between concentrations of VOC?s in samples collected with diffusion samplers and concentrations in samples collected by purging the water from a well. Diffusion samplers offer several advantages over conventional and low-flow ground-water sampling procedures: ? Elimination of the need to purge a well before collecting a sample and to dispose of contaminated water. ? Elimination of cross-contamination of samples associated with sampling with non-dedicated pumps or sample delivery tubes. ? Reduction in sampling time by as much as 80 percent of that required for ?purge type? sampling methods. ? An increase in the frequency and spatial coverage of monitoring at a site because of the associated savings in time and money. The successful use of diffusion samplers depends on the following three primary factors: (1) understanding site conditions and contaminants of interest (defining sample objectives), (2) validating of results of diffusion samplers against more widely acknowledged sampling methods, and (3) applying diffusion samplers in the field.

The natural history and patterns of metastases from mucosal melanoma: an analysis of 706 prospectively-followed patients.

PubMed

Lian, B; Cui, C L; Zhou, L; Song, X; Zhang, X S; Wu, D; Si, L; Chi, Z H; Sheng, X N; Mao, L L; Wang, X; Tang, B X; Yan, X Q; Kong, Y; Dai, J; Li, S M; Bai, X; Zheng, N; Balch, C M; Guo, J

2017-04-01

We examined whether mucosal melanomas are different in their clinical course and patterns of metastases when arising from different anatomic sites. Our hypothesis was that metastatic behavior would differ from primary mucosal melanomas at different anatomical sites. Clinical and pathological data from 706 patients were compared for their stage distribution, patterns of metastases, CKIT/BRAF mutation status, and overall survival for different anatomical sites. The anatomic sites of the primary mucosal melanomas were from the lower GI tract (26.5%), nasal cavity and paranasal sinuses (23%), gynecological sites (22.5%), oral cavity (15%), urological sites (5%), upper GI tract (5%), and other sites (3.0%). At initial diagnosis, 14.5% were stage I disease, 41% Stage II, 21.5% Stage III, and 23.0% stage IV. Predominant metastatic sites were regional lymph nodes (21.5%), lung (21%), liver (18.5%), and distant nodes (9%). Oral cavity mucosal melanoma had a higher incidence of regional nodal metastases (31.7% versus 19.8%, P = 0.009), and a higher incidence of lung metastases (32.5% versus 18.5%, P = 0.007) compared to other primary mucosal melanomas. There was a 10% incidence of CKIT mutation and 12% BRAF mutation. Mucosal melanomas from nasal pharyngeal and oral, gastrointestinal, gynecological, and urological had a similar survival with a 1-year survival rate (88%, 83%, 86%), 2-year survival rate (66%, 57%, 61%), 5-year survival rate (27%, 16%, 20%), respectively. The largest sample size allows, for the first time, a comparison of primary melanoma stage and patterns of metastases across anatomical sites. With few exceptions, the presenting stages, incidence of nodal and distant metastases, the site of predilection of distant metastases, or overall survival were similar despite different primary anatomic sites. These findings suggest that clinical trials involving mucosal melanomas and the administration of systemic therapy can be applied equally to mucosal melanomas regardless of their primary anatomic site. © The Author 2016. Published by Oxford University Press on behalf of the European Society for Medical Oncology. All rights reserved. For permissions, please email: journals.permissions@oup.com.

Effects of amorphous calcium phosphate stabilized by casein phosphopeptides on enamel de- and remineralization in primary teeth: an in vitro study.

PubMed

Bar-Hillel, Rita; Feuerstein, Osnat; Tickotsky, Nili; Shapira, Joseph; Moskovitz, Moti

2012-01-01

Amorphous calcium phosphate, stabilized by casein phosphopeptides, has been found to enhance remineralization of subsurface lesions in permanent teeth. The purpose of the present in vitro study was to evaluate the potential of GC Tooth Mousse to enhance remineralization of initial demineralized enamel sites in primary teeth. Forty-four demineralization sites were created in 22 extracted primary teeth. Samples were randomly assigned to 6 treatment groups (GC Tooth Mousse covering, GC Tooth Mousse covering and demineralization, and control groups). The mineral content of each sample was evaluated using energy dispersive X-ray analysis, performed from the enamel surface of each lesion inwards. The results were analyzed using analysis of variance, with a significance level P<.05. Samples treated with GC Tooth Mousse demonstrated an increase in the calcium-phosphate ratio by approximately 2% near the surface, a minimal increase of 1% at a depth over 60 μm, and no change at a depth from 40 to 60 μm, with no statistically significant differences (P>.05). This study demonstrates a minimal increase in the subsurface calcium-phosphate ratio following GC Tooth Mousse treatment, especially in demineralized enamel tissue.

The effects of festival attributes upon perceptions of crowding

Treesearch

Matthew Anderson; Deborah Kerstette; Alan Graefe

1998-01-01

The primary purpose of this study was to explore the relationship between festival attributes and perceived crowding at a festival site. Visitors to the Northwest Folklife Festival in Seattle, Washington, were chosen by a systematic sampling method to complete an on-site and follow-up survey. These surveys included questions which addressed the determinate attributes...

Monitoring the Effectiveness of Measures to Contain the Primary Sources of Mercury Pollution on the Site of a Former Chlor-Akali Plant in Kazakhstan

EPA Science Inventory

An extensive sampling campaign was conducted in 2005-2007 to monitor the effectiveness of remedial measures to contain mercury pollution at the site of a former mercury cell chlor-alkali plant in Pavlodar, Kazakhstan. Containment measures consisted of cutoff walls and capping of ...

miR-16-5p Is a Stably-Expressed Housekeeping MicroRNA in Breast Cancer Tissues from Primary Tumors and from Metastatic Sites

PubMed Central

Rinnerthaler, Gabriel; Hackl, Hubert; Gampenrieder, Simon Peter; Hamacher, Frank; Hufnagl, Clemens; Hauser-Kronberger, Cornelia; Zehentmayr, Franz; Fastner, Gerd; Sedlmayer, Felix; Mlineritsch, Brigitte; Greil, Richard

2016-01-01

For quantitative microRNA analyses in formalin-fixed paraffin-embedded (FFPE) tissue, expression levels have to be normalized to endogenous controls. To investigate the most stably-expressed microRNAs in breast cancer and its surrounding tissue, we used tumor samples from primary tumors and from metastatic sites. MiRNA profiling using TaqMan® Array Human MicroRNA Cards, enabling quantification of 754 unique human miRNAs, was performed in FFPE specimens from 58 patients with metastatic breast cancer. Forty-two (72%) samples were collected from primary tumors and 16 (28%) from metastases. In a cross-platform analysis of a validation cohort of 32 FFPE samples from patients with early breast cancer genome-wide microRNA expression analysis using SurePrintG3 miRNA (8 × 60 K)® microarrays from Agilent® was performed. Eleven microRNAs could be detected in all samples analyzed. Based on NormFinder and geNorm stability values and the high correlation (rho ≥ 0.8) with the median of all measured microRNAs, miR-16-5p, miR-29a-3p, miR-126-3p, and miR-222-3p are suitable single gene housekeeper candidates. In the cross-platform validation, 29 human microRNAs were strongly expressed (mean log2-intensity > 10) and 21 of these microRNAs including miR-16-5p and miR-29a-3p were also stably expressed (CV < 5%). Thus, miR-16-5p and miR-29a-3p are both strong housekeeper candidates. Their Normfinder stability values calculated across the primary tumor and metastases subgroup indicate that miR-29a-3p can be considered as the strongest housekeeper in a cohort with mainly samples from primary tumors, whereas miR-16-5p might perform better in a metastatic sample enriched cohort. PMID:26821018

miR-16-5p Is a Stably-Expressed Housekeeping MicroRNA in Breast Cancer Tissues from Primary Tumors and from Metastatic Sites.

PubMed

Rinnerthaler, Gabriel; Hackl, Hubert; Gampenrieder, Simon Peter; Hamacher, Frank; Hufnagl, Clemens; Hauser-Kronberger, Cornelia; Zehentmayr, Franz; Fastner, Gerd; Sedlmayer, Felix; Mlineritsch, Brigitte; Greil, Richard

2016-01-26

For quantitative microRNA analyses in formalin-fixed paraffin-embedded (FFPE) tissue, expression levels have to be normalized to endogenous controls. To investigate the most stably-expressed microRNAs in breast cancer and its surrounding tissue, we used tumor samples from primary tumors and from metastatic sites. MiRNA profiling using TaqMan(®) Array Human MicroRNA Cards, enabling quantification of 754 unique human miRNAs, was performed in FFPE specimens from 58 patients with metastatic breast cancer. Forty-two (72%) samples were collected from primary tumors and 16 (28%) from metastases. In a cross-platform analysis of a validation cohort of 32 FFPE samples from patients with early breast cancer genome-wide microRNA expression analysis using SurePrintG3 miRNA (8 × 60 K)(®) microarrays from Agilent(®) was performed. Eleven microRNAs could be detected in all samples analyzed. Based on NormFinder and geNorm stability values and the high correlation (rho ≥ 0.8) with the median of all measured microRNAs, miR-16-5p, miR-29a-3p, miR-126-3p, and miR-222-3p are suitable single gene housekeeper candidates. In the cross-platform validation, 29 human microRNAs were strongly expressed (mean log2-intensity > 10) and 21 of these microRNAs including miR-16-5p and miR-29a-3p were also stably expressed (CV < 5%). Thus, miR-16-5p and miR-29a-3p are both strong housekeeper candidates. Their Normfinder stability values calculated across the primary tumor and metastases subgroup indicate that miR-29a-3p can be considered as the strongest housekeeper in a cohort with mainly samples from primary tumors, whereas miR-16-5p might perform better in a metastatic sample enriched cohort.

DNA methylation profiling identifies global methylation differences and markers of adrenocortical tumors.

PubMed

Rechache, Nesrin S; Wang, Yonghong; Stevenson, Holly S; Killian, J Keith; Edelman, Daniel C; Merino, Maria; Zhang, Lisa; Nilubol, Naris; Stratakis, Constantine A; Meltzer, Paul S; Kebebew, Electron

2012-06-01

It is not known whether there are any DNA methylation alterations in adrenocortical tumors. The objective of the study was to determine the methylation profile of normal adrenal cortex and benign and malignant adrenocortical tumors. Genome-wide methylation status of CpG regions were determined in normal (n = 19), benign (n = 48), primary malignant (n = 8), and metastatic malignant (n = 12) adrenocortical tissue samples. An integrated analysis of genome-wide methylation and mRNA expression in benign vs. malignant adrenocortical tissue samples was also performed. Methylation profiling revealed the following: 1) that methylation patterns were distinctly different and could distinguish normal, benign, primary malignant, and metastatic tissue samples; 2) that malignant samples have global hypomethylation; and 3) that the methylation of CpG regions are different in benign adrenocortical tumors by functional status. Normal compared with benign samples had the least amount of methylation differences, whereas normal compared with primary and metastatic adrenocortical carcinoma samples had the greatest variability in methylation (adjusted P ≤ 0.01). Of 215 down-regulated genes (≥2-fold, adjusted P ≤ 0.05) in malignant primary adrenocortical tumor samples, 52 of these genes were also hypermethylated. Malignant adrenocortical tumors are globally hypomethylated as compared with normal and benign tumors. Methylation profile differences may accurately distinguish between primary benign and malignant adrenocortical tumors. Several differentially methylated sites are associated with genes known to be dysregulated in malignant adrenocortical tumors.

Transcriptogenomics identification and characterization of RNA editing sites in human primary monocytes using high-depth next generation sequencing data.

PubMed

Leong, Wai-Mun; Ripen, Adiratna Mat; Mirsafian, Hoda; Mohamad, Saharuddin Bin; Merican, Amir Feisal

2018-06-07

High-depth next generation sequencing data provide valuable insights into the number and distribution of RNA editing events. Here, we report the RNA editing events at cellular level of human primary monocyte using high-depth whole genomic and transcriptomic sequencing data. We identified over a ten thousand putative RNA editing sites and 69% of the sites were A-to-I editing sites. The sites enriched in repetitive sequences and intronic regions. High-depth sequencing datasets revealed that 90% of the canonical sites were edited at lower frequencies (<0.7). Single and multiple human monocytes and brain tissues samples were analyzed through genome sequence independent approach. The later approach was observed to identify more editing sites. Monocytes was observed to contain more C-to-U editing sites compared to brain tissues. Our results establish comparable pipeline that can address current limitations as well as demonstrate the potential for highly sensitive detection of RNA editing events in single cell type. Copyright © 2018 Elsevier Inc. All rights reserved.

Experience of Primary Care among Homeless Individuals with Mental Health Conditions

PubMed Central

Chrystal, Joya G.; Glover, Dawn L.; Young, Alexander S.; Whelan, Fiona; Austin, Erika L.; Johnson, Nancy K.; Pollio, David E.; Holt, Cheryl L.; Stringfellow, Erin; Gordon, Adam J.; Kim, Theresa A.; Daigle, Shanette G.; Steward, Jocelyn L.; Kertesz, Stefan G

2015-01-01

The delivery of primary care to homeless individuals with mental health conditions presents unique challenges. To inform healthcare improvement, we studied predictors of favorable primary care experience among homeless persons with mental health conditions treated at sites that varied in degree of homeless-specific service tailoring. This was a multi-site, survey-based comparison of primary care experiences at three mainstream primary care clinics of the Veterans Administration (VA), one homeless-tailored VA clinic, and one tailored non-VA healthcare program. Persons who accessed primary care service two or more times from July 2008 through June 2010 (N = 366) were randomly sampled. Predictor variables included patient and organization characteristics suggested by the patient perception model developed by Sofaer and Firminger (2005), with an emphasis on mental health. The primary care experience was assessed with the Primary Care Quality-Homeless (PCQ-H) questionnaire, a validated survey instrument. Multiple regression identified predictors of positive experiences (i.e. higher PCQ-H total score). Significant predictors of a positive experience included a site offering tailored service design, perceived choice among providers, and currently domiciled status. There was an interaction effect between site and severe psychiatric symptoms. For persons with severe psychiatric symptoms, a homeless-tailored service design was significantly associated with a more favorable primary care experience. For persons without severe psychiatric symptoms, this difference was not significant. This study supports the importance of tailored healthcare delivery designed for homeless persons’ needs, with such services potentially holding special relevance for persons with mental health conditions. To improve patient experience among the homeless, organizations may want to deliver services that are tailored to homelessness and offer a choice of providers. PMID:25659142

Experience of primary care among homeless individuals with mental health conditions.

PubMed

Chrystal, Joya G; Glover, Dawn L; Young, Alexander S; Whelan, Fiona; Austin, Erika L; Johnson, Nancy K; Pollio, David E; Holt, Cheryl L; Stringfellow, Erin; Gordon, Adam J; Kim, Theresa A; Daigle, Shanette G; Steward, Jocelyn L; Kertesz, Stefan G

2015-01-01

The delivery of primary care to homeless individuals with mental health conditions presents unique challenges. To inform healthcare improvement, we studied predictors of favorable primary care experience among homeless persons with mental health conditions treated at sites that varied in degree of homeless-specific service tailoring. This was a multi-site, survey-based comparison of primary care experiences at three mainstream primary care clinics of the Veterans Administration (VA), one homeless-tailored VA clinic, and one tailored non-VA healthcare program. Persons who accessed primary care service two or more times from July 2008 through June 2010 (N = 366) were randomly sampled. Predictor variables included patient and organization characteristics suggested by the patient perception model developed by Sofaer and Firminger (2005), with an emphasis on mental health. The primary care experience was assessed with the Primary Care Quality-Homeless (PCQ-H) questionnaire, a validated survey instrument. Multiple regression identified predictors of positive experiences (i.e. higher PCQ-H total score). Significant predictors of a positive experience included a site offering tailored service design, perceived choice among providers, and currently domiciled status. There was an interaction effect between site and severe psychiatric symptoms. For persons with severe psychiatric symptoms, a homeless-tailored service design was significantly associated with a more favorable primary care experience. For persons without severe psychiatric symptoms, this difference was not significant. This study supports the importance of tailored healthcare delivery designed for homeless persons' needs, with such services potentially holding special relevance for persons with mental health conditions. To improve patient experience among the homeless, organizations may want to deliver services that are tailored to homelessness and offer a choice of providers.

Measurement and source characteristics of carbonyl compounds in the atmosphere in Kaohsiung city, Taiwan.

PubMed

Wang, H K; Huang, C H; Chen, K S; Peng, Y P; Lai, C H

2010-07-15

The concentrations of eighteen atmospheric carbonyls species were measured by the LpDNPH-Cartridge and the microcomputer air sampling device at Nan-Chie (northern part) and Hsiung-Kong (southern part) sites in Kaohsiung city, southern Taiwan. These samples were then analyzed using a high performance liquid chromatography (HPLC). Measurements showed that the highest concentrations of carbonyls were formaldehyde (18.33 and 18.74 microg m(-3)) at the Nan-Chie and Hsiung-Kong site, followed by acetaldehyde (14.90 and 15.71 microg m(-3)). The concentrations of total carbonyls were higher at Hsiung-Kong site (66.96 microg m(-3)) than at Nan-Chie site (60.41 microg m(-3)). The concentrations of total carbonyls at Nan-Chie site (or Hsiung-Kong site) were 74.06 microg m(-3) (89.99 microg m(-3)) in summer and 37.14 microg m(-3) (46.50 microg m(-3)) in winter, due to the fact that photochemical activities are stronger in summer than in winter. The results of principal component analysis (PCA)/absolute principal component scores (APCS) suggest that the primary pollution sources at Nan-Chie were vehicle exhausts (gasoline and diesel engines), stationary emissions (petrochemical and food industry) and restaurant emissions, and the primary pollution sources at Hsiung-Kong were vehicle exhausts (gasoline and diesel engines), stationary emissions (metal assembly and petrochemical industry) and restaurant emissions. 2010 Elsevier B.V. All rights reserved.

Seasonal and spatial variability of nutrients and pesticides in streams of the Willamette Basin, Oregon, 1993-95

USGS Publications Warehouse

Rinella, F.A.; Janet, M.L.

1998-01-01

From April 1993 to September 1995, the U.S. Geological Survey conducted a study of the occurrence and distribution of nutrients and pesticides in surface water of the Willamette and Sandy River Basins, Oregon, as part of the U.S. Geological Survey National Water-Quality Assessment (NAWQA) Program. About 260 samples were collected at 51 sites during the study; of these, more than 60 percent of the pesticide samples and more than 70 percent of the nutrient samples were collected at 7 sites in a fixed-station network (primary sites) to characterize seasonal water-quality variability related to a variety of land-use activities. Samples collected at the remain ing 44 sites were used primarily to characterize spatial water- quality variability in agricultural river subbasins located throughout the study area.This report describes concentrations of 4 nutrient species (total nitrogen, filtered nitrite plus nitrate, total phosphorus, and soluble reactive phosphorus) and 86 pesticides and pesticide degradation products in streams, during high- and low-flow conditions, receiving runoff from urban, agricultural, forested, and mixed-use lands. Although most nutrient and pesticide concentrations were relatively low, some concentrations exceeded maximum contaminant levels for drinking water and water-quality criteria for chronic toxicity established for the protection of freshwater aquatic life. The largest number of exceedances generally occurred at sites receiving predominantly agricultural inputs. Total nitrogen, filtered nitrite plus nitrate, total phosphorus, and soluble reactive phosphorus concentrations were detected in 89 to 98 percent of the samples; atrazine, simazine, metolachlor, and desethylatrazine were detected in 72 to 94 percent of the samples. Fifty different pesticides and degradation products was detected during the 2-1/2 year study.Seasonally, peak nutrient and pesticide concentrations at the seven primary sites were observed during winter and spring rains. With the exception of soluble reactive phosphorus, peak nutrient concentrations were recorded at agricultural sites during winter rains, whereas peak pesticide concentrations occurred at agricultural sites during spring rains.Spatially, although nutrients were detected slightly more often in samples from the northern Willamette Basin relative to the southern Willamette Basin, concentration distributions in the two areas were similar. About 75 percent more pesticides were detected in the northern basin; however, two-thirds of the pesticide detections in the southern basin were larger in concentration than for the same pesticides detected in the northern basin.Nutrient and pesticide concentrations were associated with percent of upstream drainage area in forest, urbanization, and agriculture. Nutrient concentrations at forested sites were among the smallest observed at any of the sites sampled. In addition, only one pesticide and one pesticide degradation product were detected at forested sites, at concentrations near the method detection limits. The highest nutrient concentrations were observed at agricultural sites. Further, the largest numbers of different pesticides detected were at agricultural sites, at concentrations generally larger than at most other land-use sites. Three pesticides--dichlobenil, prometon, and tebuthiuron--were detected more frequently at a site receiving predominantly urban inputs.

Groundwater-quality data in the Klamath Mountains study unit, 2010: results from the California GAMA Program

USGS Publications Warehouse

Mathany, Timothy M.; Belitz, Kenneth

2014-01-01

Groundwater quality in the 8,806-square-mile Klamath Mountains (KLAM) study unit was investigated by the U.S. Geological Survey (USGS) from October to December 2010, as part of the California State Water Resources Control Board (SWRCB) Groundwater Ambient Monitoring and Assessment (GAMA) Program’s Priority Basin Project (PBP). The GAMA-PBP was developed in response to the California Groundwater Quality Monitoring Act of 2001 and is being conducted in collaboration with the SWRCB and Lawrence Livermore National Laboratory (LLNL). The KLAM study unit was the thirty-third study unit to be sampled as part of the GAMA-PBP. The GAMA Klamath Mountains study was designed to provide a spatially unbiased assessment of untreated-groundwater quality in the primary aquifer system and to facilitate statistically consistent comparisons of untreated-groundwater quality throughout California. The primary aquifer system is defined by the perforation intervals of wells listed in the California Department of Public Health (CDPH) database for the KLAM study unit. Groundwater quality in the primary aquifer system may differ from the quality in the shallower or deeper water-bearing zones; shallower groundwater may be more vulnerable to surficial contamination. In the KLAM study unit, groundwater samples were collected from sites in Del Norte, Siskiyou, Humboldt, Trinity, Tehama, and Shasta Counties, California. Of the 39 sites sampled, 38 were selected by using a spatially distributed, randomized grid-based method to provide statistical representation of the primary aquifer system in the study unit (grid sites), and the remaining site was non-randomized (understanding site). The groundwater samples were analyzed for basic field parameters, organic constituents (volatile organic compounds [VOCs] and pesticides and pesticide degradates), inorganic constituents (trace elements, nutrients, major and minor ions, total dissolved solids [TDS]), radon-222, gross alpha and gross beta radioactivity, and microbial indicators (total coliform and Escherichia coli [E. coli]). Isotopic tracers (stable isotopes of hydrogen and oxygen in water, isotopic ratios of dissolved strontium in water, and stable isotopes of carbon in dissolved inorganic carbon), dissolved noble gases, and age-dating tracers (tritium and carbon-14) were measured to help identify sources and ages of sampled groundwater. Quality-control samples (field blanks, replicate sample pairs, and matrix spikes) were collected at 13 percent of the sites in the KLAM study unit, and the results were used to evaluate the quality of the data from the groundwater samples. Field blank samples rarely contained detectable concentrations of any constituent, indicating that contamination from sample collection or analysis was not a significant source of bias in the data for the groundwater samples. More than 99 percent of the replicate pair samples were within acceptable limits of variability. Matrix-spike sample recoveries were within the acceptable range (70 to 130 percent) for approximately 91 percent of the compounds. This study did not evaluate the quality of water delivered to consumers. After withdrawal, groundwater typically is treated, disinfected, and (or) blended with other waters to maintain water quality. Regulatory benchmarks apply to water that is delivered to the consumer, not to untreated groundwater. However, to provide some context for the results, concentrations of constituents measured in the untreated groundwater were compared with regulatory and non-regulatory health-based benchmarks established by the U.S. Environmental Protection Agency (USEPA) and CDPH, and to non-health-based benchmarks established for aesthetic concerns by the CDPH. Comparisons between data collected for this study and benchmarks for drinking water are for illustrative purposes only and are not indicative of compliance or non-compliance with those benchmarks. All concentrations of organic constituents from grid sites sampled in the KLAM study unit were less than health-based benchmarks. In total, VOCs were detected in 16 of the 38 grid sites sampled (approximately 42 percent), pesticides and pesticide degradates were detected in 8 grid sites (about 21 percent), and microbial indicators were detected in 14 grid sites (approximately 37 percent). Inorganic constituents (trace elements, major and minor ions, nutrients, and uranium and other radioactive constituents) and microbial indicators were sampled for at 38 grid sites, and all concentrations were less than health-based benchmarks, with the exception of one detection of boron greater than the CDPH notification level of 1,000 micrograms per liter (μg/L). Generally, concentrations of inorganic constituents with non-health-based benchmarks (iron, manganese, chloride, and TDS) were less than the CDPH secondary maximum contaminant level (SMCL-CA). Exceptions include three detections of iron greater than the SMCL-CA of 300 μg/L, four detections of manganese greater than the SMCL-CA of 50 μg/L, one detection of chloride greater than the recommended SMCL-CA of 250 μg/L, and one detection of TDS greater than the recommended SMCL-CA of 500 μg/L.

Genome-wide analysis of AR binding and comparison with transcript expression in primary human fetal prostate fibroblasts and cancer associated fibroblasts.

PubMed

Nash, Claire; Boufaied, Nadia; Mills, Ian G; Franco, Omar E; Hayward, Simon W; Thomson, Axel A

2017-05-05

The androgen receptor (AR) is a transcription factor, and key regulator of prostate development and cancer, which has discrete functions in stromal versus epithelial cells. AR expressed in mesenchyme is necessary and sufficient for prostate development while loss of stromal AR is predictive of prostate cancer progression. Many studies have characterized genome-wide binding of AR in prostate tumour cells but none have used primary mesenchyme or stroma. We applied ChIPseq to identify genomic AR binding sites in primary human fetal prostate fibroblasts and patient derived cancer associated fibroblasts, as well as the WPMY1 cell line overexpressing AR. We identified AR binding sites that were specific to fetal prostate fibroblasts (7534), cancer fibroblasts (629), WPMY1-AR (2561) as well as those common among all (783). Primary fibroblasts had a distinct AR binding profile versus prostate cancer cell lines and tissue, and showed a localisation to gene promoter binding sites 1 kb upstream of the transcriptional start site, as well as non-classical AR binding sequence motifs. We used RNAseq to define transcribed genes associated with AR binding sites and derived cistromes for embryonic and cancer fibroblasts as well as a cistrome common to both. These were compared to several in vivo ChIPseq and transcript expression datasets; which identified subsets of AR targets that were expressed in vivo and regulated by androgens. This analysis enabled us to deconvolute stromal AR targets active in stroma within tumour samples. Taken together, our data suggest that the AR shows significantly different genomic binding site locations in primary prostate fibroblasts compared to that observed in tumour cells. Validation of our AR binding site data with transcript expression in vitro and in vivo suggests that the AR target genes we have identified in primary fibroblasts may contribute to clinically significant and biologically important AR-regulated changes in prostate tissue. Copyright © 2017. Published by Elsevier B.V.

Utilizing management zones for Rotylenchulus reniformis in Cotton: Effects on nematode levels, crop damage, and Pasteuria sp.

USDA-ARS?s Scientific Manuscript database

The effect of soil texture on nematode levels is the primary basis for site-specific nematode management. Management zones (MZs) are sampled independently and decisions are based on those sample results. MZs based on soil electrical conductivity (EC, a proxy for soil texture) have not been tested ...

Transcriptional profile of fibroblasts obtained from the primary site, lymph node and bone marrow of breast cancer patients.

PubMed

Del Valle, Paulo Roberto; Milani, Cintia; Brentani, Maria Mitzi; Katayama, Maria Lucia Hirata; de Lyra, Eduardo Carneiro; Carraro, Dirce Maria; Brentani, Helena; Puga, Renato; Lima, Leandro A; Rozenchan, Patricia Bortman; Nunes, Bárbara Dos Santos; Góes, João Carlos Guedes Sampaio; Azevedo Koike Folgueira, Maria Aparecida

2014-09-01

Cancer-associated fibroblasts (CAF) influence tumor development at primary as well as in metastatic sites, but there have been no direct comparisons of the transcriptional profiles of stromal cells from different tumor sites. In this study, we used customized cDNA microarrays to compare the gene expression profile of stromal cells from primary tumor (CAF, n = 4), lymph node metastasis (N+, n = 3) and bone marrow (BM, n = 4) obtained from breast cancer patients. Biological validation was done in another 16 samples by RT-qPCR. Differences between CAF vs N+, CAF vs BM and N+ vs BM were represented by 20, 235 and 245 genes, respectively (SAM test, FDR < 0.01). Functional analysis revealed that genes related to development and morphogenesis were overrepresented. In a biological validation set, NOTCH2 was confirmed to be more expressed in N+ (vs CAF) and ADCY2, HECTD1, HNMT, LOX, MACF1, SLC1A3 and USP16 more expressed in BM (vs CAF). Only small differences were observed in the transcriptional profiles of fibroblasts from the primary tumor and lymph node of breast cancer patients, whereas greater differences were observed between bone marrow stromal cells and the other two sites. These differences may reflect the activities of distinct differentiation programs.

Transcriptional profile of fibroblasts obtained from the primary site, lymph node and bone marrow of breast cancer patients

PubMed Central

Del Valle, Paulo Roberto; Milani, Cintia; Brentani, Maria Mitzi; Katayama, Maria Lucia Hirata; de Lyra, Eduardo Carneiro; Carraro, Dirce Maria; Brentani, Helena; Puga, Renato; Lima, Leandro A.; Rozenchan, Patricia Bortman; Nunes, Bárbara dos Santos; Góes, João Carlos Guedes Sampaio; Azevedo Koike Folgueira, Maria Aparecida

2014-01-01

Cancer-associated fibroblasts (CAF) influence tumor development at primary as well as in metastatic sites, but there have been no direct comparisons of the transcriptional profiles of stromal cells from different tumor sites. In this study, we used customized cDNA microarrays to compare the gene expression profile of stromal cells from primary tumor (CAF, n = 4), lymph node metastasis (N+, n = 3) and bone marrow (BM, n = 4) obtained from breast cancer patients. Biological validation was done in another 16 samples by RT-qPCR. Differences between CAF vs N+, CAF vs BM and N+ vs BM were represented by 20, 235 and 245 genes, respectively (SAM test, FDR < 0.01). Functional analysis revealed that genes related to development and morphogenesis were overrepresented. In a biological validation set, NOTCH2 was confirmed to be more expressed in N+ (vs CAF) and ADCY2, HECTD1, HNMT, LOX, MACF1, SLC1A3 and USP16 more expressed in BM (vs CAF). Only small differences were observed in the transcriptional profiles of fibroblasts from the primary tumor and lymph node of breast cancer patients, whereas greater differences were observed between bone marrow stromal cells and the other two sites. These differences may reflect the activities of distinct differentiation programs. PMID:25249769

A model and nomogram to predict tumor site origin for squamous cell cancer confined to cervical lymph nodes.

PubMed

Ali, Arif N; Switchenko, Jeffrey M; Kim, Sungjin; Kowalski, Jeanne; El-Deiry, Mark W; Beitler, Jonathan J

2014-11-15

The current study was conducted to develop a multifactorial statistical model to predict the specific head and neck (H&N) tumor site origin in cases of squamous cell carcinoma confined to the cervical lymph nodes ("unknown primaries"). The Surveillance, Epidemiology, and End Results (SEER) database was analyzed for patients with an H&N tumor site who were diagnosed between 2004 and 2011. The SEER patients were identified according to their H&N primary tumor site and clinically positive cervical lymph node levels at the time of presentation. The SEER patient data set was randomly divided into 2 data sets for the purposes of internal split-sample validation. The effects of cervical lymph node levels, age, race, and sex on H&N primary tumor site were examined using univariate and multivariate analyses. Multivariate logistic regression models and an associated set of nomograms were developed based on relevant factors to provide probabilities of tumor site origin. Analysis of the SEER database identified 20,011 patients with H&N disease with both site-level and lymph node-level data. Sex, race, age, and lymph node levels were associated with primary H&N tumor site (nasopharynx, hypopharynx, oropharynx, and larynx) in the multivariate models. Internal validation techniques affirmed the accuracy of these models on separate data. The incorporation of epidemiologic and lymph node data into a predictive model has the potential to provide valuable guidance to clinicians in the treatment of patients with squamous cell carcinoma confined to the cervical lymph nodes. © 2014 The Authors. Cancer published by Wiley Periodicals, Inc. on behalf of American Cancer Society.

Major- and Trace-Element Concentrations in Soils from Two Geochemical Surveys (1972 and 2005) of the Denver, Colorado, Metropolitan Area

USGS Publications Warehouse

Kilburn, James E.; Smith, David B.; Closs, L. Graham; Smith, Steven M.

2007-01-01

Introduction This report contains major- and trace-element concentration data for soil samples collected in 1972 and 2005 from the Denver, Colorado, metropolitan area. A total of 405 sites were sampled in the 1972 study from an area approximately bounded by the suburbs of Golden, Thornton, Aurora, and Littleton to the west, north, east, and south, respectively. This data set included 34 duplicate samples collected in the immediate vicinity of the primary sample. In 2005, a total of 464 sites together with 34 duplicates were sampled from the same approximate localities sampled in 1972 as well as additional sites in east Aurora and the area surrounding the Rocky Mountain Arsenal. Sample density for both surveys was on the order of 1 site per square mile. At each site, sample material was collected from a depth of 0-5 inches. Each sample collected was analyzed for near-total major- and trace-element composition by the following methods: (1) inductively coupled plasma-mass spectrometry (ICP-MS) and inductively coupled plasma-atomic emission spectrometry (ICP-AES) for aluminum, antimony, arsenic, barium, beryllium, bismuth, cadmium, calcium, cerium, cesium, chromium, cobalt, copper, gallium, indium, iron, lanthanum, lead, lithium, magnesium, manganese, molybdenum, nickel, niobium, phosphorus, potassium, rubidium, scandium, silver, sodium, strontium, sulfur, tellurium, thallium, thorium, tin, titanium, tungsten, uranium, vanadium, yttrium, and zinc; and (2) hydride generation-atomic absorption spectrometry for selenium. The samples collected in 2005 were also analyzed by a cold vapor-atomic absorption method for mercury. This report makes available the analytical results of these studies.

Hydrological characterization of cave drip waters in a porous limestone: Golgotha Cave, Western Australia

NASA Astrophysics Data System (ADS)

Mahmud, Kashif; Mariethoz, Gregoire; Baker, Andy; Treble, Pauline C.

2018-02-01

Cave drip water response to surface meteorological conditions is complex due to the heterogeneity of water movement in the karst unsaturated zone. Previous studies have focused on the monitoring of fractured rock limestones that have little or no primary porosity. In this study, we aim to further understand infiltration water hydrology in the Tamala Limestone of SW Australia, which is Quaternary aeolianite with primary porosity. We build on our previous studies of the Golgotha Cave system and utilize the existing spatial survey of 29 automated cave drip loggers and a lidar-based flow classification scheme, conducted in the two main chambers of this cave. We find that a daily sampling frequency at our cave site optimizes the capture of drip variability with the least possible sampling artifacts. With the optimum sampling frequency, most of the drip sites show persistent autocorrelation for at least a month, typically much longer, indicating ample storage of water feeding all stalactites investigated. Drip discharge histograms are highly variable, showing sometimes multimodal distributions. Histogram skewness is shown to relate to the wetter-than-average 2013 hydrological year and modality is affected by seasonality. The hydrological classification scheme with respect to mean discharge and the flow variation can distinguish between groundwater flow types in limestones with primary porosity, and the technique could be used to characterize different karst flow paths when high-frequency automated drip logger data are available. We observe little difference in the coefficient of variation (COV) between flow classification types, probably reflecting the ample storage due to the dominance of primary porosity at this cave site. Moreover, we do not find any relationship between drip variability and discharge within similar flow type. Finally, a combination of multidimensional scaling (MDS) and clustering by k means is used to classify similar drip types based on time series analysis. This clustering reveals four unique drip regimes which agree with previous flow type classification for this site. It highlights a spatial homogeneity in drip types in one cave chamber, and spatial heterogeneity in the other, which is in agreement with our understanding of cave chamber morphology and lithology.

National benthic surveillance project: Pacific coast. Fish histopathology and relationships between toxicopathic lesions and exposure to chemical contaminants for cycles 1 to 5 (1984-88). Technical memo

DOE Office of Scientific and Technical Information (OSTI.GOV)

Myers, M.S.; Stehr, C.M.; Olson, O.P.

1993-02-01

The report presents and interprets the results of histopathology studies conducted on 17 species of bottomfish captured at 45 sites between 1984 and 1988 as part of the Pacific Coast portion of the National Benthic Surveillance Program (NBSP) in conjunction with NOAA's National Status and Trends Program (NS T). The location of sampling sites ranged from Prudhoe Bay in Alaska to San Diego Bay in California, and incorporated sites. Twenty-three were located in or near urban embayments, and the 22 remaining sites were in nonurban embayments, five of which served as comparison or reference sites on the basis of minimalmore » levels of sediment contaminants detected (Kamishak Bay, AK; Nisqually Reach, WA; and Bodega Bay, Dana Point, and outer Mission Bay, CA). These comparison sites were selected so that the same fish species could be collected from minimally contaminated environments as opposed to those obtained at urban or more contaminated sites. Six primary target species were identified for statistical analyses that examined the relationships between occurrence of particular toxicopathic diseases or lesions in the liver and kidney and levels of potential or actual exposure to contaminants. These species were selected because they were broadly distributed geographically and were abundant among the sampling sites, they had previously documented significant prevalences of contaminant-associated diseases, or the geographic distribution of similar diseases among the sites suggested an association with contaminant exposure. These primary target species were flathead sole, English sole, starry flounder, hornyhead turbot, white croaker, and black croaker. All specimens were examined for the presence of necrotic, sclerotic and proliferative lesions in the kidney, as well as lesions.« less

Using Tree-Rings and Remote Sensing to Investigate Forest Productivity Response to Landscape Fragmentation in Northeastern Algeria

NASA Astrophysics Data System (ADS)

Rouini, N.; Lepley, K. S.; Messaoudene, M.

2017-12-01

Remote sensing and dendrochronology are valuable tools in the face of climate change and land use change, yet the connection between these resources remains largely unexploited. Research on forest fragmentation is mainly focused on animal groups, while our work focuses on tree communities. We link tree-rings and remotely-sensed Normalized Difference Vegetation Index (NDVI) using seasonal correlation analysis to investigate forest primary productivity response to fragmentation. Tree core samples from Quercus afares have been taken from two sites within the Guerrouche Forest in northeastern Algeria. The first site is located within a very fragmented area while the second site is intact. Fragmentation is estimated to have occurred with the construction of a road in 1930. We find raw tree-ring width chronologies from each site reveal growth release in the disturbed site after 1930. The means of each chronology for the 1930 to 2016 period are statistically different (p < 0.01). Based on these preliminary results we hypothesize that reconstructed primary productivity (NDVI) will be higher in the fragmented site after fragmentation took place.

Fipronil: Toxicity to subterranean termites and dissipation in soils

Treesearch

J. E. Mulrooney; T. L. Wagner; P. D. Gerard

2009-01-01

Fipronil (Termidor 80 WG) was applied to covered and exposed plots at one secondary and four primary USDA Forest Service termiticide test sites in the U.S. Residue analyses and bioassays of soil samples were conducted over 5 y.

NEEMO 20: Science Training, Operations, and Tool Development

NASA Technical Reports Server (NTRS)

Graff, T.; Miller, M.; Rodriguez-Lanetty, M.; Chappell, S.; Naids, A.; Hood, A.; Coan, D.; Abell, P.; Reagan, M.; Janoiko, B.

2016-01-01

The 20th mission of the National Aeronautics and Space Administration (NASA) Extreme Environment Mission Operations (NEEMO) was a highly integrated evaluation of operational protocols and tools designed to enable future exploration beyond low-Earth orbit. NEEMO 20 was conducted from the Aquarius habitat off the coast of Key Largo, FL in July 2015. The habitat and its surroundings provide a convincing analog for space exploration. A crew of six (comprised of astronauts, engineers, and habitat technicians) lived and worked in and around the unique underwater laboratory over a mission duration of 14-days. Incorporated into NEEMO 20 was a diverse Science Team (ST) comprised of geoscientists from the Astromaterials Research and Exploration Science (ARES/XI) Division from the Johnson Space Center (JSC), as well as marine scientists from the Department of Biological Sciences at Florida International University (FIU). This team trained the crew on the science to be conducted, defined sampling techniques and operational procedures, and planned and coordinated the science focused Extra Vehicular Activities (EVAs). The primary science objectives of NEEMO 20 was to study planetary sampling techniques and tools in partial gravity environments under realistic mission communication time delays and operational pressures. To facilitate these objectives two types of science sites were employed 1) geoscience sites with available rocks and regolith for testing sampling procedures and tools and, 2) marine science sites dedicated to specific research focused on assessing the photosynthetic capability of corals and their genetic connectivity between deep and shallow reefs. These marine sites and associated research objectives included deployment of handheld instrumentation, context descriptions, imaging, and sampling; thus acted as a suitable proxy for planetary surface exploration activities. This abstract briefly summarizes the scientific training, scientific operations, and tool development conducted during NEEMO 20 with an emphasis on the primary lessons learned.

Atmospheric Methyl Chloride

DOE Data Explorer

Khalil, M. A. K. [Portland State Univ., Portland, OR (United States); Rasmussen, R. A. [Oregon Graduate Institute, Portland, OR (USA)

1999-01-01

This data set provides monthly average concentrations of atmospheric methyl chloride taken from seven locations distributed among the polar, middle, and tropical latitudes of both hemispheres. The seven primary sites include Pt. Barrow, Alaska; Cape Kumukahi and Mauna Loa, Hawaii; Cape Matatula, Samoa; Cape Grim, Tasmania; and the South Pole and Palmer Station, Antarctica. Concentration measurements from these seven sites cover a period of 16 years, extending from 1981-1997. Monthly data taken between 1987-1989 from 20 short-term sites and vertical distribution measured at various latitudes are also provided. Air samples were collected from various sites in stainless steel flasks and methyl chloride concentrations were measured using an Electron Capture Gas Chromatograph. Concentrations are reported as mixing ratios in dry air. The concentrations are determined by using a set of calibration standards that are referenced against a primary standard which is also used to establish the absolute concentration. The primary standards were prepared by the investigators in the absence of an available standard from a centralized location. The data are useful in global methyl chloride budget analyses and for determining the atmospheric distribution and trends of methyl chloride and estimating the total emissions at various latitudes.

Long-term Monitoring Program Optimization for Chlorinated Volatile Organic Compound Plume, Naval Air Station Brunswick, Maine

NASA Astrophysics Data System (ADS)

Calderone, G. M.

2006-12-01

A long-term monitoring program was initiated in 1995 at 6 sites at NAS Brunswick, including 3 National Priorities List (Superfund) sites. Primary contaminants of concern include chlorinated volatile organic compounds, including tetrachloroethane, trichloroethene, and vinyl chloride, in addition to metals. More than 80 submersible pumping systems were installed to facilitate sample collection utilizing the low-flow sampling technique. Long-term monitoring of the groundwater is conducted to assess the effectiveness of remedial measures, and monitor changes in contaminant concentrations in the Eastern Plume Operable Unit. Long-term monitoring program activities include quarterly groundwater sampling and analysis at more than 90 wells across 6 sites; surface water, sediment, seep, and leachate sampling and analysis at 3 sites; landfill gas monitoring; well maintenance; engineering inspections of landfill covers and other sites or evidence of stressed vegetation; water level gauging; and treatment plant sampling and analysis. Significant cost savings were achieved by optimizing the sampling network and reducing sampling frequency from quarterly to semi- annual or annual sampling. As part of an ongoing optimization effort, a geostatistical assessment of the Eastern Plume was conducted at the Naval Air Station, Brunswick, Maine. The geostatistical assessment used 40 monitoring points and analytical data collected over 3 years. For this geostatistical assessment, EA developed and utilized a database of analytical results generated during 3 years of long-term monitoring which was linked to a Geographic Information System to enhance data visualization capacity. The Geographic Information System included themes for groundwater volatile organic compound concentration, groundwater flow directions, shallow and deep wells, and immediate access to point-specific analytical results. This statistical analysis has been used by the site decision-maker and its conclusions supported a significant reduction in the Long-Term Monitoring Program.

Sources of primary and secondary organic aerosol and their diurnal variations.

PubMed

Zheng, Mei; Zhao, Xiuying; Cheng, Yuan; Yan, Caiqing; Shi, Wenyan; Zhang, Xiaolu; Weber, Rodney J; Schauer, James J; Wang, Xinming; Edgerton, Eric S

2014-01-15

PM(2.5), as one of the criteria pollutants regulated in the U.S. and other countries due to its adverse health impacts, contains more than hundreds of organic pollutants with different sources and formation mechanisms. Daytime and nighttime PM2.5 samples from the August Mini-Intensive Gas and Aerosol Campaign (AMIGAS) in the southeastern U.S. were collected during summer 2008 at one urban site and one rural site, and were analyzed for organic carbon (OC), elemental carbon (EC), water soluble organic carbon (WSOC), and various individual organic compounds including some important tracers for carbonaceous aerosol sources by gas chromatography-mass spectrometry. Most samples exhibited higher daytime OC concentration, while higher nighttime OC was found in a few events at the urban site. Sources, formation mechanisms and composition of organic aerosol are complicated and results of this study showed that it exhibited distinct diurnal variations. With detailed organic tracer information, sources contributing to particulate OC were identified: higher nighttime OC concentration occurring in several occasions was mainly contributed by the increasing primary emissions at night, especially diesel exhaust and biomass burning; whereas sources responsible for higher daytime OC concentration included secondary organic aerosol (SOA) formation (e.g., cis-pinonic acid and non-biomass burning WSOC) together with traffic emissions especially gasoline engine exhaust. Primary tracers from combustion related sources such as EC, polycyclic aromatic hydrocarbons, and hopanes and steranes were significantly higher at the urban site with an urban to rural ratio between 5 and 8. However, this urban-rural difference for secondary components was less significant, indicating a relatively homogeneous distribution of SOA spatially. We found cholesterol concentrations, a typical tracer for meat cooking, were consistently higher at the rural site especially during the daytime, suggesting the likely additional sources for this tracer at rural site and that it should be used with caution as meat cooking tracer in rural areas in the future. Copyright © 2013 Elsevier B.V. All rights reserved.

Ambient concentrations and insights on organic and elemental carbon dynamics in São Paulo, Brazil

NASA Astrophysics Data System (ADS)

Monteiro dos Santos, Djacinto A.; Brito, Joel F.; Godoy, José Marcus; Artaxo, Paulo

2016-11-01

The São Paulo Metropolitan Area (SPMA) is a megacity with about 20 million people and about 8 million vehicles, most of which are fueled with a significant fraction of ethanol - making it a unique case worldwide. This study presents organic and elemental carbon measurements using thermal-optical analysis from quartz filters collected in four sampling sites within the SPMA. Overall Organic Carbon (OC) concentration was comparable at all sites, where Street Canyon had the highest concentration (3.37 μg m-3) and Park site the lowest (2.65 μg m-3). Elemental Carbon (EC), emitted as result of incomplete combustion, has been significantly higher at the Street Canyon site (6.11 μg m-3) in contrast to all other three sites, ranging from 2.25 μg m-3 (Downtown) to 1.50 μg m-3 (Park). For all sampling sites, the average OC:EC ratio are found on the lower bound (<2) of what is usually observed for other megacities, highlighting the significant contribution of EC in Sao Paulo. At the Street Canyon site, average OC:EC ratio was 0.56, to our knowledge the lowest value ever observed for any urban site. An approach for apportionment between primary and secondary organic carbon based on primary OC:EC ratio was evaluated. The secondary OC was estimated to be 30-40% of total OC concentrations throughout the various sampling sites. The organic carbon dynamics has been further studied using each of the thermally-derived organic carbon fractions. Each of these has been studied regarding their correlation with EC and the correlation between different sites. The analyses have identified that the OC3 and OC4, i.e., the carbon fraction which evolves from the filter at temperatures above 450 °C, presents a regional behavior, with high correlation among all sites. Conversely, OC1, the first fraction to evolve, has depicted a more local characteristic. Furthermore, the fraction of OC which becomes char during the temperature increase under inert atmosphere (the Pyrolytic Carbon-PC) has been the only fraction not to present a significant correlation with EC. Since that EC is assumed to be a primary emission marker, it indicates that PC is not significant in traffic emissions. This study provided innovative insights of the organic aerosol content associated with air pollution dynamics in a megacity impacted by a unique vehicular fleet. It also shows the need of implementation of EURO VI technology and to improve mass transport systems such a metro and more bus corridors to allow better transport for 19 million people in the SPMA.

Groundwater arsenic in Chimaltenango, Guatemala.

PubMed

Lotter, Jason T; Lacey, Steven E; Lopez, Ramon; Socoy Set, Genaro; Khodadoust, Amid P; Erdal, Serap

2014-09-01

In the Municipality of Chimaltenango, Guatemala, we sampled groundwater for total inorganic arsenic. In total, 42 samples were collected from 27 (43.5%) of the 62 wells in the municipality, with sites chosen to achieve spatial representation throughout the municipality. Samples were collected from household faucets used for drinking water, and sent to the USA for analysis. The only site found to have a concentration above the 10 μg/L World Health Organization provisional guideline for arsenic in drinking water was Cerro Alto, where the average concentration was 47.5 μg/L. A health risk assessment based on the arsenic levels found in Cerro Alto showed an increase in noncarcinogenic and carcinogenic risks for residents as a result of consuming groundwater as their primary drinking water source. Using data from the US Geological Survey and our global positioning system data of the sample locations, we found Cerro Alto to be the only site sampled within the tertiary volcanic rock layer, a known source of naturally occurring arsenic. Recommendations were made to reduce the levels of arsenic found in the community's drinking water so that the health risks can be managed.

Seismic and chronostratigraphic results from SHALDRIL II, northwestern Weddell Sea

USGS Publications Warehouse

Anderson, J.B.; Wellner, J.; Wise, S.; Bohaty, S.; Manley, P.; Smith, T.; Weaver, F.; Kulhanek, D.

2007-01-01

The 2006 SHALDRIL II cruise was conducted in the northwestern Weddell Sea, with primary drilling targets in the James Ross Basin. A site drilled along the northern edge of the James Ross Basin sampled either latest Eocene or earliest Oligocene deposits, providing a lower chronostratigraphic benchmark for our seismic stratigraphic age model. Severe sea ice conditions forced abandonment of several of the James Ross Basin sites. Three alternate sites were drilled along the southern flank of the Joinville Plateau. Seismic data from the area show a thick, southward dipping stratigraphic succession with no conspicuous gaps. Three drill sites sampled this succession and recovered Oligocene, middle Miocene, and early Pliocene strata overlain by a thin drape of Pleistocene deposits. The Pliocene-Miocene boundary appears to be represented by a disconformity within the cored interval. Otherwise, this is one of the most complete post-Eocene successions anywhere on Antarctica and its adjacent margins

Summary environmental site assessment report for the U.S. Department of Energy Oxnard Facility, Oxnard, California

DOE Office of Scientific and Technical Information (OSTI.GOV)

NONE

1996-02-01

This report summarizes the investigations conducted by Rust Geotech at the U.S. Department of Energy (DOE) Oxnard facility, 1235 East Wooley Road, Oxnard, California. These investigations were designed to locate, identify, and characterize any regulated contaminated media on the site. The effort included site visits; research of ownership, historical uses of the Oxnard facility and adjacent properties, incidences of and investigations for contaminants on adjacent properties, and the physical setting of the site; sampling and analysis; and reporting. These investigations identified two friable asbestos gaskets on the site, which were removed, and nonfriable asbestos, which will be managed through themore » implementation of an asbestos management plan. The California primary drinking water standards were exceeded for aluminum on two groundwater samples and for lead in one sample collected from the shallow aquifer underlying the site; remediation of the groundwater in this aquifer is not warranted because it is not used. Treated water is available from a municipal water system. Three sludge samples indicated elevated heavy metals concentrations; the sludge must be handled as a hazardous waste if disposed. Polychlorinated biphenyls (PCBs) were detected at concentrations below remediation criteria in facility soils at two locations. In accordance with U.S. Environmental Protection Agency (EPA) and State of California guidance, remediation of the PCBs is not required. No other hazardous substances were detected in concentrations exceeding regulatory limits.« less

Co-evolution of somatic variation in primary and metastatic colorectal cancer may expand biopsy indications in the molecular era.

PubMed

Kim, Richard; Schell, Michael J; Teer, Jamie K; Greenawalt, Danielle M; Yang, Mingli; Yeatman, Timothy J

2015-01-01

Metastasis is thought to be a clonal event whereby a single cell initiates the development of a new tumor at a distant site. However the degree to which primary and metastatic tumors differ on a molecular level remains unclear. To further evaluate these concepts, we used next generation sequencing (NGS) to assess the molecular composition of paired primary and metastatic colorectal cancer tissue specimens. 468 colorectal tumor samples from a large personalized medicine initiative were assessed by targeted gene sequencing of 1,321 individual genes. Eighteen patients produced genomic profiles for 17 paired primary:metastatic (and 2 metastatic:metastatic) specimens. An average of 33.3 mutations/tumor were concordant (shared) between matched samples, including common well-known genes (APC, KRAS, TP53). An average of 2.3 mutations/tumor were discordant (unshared) among paired sites. KRAS mutational status was always concordant. The overall concordance rate for mutations was 93.5%; however, nearly all (18/19 (94.7%)) paired tumors showed at least one mutational discordance. Mutations were seen in: TTN, the largest gene (5 discordant pairs), ADAMTS20, APC, MACF1, RASA1, TP53, and WNT2 (2 discordant pairs), SMAD2, SMAD3, SMAD4, FBXW7, and 66 others (1 discordant pair). Whereas primary and metastatic tumors displayed little variance overall, co-evolution produced incremental mutations in both. These results suggest that while biopsy of the primary tumor alone is likely sufficient in the chemotherapy-naïve patient, additional biopsies of primary or metastatic disease may be necessary to precisely tailor therapy following chemotherapy resistance or insensitivity in order to adequately account for tumor evolution.

Co-Evolution of Somatic Variation in Primary and Metastatic Colorectal Cancer May Expand Biopsy Indications in the Molecular Era

PubMed Central

Kim, Richard; Schell, Michael J.; Teer, Jamie K.; Greenawalt, Danielle M.; Yang, Mingli; Yeatman, Timothy J.

2015-01-01

Introduction Metastasis is thought to be a clonal event whereby a single cell initiates the development of a new tumor at a distant site. However the degree to which primary and metastatic tumors differ on a molecular level remains unclear. To further evaluate these concepts, we used next generation sequencing (NGS) to assess the molecular composition of paired primary and metastatic colorectal cancer tissue specimens. Methods 468 colorectal tumor samples from a large personalized medicine initiative were assessed by targeted gene sequencing of 1,321 individual genes. Eighteen patients produced genomic profiles for 17 paired primary:metastatic (and 2 metastatic:metastatic) specimens. Results An average of 33.3 mutations/tumor were concordant (shared) between matched samples, including common well-known genes (APC, KRAS, TP53). An average of 2.3 mutations/tumor were discordant (unshared) among paired sites. KRAS mutational status was always concordant. The overall concordance rate for mutations was 93.5%; however, nearly all (18/19 (94.7%)) paired tumors showed at least one mutational discordance. Mutations were seen in: TTN, the largest gene (5 discordant pairs), ADAMTS20, APC, MACF1, RASA1, TP53, and WNT2 (2 discordant pairs), SMAD2, SMAD3, SMAD4, FBXW7, and 66 others (1 discordant pair). Conclusions Whereas primary and metastatic tumors displayed little variance overall, co-evolution produced incremental mutations in both. These results suggest that while biopsy of the primary tumor alone is likely sufficient in the chemotherapy-naïve patient, additional biopsies of primary or metastatic disease may be necessary to precisely tailor therapy following chemotherapy resistance or insensitivity in order to adequately account for tumor evolution. PMID:25974029

Effectiveness of seining after electrofishing to characterize stream fish communities

USGS Publications Warehouse

Meador, Michael R.

2012-01-01

The richness and composition of species collected uniquely to electrofishing and subsequent seining efforts were examined at 271 stream sites across the USA by using wadeable electrofishing methods (backpack or barge electrofishing) or boat electrofishing followed by seining. Seining after wadeable electrofishing resulted in the collection of new species at 42% of sites, whereas seining after boat electrofishing resulted in the collection of new species at 87% of sites. Mean percentage of total observed fish species richness that was collected uniquely by seining was 6% (representing one new species, on average) after wadeable electrofishing compared with 18% (four new species, on average) after boat electrofishing. Shannon–Wiener diversity index values were not significantly different between data from combined sampling (electrofishing and seining) and data from wadeable electrofishing (P = 0.490) but were significantly different between boat electrofishing and combined sampling (P = 0.004). Seining efforts after boat electrofishing can provide critical information that allows for a more complete characterization of the fish community. For sampling in wadeable streams, decisions regarding the use of seines should consider the effectiveness of electrofishing at a given site and the use of seines as an alternative primary sampling gear rather than as a supplement to electrofishing.

Waste Sampling & Characterization Facility (WSCF) Complex Safety Analysis

DOE Office of Scientific and Technical Information (OSTI.GOV)

MELOY, R.T.

2002-04-01

This document was prepared to analyze the Waste Sampling and Characterization Facility for safety consequences by: Determining radionuclide and highly hazardous chemical inventories; Comparing these inventories to the appropriate regulatory limits; Documenting the compliance status with respect to these limits; and Identifying the administrative controls necessary to maintain this status. The primary purpose of the Waste Sampling and Characterization Facility (WSCF) is to perform low-level radiological and chemical analyses on various types of samples taken from the Hanford Site. These analyses will support the fulfillment of federal, Washington State, and Department of Energy requirements.

Legacy of a Chemical Factory Site: Contaminated Groundwater Impacts Stream Macroinvertebrates.

PubMed

Rasmussen, Jes J; McKnight, Ursula S; Sonne, Anne Th; Wiberg-Larsen, Peter; Bjerg, Poul L

2016-02-01

Legislative and managing entities of EU member states face a comprehensive task because the chemical and ecological impacts of contaminated sites on surface waters must be assessed. The ecological assessment is further complicated by the low availability or, in some cases, absence of ecotoxicity data for many of the compounds occurring at contaminated sites. We studied the potential impact of a contaminated site, characterised by chlorinated solvents, sulfonamides, and barbiturates, on benthic macroinvertebrates in a receiving stream. Most of these compounds are characterised by low or unknown ecotoxicity, but they are continuously discharged into the stream by way of a long-lasting source generating long-term chronic exposure of the stream biota. Our results show that taxonomical density and diversity of especially sediment dwelling taxa were reduced by >50 % at the sampling sites situated in the primary inflow zone of the contaminated GW. Moreover, macroinvertebrate communities at these sampling sites could be distinguished from those at upstream control sites and sites situated along a downstream dilution gradient using multidimensional scaling. Importantly, macroinvertebrate indices currently used did not identify this impairment, thus underpinning an urgent need for developing suitable tools for the assessment of ecological effects of contaminated sites in streams.

Drought effects on water quality in the South Platte River Basin, Colorado

USGS Publications Warehouse

Sprague, Lori A.

2005-01-01

Twenty-three stream sites representing a range of forested, agricultural, and urban land uses were sampled in the South Platte River Basin of Colorado from July through September 2002 to characterize water quality during drought conditions. With a few exceptions, dissolved ammonia, Kjeldahl nitrogen, total phosphorus, and dissolved orthophosphate concentrations were similar to seasonal historical levels in all land use areas during the drought. At some agricultural sites, decreased dilution of irrigation return flow may have contributed to higher concentrations of some nutrient species, increased primary productivity, and higher dissolved oxygen concentrations. At some urban sites, decreased dilution of base flow and wastewater treatment plant effluent may have contributed to higher dissolved nitrite-plus-nitrate concentrations, increased primary productivity, and higher dissolved oxygen concentrations. Total pesticide concentrations in urban and agricultural areas were not consistently higher or lower during the drought. At most forested sites, decreased dilution of ground water-derived calcium bicarbonate type base flow likely led to elevated pH and specific-conductance values. Water temperatures at many of the forested sites also were higher, contributing to lower dissolved oxygen concentrations during the drought.

Diurnal profiles of isoprene, methacrolein and methyl vinyl ketone at an urban site in Hong Kong

NASA Astrophysics Data System (ADS)

Cheung, K.; Guo, H.; Ou, J. M.; Simpson, I. J.; Barletta, B.; Meinardi, S.; Blake, D. R.

2014-02-01

Methacrolein (MACR) and methyl vinyl ketone (MVK) are major oxidation products of isoprene, but they also have primary emissions in urban environments, for example from fuel use. To examine whether MACR and MVK could be used as a direct measurement of the oxidation rate of isoprene in an urban setting, the diurnal variations of isoprene, MACR and MVK were characterized at an urban site in Hong Kong from September to November, 2010. Ozone (O3), carbon monoxide (CO), sulfur dioxide (SO2), and nitrogen oxides (NOx) were simultaneously monitored. The average isoprene mixing ratio was 252 ± 204 pptv, with a bell-shaped distribution observed on most sampling days. Higher levels of isoprene were recorded in the beginning of the sampling period, when the temperature was higher. The average mixing ratios of MACR and MVK were 101 ± 85 pptv and 175 ± 131 pptv, respectively. While isoprene, MACR and MVK experienced peak concentrations from 11 a.m. to 3 p.m., increased levels of MACR and MVK during the morning rush hour did not coincide with isoprene. The low associations between isoprene and MACR/MVK suggest that either MACR/MVK were not formed from local isoprene oxidation and/or they could partly originate from primary emissions such as fuel evaporation or combustion. Statistical analyses of linear regression and positive matrix factorization revealed that approximately 20-29% of the measured MACR and MVK was associated with biogenic emissions, and 55-71% was impacted by vehicular emissions, particularly during morning rush hours. Since MACR and MVK originated from both primary emissions and biogenic emissions at this urban site, they can therefore overestimate the actual rate of isoprene oxidation and its contribution to O3 production in urban areas with strong primary emissions.

A method to correct sampling ghosts in historic near-infrared Fourier transform spectrometer (FTS) measurements

NASA Astrophysics Data System (ADS)

Dohe, S.; Sherlock, V.; Hase, F.; Gisi, M.; Robinson, J.; Sepúlveda, E.; Schneider, M.; Blumenstock, T.

2013-08-01

The Total Carbon Column Observing Network (TCCON) has been established to provide ground-based remote sensing measurements of the column-averaged dry air mole fractions (DMF) of key greenhouse gases. To ensure network-wide consistency, biases between Fourier transform spectrometers at different sites have to be well controlled. Errors in interferogram sampling can introduce significant biases in retrievals. In this study we investigate a two-step scheme to correct these errors. In the first step the laser sampling error (LSE) is estimated by determining the sampling shift which minimises the magnitude of the signal intensity in selected, fully absorbed regions of the solar spectrum. The LSE is estimated for every day with measurements which meet certain selection criteria to derive the site-specific time series of the LSEs. In the second step, this sequence of LSEs is used to resample all the interferograms acquired at the site, and hence correct the sampling errors. Measurements acquired at the Izaña and Lauder TCCON sites are used to demonstrate the method. At both sites the sampling error histories show changes in LSE due to instrument interventions (e.g. realignment). Estimated LSEs are in good agreement with sampling errors inferred from the ratio of primary and ghost spectral signatures in optically bandpass-limited tungsten lamp spectra acquired at Lauder. The original time series of Xair and XCO2 (XY: column-averaged DMF of the target gas Y) at both sites show discrepancies of 0.2-0.5% due to changes in the LSE associated with instrument interventions or changes in the measurement sample rate. After resampling, discrepancies are reduced to 0.1% or less at Lauder and 0.2% at Izaña. In the latter case, coincident changes in interferometer alignment may also have contributed to the residual difference. In the future the proposed method will be used to correct historical spectra at all TCCON sites.

Climatological Processing of Radar Data for the TRMM Ground Validation Program

NASA Technical Reports Server (NTRS)

Kulie, Mark; Marks, David; Robinson, Michael; Silberstein, David; Wolff, David; Ferrier, Brad; Amitai, Eyal; Fisher, Brad; Wang, Jian-Xin; Augustine, David;

Characterization and control of odorous gases at a landfill site: a case study in Hangzhou, China.

PubMed

Ying, Ding; Chuanyu, Cai; Bin, Hu; Yueen, Xu; Xuejuan, Zheng; Yingxu, Chen; Weixiang, Wu

2012-02-01

Municipal solid waste (MSW) landfills are one of the major sources of offensive odors potentially creating annoyance in adjacent communities. At the end of May 2007, an odor pollution incident occurred at the Tianziling landfill site, Hangzhou, China, where the residents lodged complaints about the intense odor from the landfill, which drew a significant attention from the government. In this study, ambient air monitoring was conducted at the Tianziling landfill site. The main odor composition of the gas samples collected on June 1st 2007 and the reduction of various odorous gases from the samples collected on June 1st 2009 due to the applied odor control techniques were determined using gas chromatography-mass spectrometry (GC-MS). In addition, variations of primary odorous gaseous (NH(3) and H(2)S) concentrations at different locations in the landfill site from July 2007 to June 2009 were also investigated by using classical spectrophotometric methods. Results showed that a total of 68 volatile compounds were identified among which H(2)S (56.58-579.84 μg/m(3)) and NH(3) (520-4460 μg/m(3)) were the notable odor components contributing to 4.47-10.92% and 83.91-93.94% of total concentrations, respectively. Similar spatial and temporal shifts of H(2)S and NH(3) concentrations were observed and were significantly affected by environmental factors including temperature, air pressure and wind direction. Odor pollution was worse when high temperature, high humidity, low air pressure, and southeast, northeast or east wind appeared. Moreover, the environmental sampling points of the dumping area and the leachate treatment plant were found to be the main odor sources at the Tianziling landfill site. The odor control technologies used in this project had a good mitigating effect on the primary odorous compounds. This study provides long-term valuable information concerning the characteristics and control of odors at landfill sites in a long run. Copyright © 2011 Elsevier Ltd. All rights reserved.

Lease Operations Environmental Guidance Document

DOE Office of Scientific and Technical Information (OSTI.GOV)

Bureau of Land Management

This report contains discussions in nine different areas as follows: (1) Good Lease Operating Practices; (2) Site Assessment and Sampling; (3) Spills/Accidents; (4) Containment and Disposal of Produced Waters; (5) Restoration of Hydrocarbon Impacted Soils; (6) Restoration of Salt Impacted Soils; (7) Pit Closures; (8) Identification, Removal and Disposal of Naturally Occurring Radioactive Materials (NORM); and (9) Site Closure and Construction Methods for Abandonment Wells/Locations. This report is primary directed towards the operation of oil and gas producing wells.

Bacterial Composition in a Metropolitan Drinking Water Distribution System Utilizing Different Source Waters

EPA Science Inventory

The microbial community structure was investigated from bulk phase water samples of multiple collection sites from two service areas within the Cincinnati drinking water distribution system (DWDS). Each area is associated with a different primary source of water (i.e., groundwat...

Fossil vs. non-fossil sources of fine carbonaceous aerosols in four Chinese cities during the extreme winter haze episode of 2013

NASA Astrophysics Data System (ADS)

Zhang, Y.-L.; Huang, R.-J.; El Haddad, I.; Ho, K.-F.; Cao, J.-J.; Han, Y.; Zotter, P.; Bozzetti, C.; Daellenbach, K. R.; Canonaco, F.; Slowik, J. G.; Salazar, G.; Schwikowski, M.; Schnelle-Kreis, J.; Abbaszade, G.; Zimmermann, R.; Baltensperger, U.; Prévôt, A. S. H.; Szidat, S.

2015-02-01

During winter 2013, extremely high concentrations (i.e., 4-20 times higher than the World Health Organization guideline) of PM2.5 (particulate matter with an aerodynamic diameter < 2.5 μm) mass concentrations (24 h samples) were found in four major cities in China including Xi'an, Beijing, Shanghai and Guangzhou. Statistical analysis of a combined data set from elemental carbon (EC), organic carbon (OC), 14C and biomass-burning marker measurements using Latin hypercube sampling allowed a quantitative source apportionment of carbonaceous aerosols. Based on 14C measurements of EC fractions (six samples each city), we found that fossil emissions from coal combustion and vehicle exhaust dominated EC with a mean contribution of 75 ± 8% across all sites. The remaining 25 ± 8% was exclusively attributed to biomass combustion, consistent with the measurements of biomass-burning markers such as anhydrosugars (levoglucosan and mannosan) and water-soluble potassium (K+). With a combination of the levoglucosan-to-mannosan and levoglucosan-to-K+ ratios, the major source of biomass burning in winter in China is suggested to be combustion of crop residues. The contribution of fossil sources to OC was highest in Beijing (58 ± 5%) and decreased from Shanghai (49 ± 2%) to Xi'an (38 ± 3%) and Guangzhou (35 ± 7%). Generally, a larger fraction of fossil OC was from secondary origins than primary sources for all sites. Non-fossil sources accounted on average for 55 ± 10 and 48 ± 9% of OC and total carbon (TC), respectively, which suggests that non-fossil emissions were very important contributors of urban carbonaceous aerosols in China. The primary biomass-burning emissions accounted for 40 ± 8, 48 ± 18, 53 ± 4 and 65 ± 26% of non-fossil OC for Xi'an, Beijing, Shanghai and Guangzhou, respectively. Other non-fossil sources excluding primary biomass burning were mainly attributed to formation of secondary organic carbon (SOC) from non-fossil precursors such as biomass-burning emissions. For each site, we also compared samples from moderately to heavily polluted days according to particulate matter mass. Despite a significant increase of the absolute mass concentrations of primary emissions from both fossil and non-fossil sources during the heavily polluted events, their relative contribution to TC was even decreased, whereas the portion of SOC was consistently increased at all sites. This observation indicates that SOC was an important fraction in the increment of carbonaceous aerosols during the haze episode in China.

Particulate organic carbon mass distribution at the Bermuda Atlantic Time-series Study (BATS) site

NASA Astrophysics Data System (ADS)

Gundersen, Kjell; Orcutt, Karen M.; Purdie, Duncan A.; Michaels, Anthony F.; Knap, Anthony H.

Errors in total particulate organic carbon (total POC) measurements caused by particles settling in Niskin water samplers, loss of bacterial cells during filtration and undersampling of rare particles such as the diazotrophic cyanobacterium Trichodesmium spp. were investigated at the Bermuda Atlantic Time-series Study (BATS) site. Regular core samples of temperature, primary production, bacterial abundance, chlorophyll- a (Chl- a) and POC were collected at monthly intervals from 1991 to 1996. During this period of time, shorter investigations of particles settling in water samples (1991-1992), bacterial cells lost during filtration (1992-1993), and Trichodesmium abundance (1995-1996) were performed at the BATS site. The BATS site shows striking seasonal patterns in hydrography and phytoplankton primary productivity, with a strong maximum immediately following the deep winter mixing of the water column. Following the peak in primary production, bacterial abundance showed only slightly elevated levels in spring. Maxima of Chl- a and POC also were associated with the primary production peaks, but these particle concentrations became less pronounced through summer and fall. An average of 26% of total POC collected in Niskin water bottles settled below the spigot before it could be sampled. An average of 47% of all bacterial cells passed the nominal pore size of a Whatman GF/F filter, and total POC measurements generated from GF/F filtered seawater samples had to be corrected for this loss. The average integrated stocks of total POC in the upper 65 m of the water column was 32% pigmented phytoplankton, 15% microheterotrophs, 54% other detrital matter (32 : 15 : 54). Phytoplankton C equaled bacterial C in the 65-135 m depth range (16 : 19 : 65), but phytoplankton C was virtually non-existent deeper than 135 m (2 : 14 : 74). Bacterial C biomass was higher than phytoplankton in surface waters outside the spring bloom period, but carbon not accounted for by phytoplankton and bacteria (other C) showed an overall dominance throughout the year. Uncorrected, suspended POC collected on GF/F filters (POC SW) was nearly equal to the sum of phytoplankton C and bacterial C alone, and hence, the other C fraction of total POC was largely generated by the addition of settling particles (POC Dreg). Seasonal occurrences of rare particles such as Trichodesmium colonies in surface waters in late summer may account for as much as 17-56% of total POC. Settling particles and Trichodesmium colonies, seldom included in POC estimates from temperate and tropical regions, constituted more than half of total POC measured in surface waters at BATS.

Mental health care treatment initiation when mental health services are incorporated into primary care practice.

PubMed

Kessler, Rodger

2012-01-01

Most primary care patients with mental health issues are identified or treated in primary care rather than the specialty mental health system. Primary care physicians report that their patients do not have access to needed mental health care. When referrals are made to the specialty behavioral or mental health care system, rates of patients who initiate treatment are low. Collaborative care models, with mental health clinicians as part of the primary care medical staff, have been suggested as an alternative. The aim of this study is to examine rates of treatment startup in 2 collaborative care settings: a rural family medicine office and a suburban internal medicine office. In both practices referrals for mental health services are made within the practice. Referral data were drawn from 2 convenience samples of patients referred by primary care physicians for collaborative mental health treatment at Fletcher Allen Health Care in Vermont. The first sample consisted of 93 consecutively scheduled referrals in a family medicine office (sample A) between January 2006 and December 2007. The second sample consisted of 215 consecutive scheduled referrals at an internal medicine office (sample B) between January 2009 and December 2009. Referral data identified age, sex, and presenting mental health/medical problem. In sample A, 95.5% of those patients scheduling appointments began behavioral health treatment; in sample B this percentage was 82%. In sample B, 69% of all patients initially referred for mental health care both scheduled and initiated treatment. When referred to a mental health clinician who provides on-site access as part of a primary care mental health collaborative care model, a high percentage of patients referred scheduled care. Furthermore, of those who scheduled care, a high percentage of patients attend the scheduled appointment. Findings persist despite differences in practice type, populations, locations, and time frames of data collection. That the findings persist across the different offices suggests that this model of care may contain elements that improve the longstanding problem of poor treatment initiation rates when primary care physicians refer patients for outpatient behavioral health services.

Installation-restoration program. Phase 2. Confirmation/quantification. Stage 1 for Shaw Air Force Base, South Carolina. Final report, January 1984-October 1986

DOE Office of Scientific and Technical Information (OSTI.GOV)

Alexander, W.J.; Liddle, S.K.

1986-09-01

The primary objectives of this project were to collect and analyze groundwater, surface water, and sediment samples and to perform an initial characterization of the hydrogeochemical regime at potential contamination sites on Shaw Air Force Base near Sumter, South Carolina. This study constituted Phase II of the U.S. Air Force Installation Restoration Program (IRP). Five potential sources of groundwater pollution were studied. The evaluation primarily included the drilling of soil test borings, the installation, development, and sampling of groundwater monitoring wells, and the analyses of soil, surface water, and groundwater samples. Also used in the study were field measurements ofmore » water quality, water-level measurements site observations, published hydrogeologic data and Shaw AFB documents.« less

United States Air Force 611th Air Support Group/Civil Engineering Squadron, Elmendorf AFB, Alaska. Risk assessment Point Lonely Radar Installation, Alaska. Final report

DOE Office of Scientific and Technical Information (OSTI.GOV)

Karmi, S.

1996-04-01

This document contains the baseline human health risk assessment and the ecological risk assessment (ERA) for the Point Lonely Distant Early Warning (DEW) Line radar installation. Twelve sites at the Point Lonely radar installation underwent remedial investigations (RIs) during the summer of 1993. The Vehicle Storage Area (SS14) was combined with the Inactive Landfill because the two sites were essentially co-located and were sampled during the RI as a single unit. Therefore, 11 sites are discussed in this risk assessment. The presence of chemical contamination in the soil, sediments, and surface water at the installation was evaluated and reported inmore » the Point Lonely Remedial Investigation/Feasibility Study (RI/FS). The analytical data reported in the RI/FS form the basis for the human health and ecological risk assessments. The primary chemicals of concern (COCs) at the 11 sites are diesel and gasoline from past spills and/or leaks, chlorinated solvents, and manganese. The 11 sites investigated and the types of samples collected at each site are presented.« less

Bacteria and Turbidity Survey for Blue Mountain Lake, Arkansas, Spring and Summer, 1994

USGS Publications Warehouse

Lasker, A. Dwight

1995-01-01

Introduction Blue Mountain Lake darn is located at river mile 74.4 on the Petit Jean River in Logan and Yell Counties in west-central Arkansas (fig. 1). Drainage area above the darn is 488 square miles. Blue Mountain Lake is located between two national forests-the Ozark National Forest and the Ouachita National Forest. The primary purpose for Blue Mountain Lake is flood control, but the lake is used for a variety of recreational purposes. The U.S. Geological Survey (USGS) in cooperation with the U.s. Army Corps of Engineers, Little Rock District, conducted a bacterial and turbidity study of the Blue Mountain Lake Basin during the spring and suri1mer 1994. Samples were collected weekly at 11 locations within the lake basin from May through September 1994. Eight sampling sites were located on tributaries to the lake and three sampling sites were located on the lake with one of the sites located at a swim beach (fig. 2; table 1).

Impact of a primary care intervention on physician practice and patient and family behavior: keep ME Healthy---the Maine Youth Overweight Collaborative.

PubMed

Polacsek, Michele; Orr, Joan; Letourneau, Lisa; Rogers, Victoria; Holmberg, Robert; O'Rourke, Karen; Hannon, Cindy; Lombard, Kenneth A; Gortmaker, Steven L

2009-06-01

To evaluate the effect of a pediatric primary care-based intervention, on improved clinical decision support and family management of risk behaviors for childhood overweight. An experimental field trial was conducted with 12 intervention sites in urban and rural areas of Maine and nonrandomized control sites. Change was assessed by using clinical and parent measures from 9 intervention and 10 control sites before and during the Maine Youth Overweight Collaborative intervention. Longitudinal information was collected from chart audits of patients aged 5-18 years (n = 600), systematic samples of parents collected before (n = 346) and during (n = 386) the intervention in 12 sites, and systematic samples of parents in 9 intervention (n = 235) and 10 control (n = 304) sites collected during the intervention. Surveys of health care providers (n = 14 and 17) before and during the intervention were also collected. Teams worked over 18 months to implement improvements in clinical decision support, including tracking BMI percentiles, identification of overweight patients, appropriate laboratory tests, counseling of families and patients use of a behavioral screening tool, and other improvements following the chronic-care model targeting patients aged 5 to 18 and their families. Large changes occurred in clinical practice from before to during the Maine Youth Overweight Collaborative: increases in assessment of BMI (38%-94%), BMI percentile for age and gender (25%-89%), use of the 5-2-1-0 behavioral screening tool (0%-82%), and weight classification (19%-75%). Parent surveys indicated improvements in providers' behavior and rates of counseling. Intervention providers reported improvements in knowledge, attitudes, self-efficacy, and practice. The Maine Youth Overweight Collaborative intervention improved clinical decision support and family management of risk behaviors, indicating a promising primary care-based approach to address overweight risk among children and youth.

Getting Specific about Qualitative Research Generalizability

ERIC Educational Resources Information Center

Chenail, Ronald J.

2010-01-01

The question of generalizability or the usefulness of qualitative research results beyond the confines of the primary site, sample, and study has been hotly debated by qualitative researchers for decades. When examining this question of generalization the first surprising finding is there appears to be no general consensus about the definition,…

AF1q is a novel TCF7 co-factor which activates CD44 and promotes breast cancer metastasis.

PubMed

Park, Jino; Schlederer, Michaela; Schreiber, Martin; Ice, Ryan; Merkel, Olaf; Bilban, Martin; Hofbauer, Sebastian; Kim, Soojin; Addison, Joseph; Zou, Jie; Ji, Chunyan; Bunting, Silvia T; Wang, Zhengqi; Shoham, Menachem; Huang, Gang; Bago-Horvath, Zsuzsanna; Gibson, Laura F; Rojanasakul, Yon; Remick, Scot; Ivanov, Alexey; Pugacheva, Elena; Bunting, Kevin D; Moriggl, Richard; Kenner, Lukas; Tse, William

2015-08-21

AF1q is an MLL fusion partner that was identified from acute myeloid leukemia (AML) patients with t (1; 11) (q21; q23) chromosomal abnormality. The function of AF1q is not yet fully known, however, elevated AF1q expression is associated with poor clinical outcomes in various malignancies. Here, we show that AF1q specifically binds to T-cell-factor-7 (TCF7) in the Wnt signaling pathway and results in transcriptional activation of CD44 as well as multiple downstream targets of the TCF7/LEF1. In addition, enhanced AF1q expression promotes breast cancer cell proliferation, migration, mammosphere formation, and chemo-resistance. In xenograft models, enforced AF1q expression in breast cancer cells also promotes liver metastasis and lung colonization. In a cohort of 63 breast cancer patients, higher percentages of AF1q-positive cancer cells in primary sites were associated with significantly poorer overall survival (OS), disease-free survival (DFS), and brain metastasis-free survival (b-MFS). Using paired primary/metastatic samples from the same patients, we demonstrate that AF1q-positive breast cancer cells become dynamically dominant in the metastatic sites compared to the primary sites. Our findings indicate that breast cancer cells with a hyperactive AF1q/TCF7/CD44 regulatory axis in the primary sites may represent "metastatic founder cells" which have invasive properties.

Groundwater-quality data in the Bear Valley and Selected Hard Rock Areas study unit, 2010: Results from the California GAMA Program

USGS Publications Warehouse

Mathany, Timothy M.; Belitz, Kenneth

2013-01-01

Groundwater quality in the 112-square-mile Bear Valley and Selected Hard Rock Areas (BEAR) study unit was investigated by the U.S. Geological Survey (USGS) from April to August 2010, as part of the California State Water Resources Control Board (SWRCB) Groundwater Ambient Monitoring and Assessment (GAMA) Program’s Priority Basin Project (PBP). The GAMA-PBP was developed in response to the California Groundwater Quality Monitoring Act of 2001 and is being conducted in collaboration with the SWRCB and Lawrence Livermore National Laboratory (LLNL). The BEAR study unit was the thirty-first study unit to be sampled as part of the GAMA-PBP. The GAMA Bear Valley and Selected Hard Rock Areas study was designed to provide a spatially unbiased assessment of untreated-groundwater quality in the primary aquifer system and to facilitate statistically consistent comparisons of untreated groundwater quality throughout California. The primary aquifer system is defined as the zones corresponding to the perforation intervals of wells listed in the California Department of Public Health (CDPH) database for the BEAR study unit. Groundwater quality in the primary aquifer system may differ from the quality in the shallow or deep water-bearing zones; shallow groundwater may be more vulnerable to surficial contamination. In the BEAR study unit, groundwater samples were collected from two study areas (Bear Valley and Selected Hard Rock Areas) in San Bernardino County. Of the 38 sampling sites, 27 were selected by using a spatially distributed, randomized grid-based method to provide statistical representation of the primary aquifer system in the study unit (grid sites), and the remaining 11 sites were selected to aid in the understanding of the potential groundwater-quality issues associated with septic tank use and with ski areas in the study unit (understanding sites). The groundwater samples were analyzed for organic constituents (volatile organic compounds [VOCs], pesticides and pesticide degradates, pharmaceutical compounds, and wastewater indicator compounds [WICs]), constituents of special interest (perchlorate, N-nitrosodimethylamine [NDMA], and 1,2,3-trichloropropane [1,2,3-TCP]), and inorganic constituents (trace elements, nutrients, dissolved organic carbon [DOC], major and minor ions, silica, total dissolved solids [TDS], alkalinity, and arsenic and iron species), and uranium and other radioactive constituents (radon-222 and activities of tritium and carbon-14). Isotopic tracers (of hydrogen and oxygen in water, of nitrogen and oxygen in dissolved nitrate, of dissolved boron, isotopic ratios of strontium in water, and of carbon in dissolved inorganic carbon) and dissolved noble gases (argon, helium-4, krypton, neon, and xenon) were measured to help identify the sources and ages of sampled groundwater. In total, groundwater samples were analyzed for 289 unique constituents and 8 water-quality indicators in the BEAR study unit. Quality-control samples (blanks, replicate pairs, or matrix spikes) were collected at 13 percent of the sites in the BEAR study unit, and the results for these samples were used to evaluate the quality of the data from the groundwater samples. Blank samples rarely contained detectable concentrations of any constituent, indicating that contamination from sample collection or analysis was not a significant source of bias in the data for the groundwater samples. Replicate pair samples all were within acceptable limits of variability. Matrix-spike sample recoveries were within the acceptable range (70 to 130 percent) for approximately 84 percent of the compounds. This study did not evaluate the quality of water delivered to consumers. After withdrawal, groundwater typically is treated, disinfected, and (or) blended with other waters to maintain water quality. Regulatory benchmarks apply to water that is delivered to the consumer, not to untreated groundwater. However, to provide some context for the results, concentrations of constituents measured in the untreated groundwater were compared with regulatory and non-regulatory health-based benchmarks established by the U.S. Environmental Protection Agency (USEPA) and CDPH, and to non-health-based benchmarks established for aesthetic concerns by CDPH. Comparisons between data collected for this study and benchmarks for drinking water are for illustrative purposes only and are not indicative of compliance or non-compliance with those benchmarks. All concentrations of organic and special-interest constituents from grid sites sampled in the BEAR study unit were less than health-based benchmarks. In total, VOCs were detected in 17 of the 27 grid sites sampled (approximately 63 percent), pesticides and pesticide degradates were detected in 4 grid sites (approximately 15 percent), and perchlorate was detected in 21 grid sites (approximately 78 percent). Inorganic constituents (trace elements, major and minor ions, nutrients, and uranium and other radioactive constituents) were sampled for at 27 grid sites; most concentrations were less than health-based benchmarks. Exceptions include one detection of arsenic greater than the USEPA maximum contaminant level (MCL-US) of 10 micrograms per liter (μg/L), three detections of uranium greater than the MCL-US of 30 μg/L, nine detections of radon-222 greater than the proposed MCL-US of 4,000 picocuries per liter (pCi/L), and one detection of fluoride greater than the CDPH maximum contaminant level (MCL-CA) of 2 milligrams per liter. Concentrations of inorganic constituents with non-health-based benchmarks (iron, manganese, chloride, and TDS) were less than the CDPH secondary maximum contaminant level (SMCL-CA) in most grid sites. Exceptions include two detections of iron greater than the SMCL-CA of 300 μg/L and one detection of manganese greater than the SMCL-CA of 50 μg/L.

Sample collection of ash and burned soils from the October 2007 southern California Wildfires

USGS Publications Warehouse

Hoefen, Todd M.; Kokaly, Raymond F.; Martin, Deborah A.; Rochester, Carlton J.; Plumlee, Geoffrey S.; Mendez, Greg; Reichard, Eric G.; Fisher, Robert N.

2009-01-01

Between November 2 through 9, 2007 scientists from the U.S. Geological Survey (USGS) collected samples of ash and burned soils from 28 sites in six areas burned as a result of the Southern California wildfires of October 2007, including the Harris, Witch, Santiago, Ammo, Canyon, and Grass Valley Fires. The primary goal of this sampling and analysis effort was to understand how differences in ash and burned soil composition relate to vegetation type, underlying bedrock geology, burn intensity, and residential versus wildland. Sampling sites were chosen with the input of local experts from the USGS Water Resources and Biological Resources Disciplines to help understand possible effects of the fires on water supplies, ecosystems, and endangered species. The sampling was also carried out in conjunction with detailed field analysis of the spectral reflectance characteristics of the ash, so that chemical and mineralogical characteristics of the field samples could be used to help interpret data collected as part of an airborne, hyperspectral remote-sensing survey of several of the burned areas in mid-late November, 2007.This report presents an overview of the field sampling methodologies used to collect the samples, includes representative photos of the sites sampled, and summarizes important characteristics of each of the collection sites. In this report we use the term “ash” to refer collectively to white mineral ash, which results from full combustion of vegetation and black charred organic matter from partial combustion of vegetation or other materials. These materials were found to be intermingled as a deposited residue on the soil surface following the Southern California fires of 2007.

Productivity vs. training in primary care: analysis of hospitals and health centers in New York City.

PubMed

DeLia, Derek; Cantor, Joel C; Duck, Elaine

2002-01-01

This paper examines the indirect costs of primary care residency in terms of ambulatory care site productivity and the influence of graduate medical education (GME) subsidies on the employment of primary care residents. Using a sample of hospitals and health centers in New York City (NYC), we find that most facilities employ significantly more primary care residents relative to nonresident primary care physicians than would be dictated by cost-minimizing behavior in the production of primary care. We also find evidence that New York's GME subsidy encourages the "overemployment" of residents, while the Medicare GME subsidy does not. We conclude that the trade-off between productivity and teaching is more serious in primary care than in inpatient settings, and that facilities heavily involved in ambulatory care teaching will be at a competitive disadvantage if GME subsidies are not targeted specifically for primary care.

Spatial variability of carbonaceous aerosol concentrations in East and West Jerusalem.

PubMed

von Schneidemesser, Erika; Zhou, Iiabin; Stone, Elizabeth A; Schauer, James I; Shpund, Jacob; Brenner, Shmuel; Qasrawi, Radwan; Abdeen, Ziad; Sarnat, Jeremy A

2010-03-15

Carbonaceous aerosol concentrations and sources were compared during a year long study at two sites in East and West Jerusalem that were separated by a distance of approximately 4 km. One in six day 24-h PM(2.5) elemental and organic carbon concentrations were measured, along with monthly average concentrations of particle-phase organic compound tracers for primary and secondary organic aerosol sources.Tracer compounds were used in a chemical mass balance ICMB) model to determine primary and secondary source contributions to organic carbon. The East Jerusalem sampling site at Al Quds University experienced higher concentrations of organic carbon (OC) and elemental carbon (EC) compared to the West Jerusalem site at Hebrew University. The annual average concentrations of OC and EC at the East Jerusalem site were 5.20 and 2.19 μg m(-3), respectively, and at the West Jerusalem site were 4.03 and 1.14 μg m(-3), respectively. Concentrations and trends of secondary organic aerosol and vegetative detritus were similar at both sites, but large differences were observed in the concentrations of organic aerosol from fossil fuel combustion and biomass burning, which was the cause of the large differences in OC and EC concentrations observed at the two sites.

Community Structure of Tintinnid Ciliates of the Microzooplankton in the South West Pacific Ocean: Comparison of a High Primary Productivity with a Typical Oligotrophic Site.

PubMed

Dolan, John R; Gimenez, Audrey; Cornet-Barthaux, Veronique; de Verneil, Alain

2016-11-01

Transient 'hot spots' of phytoplankton productivity occur in the generally oligotrophic Southern Pacific Ocean and we hypothesized that the population structure of tintinnid ciliates, planktonic grazers, would differ from that of a typical oligotrophic sites. Samples were collected over a 1-wk period at each of two sites between Fiji and Tahiti: one of elevated chlorophyll a concentrations and primary productivity with an abundance of N-fixing cyanobacteria Trichodesmium, and a distant oligotrophic site. Tintinnid abundance differed between the sites by a factor of 2. A single species (Favella sp.), absent from the oligotrophic site, highly dominated the 'hot spot' site. However, total species richness was identical (71 spp.) as well as short-term temporal variability (2-4 d). At both sites, species abundance distributions most closely fit a log-series or log-normal distribution and the abundance distributions of ecological types, forms of distinct lorica oral diameter, were the typical geometric. Morphological diversity was only slightly lower at the high productivity site. We found that communities of these plankton grazers in 'hot spots' of phytoplankton productivity in oligotrophic systems, although harboring different species, differ little from surrounding oligotrophic areas in community structure. © 2016 The Author(s) Journal of Eukaryotic Microbiology © 2016 International Society of Protistologists.

Nutrient and suspended-sediment trends, loads, and yields and development of an indicator of streamwater quality at nontidal sites in the Chesapeake Bay watershed, 1985-2010

USGS Publications Warehouse

Langland, Michael; Blomquist, Joel; Moyer, Douglas; Hyer, Kenneth

2012-01-01

The U.S. Geological Survey (USGS) updates information on loads of, and trends in, nutrients and sediment annually to help the Chesapeake Bay Program (CBP) investigators assess progress toward improving water-quality conditions in the Chesapeake Bay and its watershed. CBP scientists and managers have worked since 1983 to improve water quality in the bay. In 2010, the U.S. Environmental Protection Agency (USEPA) established a Total Maximum Daily Load (TMDL) for the Chesapeake Bay. The TMDL specifies nutrient and sediment load allocations that need to be achieved in the watershed to improve dissolved oxygen, water-clarity, and chlorophyll conditions in the bay. The USEPA, USGS, and state and local jurisdictions in the watershed operate a CBP nontidal water-quality monitoring network and associated database that are used to update load and trend information to help assess progress toward reducing nutrient and sediment inputs to the bay. Data collected from the CBP nontidal network were used to estimate loads and trends for two time periods: a long-term period (1985-2010) at 31 "primary" sites (with storm sampling) and a 10-year period (2001-10) at 33 primary sites and 16 "secondary" sites (without storm sampling). In addition, loads at 64 primary sites were estimated for the period 2006 to 2010. Results indicate improving flow-adjusted trends for nitrogen and phosphorus for 1985 to 2010 at most of the sites in the network. For nitrogen, 21 of the 31 sites showed downward (improving) trends, whereas 2 sites showed upward (degrading) trends, and 8 sites showed no trends. The results for phosphorus were similar: 22 sites showed improving trends, 4 sites showed degrading trends, and 5 sites indicated no trends. For sediment, no trend was found at 40 percent of the sites, with 10 sites showing improving trends and 8 sites showing degrading trends. The USGS, working with CBP partners, developed a new water-quality indicator that combines the results of the 10-year trend analysis with results from a greater number of sites (64 primary sites) where loads and yields of total nitrogen and phosphorus and sediment could be calculated. The new indicator shows fewer significant trends for the 10-year time period than for the long-term time period (1985-2010). For 2001-10, total nitrogen trends were downward (improving) at 14 sites and upward (degrading) at 2 sites; no trend was found at 17 sites. For total phosphorus, 12 sites showed improving trends, 4 sites showed degrading trends, and 17 sites showed no trend. For total sediment, most sites (21) did not exhibit a significant trend; 3 sites showed improving trends, and 10 sites showed degrading trends. Few significant trends were seen at the 16 secondary sites: improving trends for total nitrogen at 4 sites, improving trends for total phosphorus at 2 sites, and a degrading trend for sediment at 1 site. Total streamflow to the Chesapeake Bay was 20 percent higher in 2010 than in 2009 and is considered to be within the normal range of flow, whereas annual streamflow at 28 sites was greater in 2010 than in 2009. No trends in daily streamflow were detected at the 31 long-term sites. Combined loads for the farthest downstream nontidal monitoring sites (called "River Input Monitoring sites") increased 33 percent for total nitrogen, 120 percent for total phosphorus, and 330 percent for total sediment from 2009 to 2010. The large increase in phosphorus and sediment loads in 2010 was caused in large part by two large storm events that occurred during the spring in the Potomac River Basin. Yields (load per watershed area) of total nitrogen in the Chesapeake Bay watershed decreased from north to south (New York to Virginia). No spatial patterns were discernible for total phosphorus or sediment.

Evaluation of four sampling methods for determining exposure of children to lead-contaminated household dust

DOE Office of Scientific and Technical Information (OSTI.GOV)

Sterling, D.A.; Roegner, K.C.; Lewis, R.D.

Childhood exposure to lead has been demonstrated to result in health effects and lead-contaminated household dust is a primary exposure source. There is a need to establish reliable methods for sampling surfaces to determine levels of lead contamination. Three vacuums (HVS3, GS80, and MVM) and one wipe method were evaluated for the collection of household floor dust under field sampling conditions within a Superfund site and demographically similar control area. Side-by-side floor samples were taken from three locations within 41 randomly selected households between August and September 1995: a child's bedroom, primary play area, and primary entrance. Analysis was performedmore » to assess the relative collection performance of each sampler, spatial distribution of lead within a household, and correlation of lead loading with observed blood lead level, and to determine if discrete or composites samples were more predictive of blood lead levels. Approximately 90% of the floor surfaces were carpeted. The rank order of sampling methods from greatest to lowest collection efficiency was HVS3 > G80 > wipe > MVM. The HVS3 had the highest level of precision (CV = 0.05), with the GS80 and wipe precisions 0.48 and 0.053, respectively.« less

Factors affecting cardiac rehabilitation referral by physician specialty.

PubMed

Grace, Sherry L; Grewal, Keerat; Stewart, Donna E

2008-01-01

Cardiac rehabilitation (CR) is widely underutilized because of multiple factors including physician referral practices. Previous research has shown CR referral varies by type of provider, with cardiologists more likely to refer than primary care physicians. The objective of this study was to compare factors affecting CR referral in primary care physicians versus cardiac specialists. A cross-sectional survey of a stratified random sample of 510 primary care physicians and cardiac specialists (cardiologists or cardiovascular surgeons) in Ontario identified through the Canadian Medical Directory Online was administered. One hundred four primary care physicians and 81 cardiac specialists responded to the 26-item investigator-generated survey examining medical, demographic, attitudinal, and health system factors affecting CR referral. Primary care physicians were more likely to endorse lack of familiarity with CR site locations (P < .001), lack of standardized referral forms (P < .001), inconvenience (P = .04), program quality (P = .004), and lack of discharge communication from CR (P = .001) as factors negatively impacting CR referral practices than cardiac specialists. Cardiac specialists were significantly more likely to perceive that their colleagues and department would regularly refer patients to CR than primary care physicians (P < .001). Where differences emerged, primary care physicians were more likely to perceive factors that would impede CR referral, some of which are modifiable. Marketing CR site locations, provision of standardized referral forms, and ensuring discharge summaries are communicated to primary care physicians may improve their willingness to refer to CR.

Occurrence and Distribution of Pesticides in the St. Lucie River Watershed, South-Central Florida, 2000-01, Based on Enzyme-Linked Immunosorbent Assay (ELISA) Screening

USGS Publications Warehouse

Lietz, A.C.

2003-01-01

The St. Lucie River watershed is a valuable estuarine ecosystem and resource in south-central Florida. The watershed has undergone extensive changes over the last century because of anthropogenic activities. These activities have resulted in a complex urban and agricultural drainage network that facilitates the transport of contaminants, including pesticides, to the primary canals and then to the estuary. Historical data indicate that aquatic life criteria for selected pesticides have been exceeded. To address this concern, a reconnaissance was conducted to assess the occurrence and distribution of selected pesticides within the St. Lucie River watershed. Numerous water samples were collected from 37 sites among various land-use categories (urban/built-up, citrus, cropland/pastureland, and inte-grated). Samples were collected at inflow points to primary canals (C-23, C-24, and C-44) and at control structures along these canals from October 2000 to September 2001. Samples were screened for four pesticide classes (triazines, chloroacetanilides, chlorophenoxy compounds, and organophosphates) by using Enzyme-Linked Immunosorbent Assay (ELISA) screening. A temporal distribution of pesticides within the watershed was made based on samples collected at the integrated sites during different rainfall events between October 2000 and September 2001. Triazines were detected in 32 percent of the samples collected at the integrated sites. Chloroacetanilides were detected in 60 percent of the samples collected at the integrated sites, with most detections occurring at one site. Chlorophenoxy compounds were detected in 17 percent of the samples collected at the integrated sites. Organophosphates were detected in only one sample. A spatial distribution and range of concentration of pesticides at the 37 sampling sites in the watershed were determined among land-use categories. Triazine concentrations ranged from highest to lowest in the citrus, urban/built-up, and integrated areas, respectively. The highest median triazine concentration was found in the cropland/pastureland area. Chloroacetanilide concentra-tions ranged from highest to lowest in the citrus, integrated, urban/built-up, and cropland/pastureland areas, respectively. Chlorophenoxy compound concentrations ranged from highest to lowest in the urban/built-up, integrated, citrus, and cropland/pastureland areas, respectively. The maximum concentrations of triazines, chloroacetanilides, and chlorophenoxy compounds were 0.63, 1.0, and 14 micrograms per liter, respectively. Organophosphate was detected once at an integrated site at a concentration of 0.20 microgram per liter. Currently, the U.S. Environmental Protection Agency has no aquatic life guidelines for atrazine and metolachlor. However, assuming that all triazine and metolachlor concentrations from ELISA and gas chromatography/mass spectrometry (GC/MS) analyses were the result of atrazine and metolachlor detections, no concentrations exceeded the Canadian aquatic life guidelines for atrazine and metolachlor. One organophosphate detection (0.2 microgram per liter) did exceed the U.S. Environmental Protection Agency aquatic life guideline for chlorpyrifos. The deethylatrazine/atrazine ratio (DAR) is an important indicator of atrazine transport in the environment. The DAR ranged from 0.25 to 0.33, indicating that postapplication runoff was the most likely source of atrazine to the environment at the time of sampling. Deisopropylatrazine is a metabolite of atrazine and structurally similar compounds, such as simazine and cyanazine. The deisopropylatrazine/deethylatrazine ratio (D2R) is an indicator of nonpoint sources of deisopropylatrazine to the environment. The ratio ranged from 1 to 3 in this study, indicating simazine was an important source of deisopropylatrazine to the environment at the time of sampling, as opposed to atrazine alone. Confirmation analyses by GC/MS for triazines detected by ELISA indicated t

Recent Results From the NOAA/ESRL GMD Tall Tower Network

NASA Astrophysics Data System (ADS)

Andrews, A. E.; Tans, P. P.; Peters, W.; Hirsch, A.; Sweeney, C.; Petron, G.; Kofler, J.; Zhao, C.; Masarie, K.; Wofsy, S. C.; Matross, D. M.; Mahadevan, P.; Longo, M.; Gerbig, C.; Lin, J. C.

2006-12-01

We will present a summary of new results from NOAA Earth System Research Laboratory`s Tall Tower greenhouse gas monitoring network. The tower network is operated by the Global Monitoring Division, which also maintains the global Cooperative Air Sampling network and a network of aircraft profiling sites over North America. Tall tower CO2 mixing ratio measurements are sensitive to upwind fluxes over scales of hundreds of kilometers, and the primary objective of the tower network is to obtain regionally representative carbon flux estimates for the North American continent. Mixing ratios of CO2 and CO are measured semi-continuously at the towers, and the KWKT-TV tower site near Moody, TX has recently also been equipped with sensors to measure radon and O3. Daily flask samples are collected at the KWKT tower and analyzed for CO2, CO, CH4, SF6, N2O, H2, stable isotopes of CO2 and CH4, COS, and a variety of halocarbon and hydrocarbon species. Daily flask sampling will be implemented at all tower sites within the next few years. We have used the Stochastic Time Inverted Lagrangian Transport (STILT) model to investigate upwind influences on the tower observations. CO measurements provide an indicator of polluted air masses, and we will present a summary of the frequency and origin of pollution events observed at the towers. We will present an analysis of the primary factors contributing to observed CO2 variability along with average seasonal and diurnal cycles of CO2 at the tower sites. Tower measurements are being used to evaluate atmospheric transport models in the context of the Transcom Continuous experiment and are an important constraint for CO2 data assimilation systems that produce regional to global carbon flux estimates with up to weekly resolution.

Consequences of buffelgrass pasture development for primary productivity, perennial plant richness, and vegetation structure in the drylands of Sonora, Mexico.

PubMed

Franklin, Kimberly; Molina-Freaner, Francisco

2010-12-01

In large parts of northern Mexico native plant communities are being converted to non-native buffelgrass (Pennisetum ciliare) pastures, and this conversion could fundamentally alter primary productivity and species richness. In Sonora, Mexico land conversion is occurring at a regional scale along a rainfall-driven gradient of primary productivity, across which native plant communities transition from desert scrub to thorn scrub. We used a paired sampling design to compare a satellite-derived index of primary productivity, richness of perennial plant species, and canopy-height profiles of native plant communities with buffelgrass pastures. We sampled species richness across a gradient of primary productivity in desert scrub and thorn scrub vegetation to examine the influence of site productivity on the outcomes of land conversion. We also examined the influence of pasture age on species richness of perennial plants. Index values of primary productivity were lower in buffelgrass pastures than in native vegetation, which suggests a reduction in primary productivity. Land conversion reduced species richness by approximately 50% at local and regional scales, reduced tree and shrub cover by 78%, and reduced canopy height. Land conversion disproportionately reduced shrub species richness, which reflects the common practice among Sonoran ranchers of conserving certain tree and cactus species. Site productivity did not affect the outcomes of land conversion. The age of a buffelgrass pasture was unrelated to species richness within the pasture, which suggests that passive recovery of species richness to preconversion levels is unlikely. Our findings demonstrate that land conversion can result in large losses of plant species richness at local and regional scales and in substantial changes to primary productivity and vegetation structure, which casts doubt on the feasibility of restoring native plant communities without active intervention on the part of land managers. © 2010 Society for Conservation Biology.

Soil-plant-microbial relations in hydrothermally altered soils of Northern California

USGS Publications Warehouse

Blecker, S.W.; Stillings, L.L.; DeCrappeo, N.M.; Ippolito, J.A.

2014-01-01

Soils developed on relict hydrothermally altered soils throughout the Western USA present unique opportunities to study the role of geology on above and belowground biotic activity and composition. Soil and vegetation samples were taken at three unaltered andesite and three hydrothermally altered (acid-sulfate) sites located in and around Lassen VolcanicNational Park in northeastern California. In addition, three different types of disturbed areas (clearcut, thinned, and pipeline) were sampled in acid-sulfate altered sites. Soils were sampled (0–15 cm) in mid-summer 2010 from both under-canopy and between-canopy areas within each of the sites. Soils were analyzed for numerous physical and chemical properties along with soil enzyme assays, C and N mineralization potential, microbial biomass-C and C-substrate utilization. Field vegetation measurements consisted of canopy cover by life form (tree, shrub, forb, and grass), tree and shrub density, and above-ground net primary productivity of the understory. Overall, parameters at the clearcut sites were more similar to the unaltered sites, while parameters at the thinned and pipeline sites were more similar to the altered sites. We employed principal components analysis (PCA) to develop two soil quality indices (SQI) to help quantify the differences among the sites: one based on the correlation between soil parameters and canopy cover, and the second based on six sub-indices. Soil quality indices developed in these systems could provide a means for monitoring and identifying key relations between the vegetation, soils, and microorganisms.

Estimated contributions of primary and secondary organic aerosol from fossil fuel combustion during the CalNex and Cal-Mex campaigns

NASA Astrophysics Data System (ADS)

Guzman-Morales, J.; Frossard, A. A.; Corrigan, A. L.; Russell, L. M.; Liu, S.; Takahama, S.; Taylor, J. W.; Allan, J.; Coe, H.; Zhao, Y.; Goldstein, A. H.

2014-05-01

Observations during CalNex and Cal-Mex field campaigns at Bakersfield, Pasadena, Tijuana, and on board the R/V Atlantis show a substantial contribution of fossil fuel emissions to the ambient particle organic mass (OM). At least two fossil fuel combustion (FFC) factors with a range of contributions of oxidized organic functional groups were identified at each site and accounted for 60-88% of the total OM. Additional marine, vegetative detritus, and biomass burning or biogenic sources contribute up to 40% of the OM. Comparison of the FTIR spectra of four different unburned fossil fuels (gasoline, diesel, motor oil, and ship diesel) with PMF factors from ambient samples shows absorbance peaks from the fuels are retained in organic aerosols, with the spectra of all of the FFC factors containing at least three of the four characteristic alkane peaks observed in fuel standards at 2954, 2923, 2869 and 2855 cm-1. Based on this spectral similarity, we estimate the primary OM from FFC sources for each site to be 16-20%, with secondary FFC OM accounting for an additional 42-62%. Two other methods for estimating primary OM that use carbon monoxide (CO) and elemental carbon (EC) as tracers of primary organic mass were investigated, but both approaches were problematic for the CalNex and Cal-Mex urban sites because they were influenced by multiple emission sources that had site-specific and variable initial ratios to OM. For example, using the ΔPOM/ΔCO ratio of 0.0094 μg ppb V-1 proposed by other studies produces unrealistically high estimates of primary FFC OM of 55-100%.

Prevalence of white spot syndrome virus (WSSV) in wild shrimp Penaeus monodon in the Philippines.

PubMed

de la Peña, Leobert D; Lavilla-Pitogo, Celia R; Villar, Corina Belle R; Paner, Milagros G; Sombito, Christopher D; Capulos, Geimbo C

2007-10-15

Prevalence of white spot syndrome virus (WSSV) was determined using polymerase chain reaction (PCR) methodology on DNA extracted from the gills of wild black tiger shrimp Penaeus monodon collected from 7 sampling sites in the Philippines. These 7 sampling sites are the primary sources of spawners and broodstock for hatchery use. During the dry season, WSSV was detected in shrimp from all sites except Bohol, but during the wet season it was not detected in any site except Palawan. None of the WSSV-PCR positive shrimp showed signs of white spots in the cuticle. Prevalence of WSSV showed seasonal variations, i.e. prevalence in dry season (April to May) was higher than in the wet season (August to October). These results suggest that WSSV has already become established in the local marine environment and in wild populations of P. monodon. Thus, broodstock collected during the dry season could serve as the main source of WSSV contamination in shrimp farms due to vertical transmission of the virus in hatcheries.

Characterization of the microbial community composition and the distribution of Fe-metabolizing bacteria in a creek contaminated by acid mine drainage.

PubMed

Sun, Weimin; Xiao, Enzong; Krumins, Valdis; Dong, Yiran; Xiao, Tangfu; Ning, Zengping; Chen, Haiyan; Xiao, Qingxiang

2016-10-01

A small watershed heavily contaminated by long-term acid mine drainage (AMD) from an upstream abandoned coal mine was selected to study the microbial community developed in such extreme system. The watershed consists of AMD-contaminated creek, adjacent contaminated soils, and a small cascade aeration unit constructed downstream, which provide an excellent contaminated site to study the microbial response in diverse extreme AMD-polluted environments. The results showed that the innate microbial communities were dominated by acidophilic bacteria, especially acidophilic Fe-metabolizing bacteria, suggesting that Fe and pH are the primary environmental factors in governing the indigenous microbial communities. The distribution of Fe-metabolizing bacteria showed distinct site-specific patterns. A pronounced shift from diverse communities in the upstream to Proteobacteria-dominated communities in the downstream was observed in the ecosystem. This location-specific trend was more apparent at genus level. In the upstream samples (sampling sites just below the coal mining adit), a number of Fe(II)-oxidizing bacteria such as Alicyclobacillus spp., Metallibacterium spp., and Acidithrix spp. were dominant, while Halomonas spp. were the major Fe(II)-oxidizing bacteria observed in downstream samples. Additionally, Acidiphilium, an Fe(III)-reducing bacterium, was enriched in the upstream samples, while Shewanella spp. were the dominant Fe(III)-reducing bacteria in downstream samples. Further investigation using linear discriminant analysis (LDA) effect size (LEfSe), principal coordinate analysis (PCoA), and unweighted pair group method with arithmetic mean (UPGMA) clustering confirmed the difference of microbial communities between upstream and downstream samples. Canonical correspondence analysis (CCA) and Spearman's rank correlation indicate that total organic carbon (TOC) content is the primary environmental parameter in structuring the indigenous microbial communities, suggesting that the microbial communities are shaped by three major environmental parameters (i.e., Fe, pH, and TOC). These findings were beneficial to a better understanding of natural attenuation of AMD.

Hanford Double-Shell Tank AY-102 Radioactive Waste Leak Investigation Update - 15302

DOE Office of Scientific and Technical Information (OSTI.GOV)

Washenfelder, D. J.; Johnson, J. M.

2014-12-22

Tank AY-102 was the first of 28 double-shell radioactive waste storage tanks constructed at the U. S. Department of Energy’s Hanford Site, near Richland, WA. The tank was completed in 1970, and entered service in 1971. In August, 2012, an accumulation of material was discovered at two sites on the floor of the annulus that separates the primary tank from the secondary liner. The material was sampled and determined to originate from the primary tank. This paper summarizes the changes in leak behavior that have occurred during the past two years, inspections to determine the capability of the secondary linermore » to continue safely containing the leakage, and the initial results of testing to determine the leak mechanism.« less

Microbiological Water Quality in Relation to Water-Contact Recreation, Cuyahoga River, Cuyahoga Valley National Park, Ohio, 2000 and 2002

USGS Publications Warehouse

Bushon, Rebecca N.; Koltun, G.F.

2004-01-01

The microbiological water quality of a 23-mile segment of the Cuyahoga River within the Cuyahoga Valley National Park was examined in this study. This segment of the river receives discharges of contaminated water from stormwater, combined-sewer overflows, and incompletely disinfected wastewater. Frequent exceedances of Ohio microbiological water-quality standards result in a health risk to the public who use the river for water-contact recreation. Water samples were collected during the recreational season of May through October at four sites on the Cuyahoga River in 2000, at three sites on the river in 2002, and from the effluent of the Akron Water Pollution Control Station (WPCS) both years. The samples were collected over a similar range in streamflow in 2000 and 2002. Samples were analyzed for physical and chemical constituents, as well as the following microbiological indicators and pathogenic organisms: Escherichia coli (E. coli), Salmonella, F-specific and somatic coliphage, enterovirus, infectious enterovirus, hepatitis A virus, Clostridium perfringens (C. perfringens), Cryptosporidium, and Giardia. The relations of the microorganisms to each other and to selected water-quality measures were examined. All microorganisms analyzed for, except Cryptosporidium, were detected at least once at each sampling site. Concentrations of E. coli exceeded the Ohio primary-contact recreational standard (298 colonies per 100 milliliters) in approximately 87 percent of the river samples and generally were higher in the river samples than in the effluent samples. C. perfringens concentrations were positively and significantly correlated with E. coli concentrations in the river samples and generally were higher in the effluent samples than in the river samples. Several of the river samples that met the Ohio E. coli secondary-contact recreational standard (576 colonies per 100 milliliters) had detections of enterovirus, infectious enterovirus, hepatitis A virus, and Salmonella, indicating that there are still risks even when the E. coli standard is not exceeded. River samples in which the secondary-contact recreational standard for E. coli was exceeded showed a higher percentage of the co-occurrence of pathogenic organisms than samples that met the standard. This indicates that in this study area, E. coli is a useful indicator of human health risk. Detections of hepatitis A virus tended to be associated with higher median concentrations of somatic coliphage, F-specific coliphage, and infectious enterovirus. In addition, geometric mean C. perfringens concentrations tended to be higher in samples where hepatitis A virus was present than in samples where hepatitis A virus was absent. Hepatitis A virus was not detected in samples collected upstream from the Akron WPCS; all downstream detections had coincident detections in the Akron WPCS effluent, suggesting that Akron WPCS was a principal source of hepatitis A virus at the downstream sites. Geometric mean concentrations of E. coli were calculated on the basis of analytical results from at least five samples collected at each river site during May, July, and September of 2000. In each case, the Ohio geometric-mean primary-contact recreational standard of 126 col/100 mL was exceeded. E. coli concentrations were significantly correlated with streamflow and increased with streamflow at sites upstream and downstream from the Akron WPCS. This indicates that E. coli loads from sources upstream from the Akron WPCS have the potential to appreciably influence the frequency of attainment of recreational water-quality standards at downstream locations.

Remagnetization mechanisms in Triassic red beds from South China

NASA Astrophysics Data System (ADS)

Jiang, Zhaoxia; Liu, Qingsong; Dekkers, Mark J.; Zhao, Xiang; Roberts, Andrew P.; Yang, Zhenyu; Jin, Chunsheng; Liu, Jianxing

2017-12-01

Paleogeographic reconstructions based on paleomagnetic data rely on the reliability of the natural remanent magnetization (NRM) as a primary geomagnetic signal. Remagnetizations, however, can be common in many rock types, including late Paleozoic and Mesozoic red beds, and they complicate paleogeographic interpretations. Extracting the primary NRM from partially remagnetized rocks, and understanding the remagnetization mechanism are important in these contexts. We carried out a systematic paleomagnetic study of red bed samples from the Triassic Huangmaqing Formation, Nanjing (32.0°N, 118.9°E), South China. Two NRM components carried by secondary and primary hematite are isolated in 47 of the 94 samples studied, where the latter component has a direction in stratigraphic coordinates of D = 29.2 °, I = 34.6 ° (α95 = 10.9 °, 47 samples from 6 sites) that yields a paleopole of λ = 60.8°N, ϕ = 228.1°E, dp / dm = 12.5 / 7.2, which is consistent with Triassic pole positions for the South China Block. A secondary chemical remanent magnetization (CRM) (D = 227.1 °, I = 80.8 °, α95 = 7.3 °) is documented in all 94 samples from 10 sites and is carried by pigmentary hematite that is inferred to have been generated by magnetite oxidation during orogenic activity. This secondary component has steep inclinations and is interpreted to have been influenced by a combination of the remanence carried by original parent magnetite, the orogenic stress field, and the prevailing geomagnetic field direction during deformation. This CRM direction is recorded commonly by red beds from the South China Block, and is significant for regional tectonic studies in the area.

Water-Quality, Bed-Sediment, and Biological Data (October 2004 through September 2005) and Statistical Summaries of Data for Streams in the Upper Clark Fork Basin, Montana

USGS Publications Warehouse

Dodge, Kent A.; Hornberger, Michelle I.; Dyke, Jessica

2006-01-01

Water, bed sediment, and biota were sampled in streams from Butte to below Missoula as part of a long-term monitoring program, conducted in cooperation with the U.S. Environmental Protection Agency, to characterize aquatic resources in the upper Clark Fork basin of western Montana. Sampling sites were located on the Clark Fork, six major tributaries, and three smaller tributaries. Water-quality samples were collected periodically at 18 sites during October 2004 through September 2005 (water year 2005). Bed-sediment and biological samples were collected once in August 2005. The primary constituents analyzed were trace elements associated with tailings from historical mining and smelting activities. This report summarizes the results of water-quality, bed-sediment, and biota samples col-lected in water year 2005 and provides statistical summaries of data collected since 1985. Water-quality data for samples collected periodically from streams include concentrations of selected major ions, trace ele-ments, and suspended sediment. Daily values of suspended-sed-iment concentration and suspended-sediment discharge were determined for three sites. Bed-sediment data include trace-ele-ment concentrations in the fine-grained fraction. Bio-logical data include trace-element concentrations in whole-body tissue of aquatic benthic insects. Quality-assurance data are reported for analytical results of water, bed sediment, and biota. Statistical summaries of water-quality, bed-sediment, and biological data are provided for the period of record since 1985 for each site.

Status and understanding of groundwater quality in the Bear Valley and Lake Arrowhead Watershed Study Unit, 2010: California GAMA Priority Basin Project

USGS Publications Warehouse

Mathany, Timothy; Burton, Carmen

2017-06-20

Groundwater quality in the 112-square-mile Bear Valley and Lake Arrowhead Watershed (BEAR) study unit was investigated as part of the Priority Basin Project (PBP) of the Groundwater Ambient Monitoring and Assessment (GAMA) Program. The study unit comprises two study areas (Bear Valley and Lake Arrowhead Watershed) in southern California in San Bernardino County. The GAMA-PBP is conducted by the California State Water Resources Control Board (SWRCB) in cooperation with the U.S. Geological Survey (USGS) and the Lawrence Livermore National Laboratory.The GAMA BEAR study was designed to provide a spatially balanced, robust assessment of the quality of untreated (raw) groundwater from the primary aquifer systems in the two study areas of the BEAR study unit. The assessment is based on water-quality collected by the USGS from 38 sites (27 grid and 11 understanding) during 2010 and on water-quality data from the SWRCB-Division of Drinking Water (DDW) database. The primary aquifer system is defined by springs and the perforation intervals of wells listed in the SWRCB-DDW water-quality database for the BEAR study unit.This study included two types of assessments: (1) a status assessment, which characterized the status of the quality of the groundwater resource as of 2010 by using data from samples analyzed for volatile organic compounds, pesticides, and naturally present inorganic constituents, such as major ions and trace elements, and (2) an understanding assessment, which evaluated the natural and human factors potentially affecting the groundwater quality. The assessments were intended to characterize the quality of groundwater resources in the primary aquifer system of the BEAR study unit, not the treated drinking water delivered to consumers. Bear Valley study area and the Lake Arrowhead Watershed study area were also compared statistically on the basis of water-quality results and factors potentially affecting the groundwater quality.Relative concentrations (RCs), which are sample concentration of a particular constituent divided by its associated health- or aesthetic-based benchmark concentrations, were used for evaluating the groundwater quality for those constituents that have Federal or California regulatory or non-regulatory benchmarks for drinking-water quality. An RC greater than 1.0 indicates a concentration greater than a benchmark. Organic (volatile organic compounds and pesticides) and special-interest (perchlorate) constituent RCs were classified as “high” (RC greater than 1.0), “moderate” (RC less than or equal to 1.0 and greater than 0.1), or “low” (RC less than or equal to 0.1). For inorganic (radioactive, trace element, major ion, and nutrient) constituents, the boundary between low and moderate RCs was set at 0.5.Aquifer-scale proportion was used as the primary metric in the status assessment for evaluating groundwater quality at the study-unit scale or for its component areas. High aquifer-scale proportion was defined as the percentage of the area of the primary aquifer system with a RC greater than 1.0 for a particular constituent or class of constituents; the percentage is based on area rather than volume. Moderate and low aquifer-scale proportions were defined as the percentage of the primary aquifer system with moderate and low RCs, respectively. A spatially weighted statistical approach was used to evaluate aquifer-scale proportions for individual constituents and classes of constituents.The status assessment for the Bear Valley study area found that inorganic constituents with health-based benchmarks were detected at high RCs in 9.0 percent of the primary aquifer system and at moderate RCs in 13 percent. The high RCs of inorganic constituents primarily reflected high aquifer-scale proportions of fluoride (in 5.4 percent of the primary aquifer system) and arsenic (3.6 percent). The RCs of organic constituents with health-based benchmarks were high in 1.0 percent of the primary aquifer system, moderate in 8.1 percent, and low in 70 percent. Organic constituents were detected in 79 percent of the primary aquifer system. Two groups of organic constituents and two individual organic constituents were detected at frequencies greater than 10 percent of samples from the USGS grid sites: trihalomethanes (THMs), solvents, methyl tert-butyl ether (MTBE), and simazine. The special-interest constituent perchlorate was detected in 93 percent of the primary aquifer system; it was detected at moderate RCs in 7.1 percent and at low RCs in 86 percent.The status assessment in the Lake Arrowhead Watershed study area showed that inorganic constituents with human-health benchmarks were detected at high RCs in 25 percent of the primary aquifer system and at moderate RCs in 41 percent. The high aquifer-scale proportion of inorganic constituents primarily reflected high aquifer-scale proportions of radon‑222 (in 62 percent of the primary aquifer system) and uranium (26 percent). RCs of organic constituents with health-based benchmarks were moderate in 7.7 percent of the primary aquifer system and low in 46 percent. Organic constituents were detected in 54 percent of the primary aquifer system. The only organic constituents that were detected at frequencies greater than 10 percent of samples from the USGS grid sites were THMs. Perchlorate was detected in 62 percent of the primary aquifer system at uniformly low RCs.The second component of this study, the understanding assessment, identified the natural and human factors that could have affected the groundwater quality in the BEAR study unit by evaluating statistical correlations between water-quality constituents and potential explanatory factors. The potential explanatory factors evaluated were land use (including density of septic tanks and leaking or formerly leaking underground fuel tanks), site type, aquifer lithology, well construction (well depth and depth to the top-of-perforated interval), elevation, aridity index, groundwater-age distribution, and oxidation-reduction condition (including pH and dissolved oxygen concentration). Results of the statistical evaluations were used to explain the distribution of constituents in groundwater of the BEAR study unit.In the Bear Valley study area, high and moderate RCs of fluoride were found in sites known to be influenced by hydrothermic conditions or that had high concentrations of fluoride historically. The high RC of arsenic can likely be attributed to desorption of arsenic from aquifer sediments saturated in old groundwater with high pH under reducing conditions. The THMs were detected more frequently at USGS grid sites that were wells, part of a large urban water system, and surrounded by urban land use. Solvents, MTBE, and simazine were all detected more frequently at USGS grid sites that were wells with a greater urban percentage of surrounding land use and that accessed older groundwater than other USGS grid sites. Comparison between the observed and predicted detection frequencies of perchlorate at USGS grid sites indicated that anthropogenic sources could have contributed to low levels of perchlorate in the groundwater of the Bear Valley study area.In the Lake Arrowhead Watershed study area, high and moderate RCs of radon-222 and uranium can be attributed to older groundwater from the granitic fractured-rock primary aquifer system. Low RCs of THMs were detected at USGS grid sites that were wells and part of small water systems. The similarities between the observed and predicted detection frequencies of perchlorate in samples from USGS grid sites indicated that the source and distribution of perchlorate were most likely attributable to precipitation (rain and snow), with minimal, if any, contribution from anthropogenic sources.

High prevalence of antiretroviral drug resistance among HIV-1-untreated patients in Guinea-Conakry and in Niger.

PubMed

Charpentier, Charlotte; Bellecave, Pantxika; Cisse, Mohamed; Mamadou, Saidou; Diakite, Mandiou; Peytavin, Gilles; Tchiombiano, Stéphanie; Teisseire, Pierre; Pizarro, Louis; Storto, Alexandre; Brun-Vézinet, Françoise; Katlama, Christine; Calvez, Vincent; Marcelin, Anne-Geneviève; Masquelier, Bernard; Descamps, Diane

2011-01-01

The aim of the study was to assess the prevalence of antiretroviral drug resistance mutations in HIV-1 from recently diagnosed and untreated patients living in Conakry, Guinea-Conakry and in Niamey, Niger. The study was performed in two countries of Western Africa - Guinea-Conakry and Niger - using the same survey method in both sites. All newly HIV-1 diagnosed patients, naive of antiretroviral drugs, were consecutively included during September 2009 in each of the two sites. Protease and reverse transcriptase sequencing was performed using the ANRS procedures. Drug resistance mutations were identified according to the 2009 update surveillance drug resistance mutations. In Conakry, 99 patients were included, most of whom (89%) were infected with CRF02_AG recombinant virus. Resistance analysis among the 93 samples showed that ≥1 drug resistance mutation was observed in 8 samples, leading to a prevalence of primary resistance of 8.6% (95% CI 2.91-14.29%). In Niamey, 96 patients were included; a high diversity in HIV-1 subtypes was observed with 47 (51%) patients infected with CRF02_AG. Resistance analysis performed among the 92 samples with successful genotypic resistance test showed that ≥1 drug resistance mutation was observed in 6 samples, leading to a prevalence of primary resistance of 6.5% (95% CI 1.50-11.50%). We reported the first antiretroviral drug resistance survey studies in antiretroviral-naive patients living in Guinea-Conakry and in Niger. The prevalence of resistance was between 6% and 9% in both sites, which is higher than most of the other countries from Western Africa region.

Leaf Cutter Ant (Atta cephalotes) Soil Modification and In Situ CO2 Gas Dynamics in a Neotropical Wet Forest

NASA Astrophysics Data System (ADS)

Fernandez Bou, A. S.; Carrasquillo Quintana, O.; Dierick, D.; Harmon, T. C.; Johnson, S.; Schwendenmann, L.; Zelikova, T. J.

2016-12-01

The goal of this work is to advance our understanding of soil carbon cycling in highly productive neotropical wet forests. More specifically, we are investigating the influence of leaf cutter ants (LCA) on soil CO2 gas dynamics in primary and secondary forest soils at La Selva Biological Station, Costa Rica. LCA are the dominant herbivore in tropical Americas, responsible for as much as 50% of the total herbivory. Their presence is increasing and their range is expanding because of forest fragmentation and other human impacts. We installed gas sampling wells in LCA (Atta cephalotes) nest and control sites (non-nests in the same soil and forest settings). The experimental design encompassed land cover (primary and secondary forest) and soil type (residual and alluvial). We collected gas samples monthly over an 18-month period. Several of the LCA nests were abandoned during this period. Nevertheless, we continued to sample these sites for LCA legacy effects. In several of the sites, we also installed sensors to continuously monitor soil moisture content, temperature, and CO2 levels. Within the 18-month period we conducted a 2-month field campaign to collect soil and nest vent CO2 efflux data from 3 of the nest-control pairs. Integrating the various data sets, we observed that for most of the sites nest and control soils behaved similarly during the tropical dry season. However, during the wet season gas well CO2 concentrations increased in the control sites while levels in the nests remained at dry season levels. This outcome suggests that ants modify soil gas transport properties (e.g., tortuosity). In situ time series and efflux sampling campaign data corroborated these findings. Abandoned nest CO2 levels were similar to those of the active nests, supporting the notion of a legacy effect from LCA manipulations. For this work, the period of abandonment was relatively short (several months to 1 year maximum), which appears to be insufficient for estimating the duration effect. Overall, these results demonstrate that LCA exert a significant effect on carbon cycling in rain forest soils.

Paleomagnetic and magnetostratigraphic investigations of the whitehorse group/quartermaster (Dewey Lake) formation (upper permian-lowermost triassic) in the Palo Duro basin, northwest Texas, USA

NASA Astrophysics Data System (ADS)

Collins, Dylan R.

In northwest Texas, upper Permian to lowermost Triassic hematite-cemented detrital sedimentary rocks, which include a small number of regionally extensive ash beds, were deposited during the time interval of the greatest mass extinction event sequences in Earth history. The magnetic polarity stratigraphy, as well as key rock magnetic properties, of the upper Whitehorse Group (WH) and Quartermaster formations (QM) at selected sections in the Palo Duro Basin, have been determined using thermal, and chemical demagnetization approaches and anisotropy of magnetic susceptibility, acquisition of isothermal remanent magnetization (IRM) and backfield demagnetization, and thermal demagnetization of three component IRM methods. Demagnetization results show that the WH/QM contains a primary/near-primary characteristic remanent magnetization at each level sampled and thus the magnetic polarity stratigraphy for each section can be compared with existing polarity time scales across the Permian-Triassic boundary. Estimated site mean directions yield a paleomagnetic pole for the latest Permian for North America of 57.8°N, 130.6°E from 38 sampled sites.

Relations Between Environmental and Water-Quality Variables and Escherichia coli in the Cuyahoga River With Emphasis on Turbidity as a Predictor of Recreational Water Quality, Cuyahoga Valley National Park, Ohio, 2008

USGS Publications Warehouse

Brady, Amie M.G.; Plona, Meg B.

2009-01-01

During the recreational season of 2008 (May through August), a regression model relating turbidity to concentrations of Escherichia coli (E. coli) was used to predict recreational water quality in the Cuyahoga River at the historical community of Jaite, within the present city of Brecksville, Ohio, a site centrally located within Cuyahoga Valley National Park. Samples were collected three days per week at Jaite and at three other sites on the river. Concentrations of E. coli were determined and compared to environmental and water-quality measures and to concentrations predicted with a regression model. Linear relations between E. coli concentrations and turbidity, gage height, and rainfall were statistically significant for Jaite. Relations between E. coli concentrations and turbidity were statistically significant for the three additional sites, and relations between E. coli concentrations and gage height were significant at the two sites where gage-height data were available. The turbidity model correctly predicted concentrations of E. coli above or below Ohio's single-sample standard for primary-contact recreation for 77 percent of samples collected at Jaite.

Availability, cost, and prescription patterns of antihypertensive medications in primary health care in China: a nationwide cross-sectional survey.

PubMed

Su, Meng; Zhang, Qiuli; Bai, Xueke; Wu, Chaoqun; Li, Yetong; Mossialos, Elias; Mensah, George A; Masoudi, Frederick A; Lu, Jiapeng; Li, Xi; Salas-Vega, Sebastian; Zhang, Anwen; Lu, Yuan; Nasir, Khurram; Krumholz, Harlan M; Jiang, Lixin

2017-12-09

Around 200 million adults in China have hypertension, but few are treated or achieve adequate control of their blood pressure. Available and affordable medications are important for successfully controlling hypertension, but little is known about current patterns of access to, and use of, antihypertensive medications in Chinese primary health care. We used data from a nationwide cross-sectional survey (the China Patient-Centered Evaluative Assessment of Cardiac Events Million Persons Project primary health care survey), which was undertaken between November, 2016 and May, 2017, to assess the availability, cost, and prescription patterns of 62 antihypertensive medications at primary health-care sites across 31 Chinese provinces. We surveyed 203 community health centres, 401 community health stations, 284 township health centres, and 2474 village clinics to assess variation in availability, cost, and prescription by economic region and type of site. We also assessed the use of high-value medications, defined as guideline-recommended and low-cost. We also examined the association of medication cost with availability and prescription patterns. Our study sample included 3362 primary health-care sites and around 1 million people (613 638 people at 2758 rural sites and 478 393 people at 604 urban sites). Of the 3362 sites, 8·1% (95% CI 7·2-9·1) stocked no antihypertensive medications and 33·8% (32·2-35·4) stocked all four classes that were routinely used. Village clinics and sites in the western region of China had the lowest availability. Only 32·7% (32·2-33·3) of all sites stocked high-value medications, and few high-value medications were prescribed (11·2% [10·9-11·6] of all prescription records). High-cost medications were more likely to be prescribed than low-cost alternatives. China has marked deficiencies in the availability, cost, and prescription of antihypertensive medications. High-value medications are not preferentially used. Future efforts to reduce the burden of hypertension, particularly through the work of primary health-care providers, will need to improve access to, and use of, antihypertensive medications, paying particular attention to those with high value. CAMS Innovation Fund for Medical Science, the Entrusted Project from the China National Development and Reform Commission, and the Major Public Health Service Project from the Ministry of Finance of China and National Health and Family Planning Commission of China. Copyright © 2017 Elsevier Ltd. All rights reserved.

Catonella morbi and Granulicatella adiacens: new species in endodontic infections.

PubMed

Siqueira, José F; Rôças, Isabela N

2006-08-01

This study intended to examine samples from primary endodontic infections for the presence of Catonella morbi and Granulicatella adiacens, 2 species that have been recently suggested to be involved with infections in other oral sites. Genomic DNA was isolated directly from samples taken from teeth with different forms of apical periodontitis, and a devised culture-independent 16S rRNA gene-based heminested PCR assay was used to determine the prevalence of these 2 target species. Species-specific primers were developed by aligning closely related 16S rRNA gene sequences. Species-specificity for each primer pair was confirmed by running PCR against a panel of oral bacteria and by sequencing of DNA from representative positive samples. C morbi and G adiacens were detected in 33% and 19%, respectively, of the root canals associated with chronic apical periodontitis; 30% and 10%, respectively, of the cases diagnosed as acute apical periodontitis, and 16% and 11%, respectively, of the pus samples taken from acute apical abscesses. Overall, C morbi occurred in 26% and G adiacens in 14% of the samples taken from primary endodontic infections. Our findings demonstrate that C morbi and G adiacens can take part in the microbiota associated with primary endodontic infections, and their specific role in the disease process warrants further elucidation.

Beyond Electronic Brochures: An Analysis of Singapore Primary School Web Sites

ERIC Educational Resources Information Center

Hu, Chun; Soong, Andrew Kheng Fah

2007-01-01

This study aims to investigate how Singapore primary schools use their web sites, what kind of information is contained in the web sites, and how the information is presented. Based on an analysis of 176 primary school web sites, which represent all but one of the country's primary schools, findings indicate that most of Singapore's primary school…

42 CFR 81.23 - Guidelines for cancers for which primary site is unknown.

Code of Federal Regulations, 2010 CFR

2010-10-01

... 42 Public Health 1 2010-10-01 2010-10-01 false Guidelines for cancers for which primary site is... Estimate Probability of Causation § 81.23 Guidelines for cancers for which primary site is unknown. (a) In claims for which the primary cancer site cannot be determined, but a site of metastasis is known, DOL...

42 CFR 81.23 - Guidelines for cancers for which primary site is unknown.

Code of Federal Regulations, 2011 CFR

2011-10-01

... 42 Public Health 1 2011-10-01 2011-10-01 false Guidelines for cancers for which primary site is... Estimate Probability of Causation § 81.23 Guidelines for cancers for which primary site is unknown. (a) In claims for which the primary cancer site cannot be determined, but a site of metastasis is known, DOL...

42 CFR 81.23 - Guidelines for cancers for which primary site is unknown.

Code of Federal Regulations, 2012 CFR

2012-10-01

... 42 Public Health 1 2012-10-01 2012-10-01 false Guidelines for cancers for which primary site is... Estimate Probability of Causation § 81.23 Guidelines for cancers for which primary site is unknown. (a) In claims for which the primary cancer site cannot be determined, but a site of metastasis is known, DOL...

42 CFR 81.23 - Guidelines for cancers for which primary site is unknown.

Code of Federal Regulations, 2014 CFR

2014-10-01

... 42 Public Health 1 2014-10-01 2014-10-01 false Guidelines for cancers for which primary site is... Estimate Probability of Causation § 81.23 Guidelines for cancers for which primary site is unknown. (a) In claims for which the primary cancer site cannot be determined, but a site of metastasis is known, DOL...

42 CFR 81.23 - Guidelines for cancers for which primary site is unknown.

Code of Federal Regulations, 2013 CFR

2013-10-01

... 42 Public Health 1 2013-10-01 2013-10-01 false Guidelines for cancers for which primary site is... Estimate Probability of Causation § 81.23 Guidelines for cancers for which primary site is unknown. (a) In claims for which the primary cancer site cannot be determined, but a site of metastasis is known, DOL...

System and method for laser assisted sample transfer to solution for chemical analysis

DOEpatents

Van Berkel, Gary J; Kertesz, Vilmos

2014-01-28

A system and method for laser desorption of an analyte from a specimen and capturing of the analyte in a suspended solvent to form a testing solution are described. The method can include providing a specimen supported by a desorption region of a specimen stage and desorbing an analyte from a target site of the specimen with a laser beam centered at a radiation wavelength (.lamda.). The desorption region is transparent to the radiation wavelength (.lamda.) and the sampling probe and a laser source emitting the laser beam are on opposite sides of a primary surface of the specimen stage. The system can also be arranged where the laser source and the sampling probe are on the same side of a primary surface of the specimen stage. The testing solution can then be analyzed using an analytical instrument or undergo further processing.

Environment Monitor

NASA Technical Reports Server (NTRS)

1988-01-01

Viking landers touched down on Mars equipped with a variety of systems to conduct automated research, each carrying a compact but highly sophisticated instrument for analyzing Martian soil and atmosphere. Instrument called a Gas Chromatography/Mass Spectrometer (GC/MS) had to be small, lightweight, shock resistant, highly automated and extremely sensitive, yet require minimal electrical power. Viking Instruments Corporation commercialized this technology and targeted their primary market as environmental monitoring, especially toxic and hazardous waste site monitoring. Waste sites often contain chemicals in complex mixtures, and the conventional method of site characterization, taking samples on-site and sending them to a laboratory for analysis is time consuming and expensive. Other terrestrial applications are explosive detection in airports, drug detection, industrial air monitoring, medical metabolic monitoring and for military, chemical warfare agents.

Effects of urbanization on water quality in the Kansas River, Shunganunga Creek Basin, and Soldier Creek, Topeka, Kansas, October 1993 through September 1995

USGS Publications Warehouse

Pope, L.M.; Putnam, J.E.

1997-01-01

A study of urban-related water-qulity effects in the Kansas River, Shunganunga Creek Basin, and Soldier Creek in Topeka, Kansas, was conducted from October 1993 through September 1995. The purpose of this report is to assess the effects of urbanization on instream concentrations of selected physical and chemical constituents within the city of Topeka. A network of seven sampling sites was established in the study area. Samples principally were collected at monthly intervals from the Kansas River and from the Shunganunga Creek Basin, and at quarterly intervals from Soldier Creek. The effects of urbanization werestatistically evaluated from differences in constituent concentrations between sites on the same stream. No significant differences in median concentrations of dissolved solids, nutrients, or metals and trace elements, or median densities offecal bacteria were documented between sampling sites upstream and downstream from the major urbanized length of the Kansas River in Topeka.Discharge from the city's primary wastewater- treatment plant is the largest potential source of contamination to the Kansas River. This discharge increased concentrations of dissolved ammonia, totalphosphorus, and densities of fecal bacteria.Calculated dissolved ammonia as nitrogen concentrations in water from the Kansas River ranged from 0.03 to 1.1 milligrams per liter after receiving treatment-plant discharge. However, most of the calculated concentrations wereconsiderably less than 50 percent of Kansas Department of Health and Environment water- quality criteria, with a median value of 20 percent.Generally, treatment-plant discharge increased calculated total phosphorus concentrations in water from the Kansas River by 0.01 to 0.04 milligrams per liter, with a median percentage increase of 7.6 percent. The calculated median densities of fecal coliform and fecal Streptococci bacteria in water from the Kansas River increased from 120 and 150colonies per 100 milliliters of water, respectively, before treatment-plant discharge to a calculated 4,900 and 4,700 colonies per 100 milliliters of water, respectively, after discharge. Median concentrations of dissolved solids were not significantly different between three sampling sites in the Shunganunga Creek Basin. Median concentrations of dissolved nitrate as nitrogen, total phosphorus, and dissolved orthophosphate were significantly larger in water from the upstream- most Shunganunga Creek sampling site than in water from either of the other sampling sites in the Shunganunga Creek Basin probably because of the site's proximity to a wastewater-treatment plant.Median concentrations of dissolved nitrate as nitrogen and total phosphorus during 1993-95 at upstream sampling sites were either significantlylarger than during 1979-81 in response to increase of wastewater-treatment plant discharge or smaller because of the elimination of wastewater-treatment plant discharge. Median concentrations of dissolved ammonia as nitrogen were significantly less during 1993-95 than during 1979-81. Median concentrations of total aluminum, iron, maganese, and molybdenum were significantly larger in water from the downstream-mostShunganunga Creek sampling site than in water from the upstream-most sampling site. This probably reflects their widespread use in the urbanenvironment between the upstream and downstream Shunganunga Creek sampling sites. Little water-quality effect from the urbanization was indicated by results from the Soldier Creek sampling site. Median concentrations of most water-quality constituents in water from this sampling site were the smallest in water from any sampling site in the study area. Herbicides were detected in water from all sampling sites. Some of the more frequently detected herbicides included acetochlor, alachlor,atrazine, cyanazine, EPTC, metolachlor, prometon, simazine, and tebuthiuron. Detected insecticides including chlordane,

Hourly elemental concentrations in PM2.5 aerosols sampled simultaneously at urban background and road site during SAPUSS - diurnal variations and PMF receptor modelling

NASA Astrophysics Data System (ADS)

Dall'Osto, M.; Querol, X.; Amato, F.; Karanasiou, A.; Lucarelli, F.; Nava, S.; Calzolai, G.; Chiari, M.

2013-04-01

Hourly-resolved aerosol chemical speciation data can be a highly powerful tool to determine the source origin of atmospheric pollutants in urban environments. Aerosol mass concentrations of seventeen elements (Na, Mg, Al, S, Cl, K, Ca, Ti, V, Cr, Mn, Fe, Ni, Cu, Zn, Sr and Pb) were obtained by time (1 h) and size (PM2.5 particulate matter < 2.5 μm) resolved aerosol samples analysed by Particle Induced X-ray Emission (PIXE) measurements. In the Marie Curie European Union framework of SAPUSS (Solving Aerosol Problems by Using Synergistic Strategies), the approach used is the simultaneous sampling at two monitoring sites in Barcelona (Spain) during September-October 2010: an urban background site (UB) and a street canyon traffic road site (RS). Elements related to primary non-exhaust traffic emission (Fe, Cu), dust resuspension (Ca) and anthropogenic Cl were found enhanced at the RS, whereas industrial related trace metals (Zn, Pb, Mn) were found at higher concentrations at the more ventilated UB site. When receptor modelling was performed with positive matrix factorization (PMF), nine different aerosol sources were identified at both sites: three types of regional aerosols (regional sulphate (S) - 27%, biomass burning (K) - 5%, sea salt (Na-Mg) - 17%), three types of dust aerosols (soil dust (Al-Ti) - 17%, urban crustal dust (Ca) - 6%, and primary traffic non-exhaust brake dust (Fe-Cu) - 7%), and three types of industrial aerosol plumes-like events (shipping oil combustion (V-Ni) - 17%, industrial smelters (Zn-Mn) - 3%, and industrial combustion (Pb-Cl) - 5%, percentages presented are average source contributions to the total elemental mass measured). The validity of the PMF solution of the PIXE data is supported by very good correlations with external single particle mass spectrometry measurements. Some important conclusions can be drawn about the PM2.5 mass fraction simultaneously measured at the UB and RS sites: (1) the regional aerosol sources impact both monitoring sites at similar concentrations regardless their different ventilation conditions; (2) by contrast, local industrial aerosol plumes associated with shipping oil combustion and smelters activities have a higher impact on the more ventilated UB site; (3) a unique source of Pb-Cl (associated with combustion emissions) is found to be the major (82%) source of fine Cl in the urban agglomerate; (4) the mean diurnal variation of PM2.5 primary traffic non-exhaust brake dust (Fe-Cu) suggests that this source is mainly emitted and not resuspended, whereas PM2.5 urban dust (Ca) is found mainly resuspended by both traffic vortex and sea breeze; (5) urban dust (Ca) is found the aerosol source most affected by land wetness, reduced by a factor of eight during rainy days and suggesting that wet roads may be a solution for reducing urban dust concentrations.

Water-quality reconnaissance of the north Dade County solid-waste facility, Florida

USGS Publications Warehouse

McKenzie, D.J.

1982-01-01

A water-quality sampling reconnaissance of the north Dade County solid-waste disposal facility (landfill) near Carol City, Florida, was conducted during 1977-78. The purpose of the reconnaissance was to determine selected quality characteristics of the surface- and ground-water of the landfill and contiguous area; and to assess, generally, if leachate produced by the decomposition of landfill wastes was adversely impacting the downgradient water quality. Sampling results indicated that several water-quality characteristics were present in landfill ground water at significantly higher levels than in ground water upgradient or downgradient from the landfill. Moreover, many of these water-quality characteristics were found at slightly higher levels at down gradient site 5 than at upgradient site 1 which suggested that some downgradient movement of landfill leachate had occurred. For example, chloride and alkalinity in ground water had average concentrations of 20 and 290 mg/L at background wells (site 1), 144 and 610 mg/L at landfill wells (sites 2 and 4), and 29 and 338 mg/L at downgradient wells (site 5). A comparison of the 1977-78 sampling results with the National Primary and Secondary Drinking Water Regulations indicated that levels of iron and color in ground water of the study area frequently exceeded national maximum contaminant levels, dissolved solids, turbidity, lead, and manganese occasionally exceeded regulations. Concentrations of iron and levels of color and turbidity in some surface water samples also exceeded National maximum contaminant levels. (USGS)

Spatial monitoring of heavy metals in the inland waters of Serbia: a multispecies approach based on commercial fish.

PubMed

Milošković, Aleksandra; Dojčinović, Biljana; Kovačević, Simona; Radojković, Nataša; Radenković, Milena; Milošević, Djuradj; Simić, Vladica

2016-05-01

The study monitored the contamination of fish muscle tissue by elements Al, As, Cd, Co, Cr, Cu, Fe, Hg, Mn, Ni, Pb, and Zn at 17 sampling sites, in order to assess the pollution status of the main rivers in Serbia. Of the six commercially important fish species included in the study (pikeperch Sander lucioperca, catfish Silurus glanis, bream Abramis brama, barbel Barbus barbus, chub Squalius cephalus, nase Chondrostoma nasus), the bioconcentration factor (BCF) indicated that benthivore bream and barbel and predatory catfish have the highest tendency toward the accumulation of elements. This study achieved its primary objective and produced a contamination map of Serbia as a basis for further research. The estimated metal pollution index (MPI) showed the Tisa River to be unaffected by direct pollution (with an MPI value of 0.31) and the West Morava and Pek rivers to be affected (with MPI values of 1.92 and 0.73 for the WM1 and WM2 sampling sites and 0.65 for the Pek sampling site). Over the past two decades, Serbia has not expanded its industrial activity, which has resulted in the barely noticeable anthropogenic input of heavy metals in the rivers close to industry, and the main rivers are mostly unaffected and slightly affected. We assumed that pollution by heavy metals in the 1990s was trapped in the sediment, thus showing an increased concentration of elements in the species that live and feed on the bottom. Hg concentrations exceeded the maximum permitted concentrations (MPCs) only in catfish samples (0.62 mg kg(-1)) from the Danube (D3 sampling site) and barbel (0.78 mg kg(-1)) from the West Morava (WM1 sampling site), while Cd concentrations exceeded the MPC in catfish samples (0.09 mg kg(-1)) from the Danube (D1 sampling site) and chub samples (0.1 mg kg(-1)) from the South Morava (SM2 sampling site). The average concentrations of Pb exceeded the MPC in chub and barbel samples (0.32 and 0.82 mg kg(-1), respectively) from the West Morava (WM1 sampling site); chub, barbel, and nase samples (0.35, 0.32, 0.31 mg kg(-1), respectively) from the West Morava (WM2 sampling site); chub and barbel samples (0.35 and 0.3 mg kg(-1), respectively) from the Ibar; chub samples (0.39 mg kg(-1)) from the Drina; chub and barbel samples (0.59 and 0.4 mg kg(-1), respectively) from the Great Timok; and nase samples (0.33 mg kg(-1)) from the Pek. These results demonstrate that there is a need for future studies that would involve similar analyses and focus especially on smaller rivers that have been neglected so far.

Evaluation of Epstein-Barr Virus infection in hypopharyngeal carcinomas from 37 Japanese patients.

PubMed

Zhou, L; Miyagi, Y; Hiroshi, E; Tanaka, Y; Aoki, I; Tsukuda, M

1998-06-01

Thirty-seven biopsy specimens from primary sites, 18 surgically removed metastatic neck nodes, and 18 surgically removed primary sites from 37 patients with hypopharyngeal carcinoma (HPC) were evaluated for the presence of Epstein-Barr Virus (EBV) infection by in situ hybridization (ISH) and polymerase chain reaction (PCR). Although some of normal lymphocytes in 6 of 18 metastatic nodes were positive by ISH, there were no positive results from HPC tumor cells themselves. Our results indicate that EBV-infected non-neoplastic cells such as lymphocytes can be a cause of false positivity, if a study were conducted with PCR alone. Because ISH for EBV-encoded early RNAs was highly sensitive, even more sensitive than PCR from paraffin-embedded samples in our study, this method should be the first choice for identification of EBV infection to avoid false positives.

Profiling quinones in ambient air samples collected from the Athabasca region (Canada).

PubMed

Wnorowski, Andrzej; Charland, Jean-Pierre

2017-12-01

This paper presents new findings on polycyclic aromatic hydrocarbon oxidation products-quinones that were collected in ambient air samples in the proximity of oil sands exploration. Quinones were characterized for their diurnal concentration variability, phase partitioning, and molecular size distribution. Gas-phase (GP) and particle-phase (PM) ambient air samples were collected separately in the summer; a lower quinone content was observed in the PM samples from continuous 24-h sampling than from combined 12-h sampling (day and night). The daytime/nocturnal samples demonstrated that nighttime conditions led to lower concentrations and some quinones not being detected. The highest quinone levels were associated with wind directions originating from oil sands exploration sites. The statistical correlation with primary pollutants directly emitted from oil sands industrial activities indicated that the bulk of the detected quinones did not originate directly from primary emission sources and that quinone formation paralleled a reduction in primary source NO x levels. This suggests a secondary chemical transformation of primary pollutants as the origin of the determined quinones. Measurements of 19 quinones included five that have not previously been reported in ambient air or in Standard Reference Material 1649a/1649b and seven that have not been previously measured in ambient air in the underivatized form. This is the first paper to report on quinone characterization in secondary organic aerosols originating from oil sands activities, to distinguish chrysenequinone and anthraquinone positional isomers in ambient air, and to report the requirement of daylight conditions for benzo[a]pyrenequinone and naphthacenequinone to be present in ambient air. Crown Copyright © 2017. Published by Elsevier Ltd. All rights reserved.

Characterization of water quality and biological communities, Fish Creek, Teton County, Wyoming, 2007-08

USGS Publications Warehouse

Eddy-Miller, Cheryl A.; Peterson, David A.; Wheeler, Jerrod D.; Leemon, Daniel J.

2010-01-01

Fish Creek, a tributary to the Snake River, is about 25 river kilometers long and is located in Teton County in western Wyoming near the town of Wilson. Public concern about nuisance growths of aquatic plants in Fish Creek have been increasing in recent years. To address this concern, the U.S. Geological Survey conducted a study in cooperation with the Teton Conservation District to characterize the water quality and biological communities in Fish Creek. Water-quality samples were collected for analyses of physical properties and water chemistry (nutrients, nitrate isotopes, and wastewater chemicals) between March 2007 and October 2008 from seven surface-water sites and three groundwater wells. During this same period, aquatic plant and macroinvertebrate samples were collected and habitat characteristics were measured at the surface-water sites. The main objectives of this study were to (1) evaluate nutrient concentrations (that influence biological indicators of eutrophication) and potential sources of nutrients by using stable isotope analysis and other indicator chemicals (such as caffeine and disinfectants) that could provide evidence of anthropogenic sources, such as wastewater or septic tank contamination in Fish Creek and adjacent groundwater, and (2) characterize the algal, macrophyte, and macroinvertebrate communities and habitat of Fish Creek. Nitrate was the dominant species of dissolved nitrogen present in all samples and was the only bioavailable species detected at concentrations greater than the laboratory reporting level in all surface-water samples. Average concentrations of dissolved nitrate in surface water were largest in samples collected from the two sites with seasonal flow near Teton Village and decreased downstream; the smallest concentration was at downstream site A-Wck. Concentrations of dissolved nitrate in groundwater were consistently greater than concentrations in corresponding surface-water sites during the same sampling event. Orthophosphate was the primary dissolved species of phosphorus present in all surface-water and groundwater samples. The average concentration of dissolved orthophosphate in surface water was largest in samples collected from near Teton Village; samples from all other sites had similar average concentrations. Concentrations of dissolved orthophosphate in groundwater also were typically greater than concentrations in corresponding surface-water sites during the same sampling event. The aquatic plant communities in Fish Creek typically were composed of a mixture of macrophytes, macroalgae, microalgae, and moss. The composition of the aquatic plant community in Fish Creek appeared to shift in the downstream direction in 2007. On average, the proportion of macrophytes ranged from about 1 percent at site A-R1U, the most upstream site, to 54 percent of the plant community at site A-R6D, the farthest downstream site sampled during 2007. The downstream increase in macrophytes was accompanied by a downstream decrease in microalgae. The average proportion of microalgae ranged from 80 percent at site A-R1U to 24 percent at site A-R6D. The proportion of the macroalgae Cladophora in the aquatic plant community was relatively high at sites A-Wck and A-R3D in both 2007 and 2008.

Public health assessment for Petro-Chemical, Inc. (Turtle Bayou) Liberty, Liberty County, Texas, Region 6. CERCLIS No. TXD980873350. Final report

DOE Office of Scientific and Technical Information (OSTI.GOV)

Not Available

1993-03-30

The Petro-Chemical Systems, Inc. site, located near Liberty, Texas, is a site where unauthorized disposal of petroleum-based oils has taken place. Although there is evidence of past exposure to site contaminants, the best available evidence does not indicate that humans are currently being exposed to site contaminants at levels that could cause adverse health effects. Contaminated ground water, surface water, soils, and surface water sediments have been found on the site. Although sampling was done for 144 priority pollutants, the primary contaminants of concern are benzene, ethylbenzene, xylene, naphthalene, polycyclic aromatic hydrocarbons, and lead. Because the greatest threat to publicmore » health would be contamination of drinking water, the Agency for Toxic Substances and Disease Registry (ATSDR) has recommended that necessary actions are taken to insure that private wells do not become contaminated with site contaminants.« less

A comparison of ruminal or reticular digesta sampling as an alternative to sampling from the omasum of lactating dairy cows.

PubMed

Fatehi, F; Krizsan, S J; Gidlund, H; Huhtanen, P

2015-05-01

The objective of this study was to develop and compare techniques for determining nutrient flow based on digesta samples collected from the reticulum or rumen of lactating dairy cows with estimates generated by the omasal sampling technique. Pre-experimental method development suggested, after comparing with the particle size distribution of feces, application of primary sieving of ruminal and reticular digesta from lactating cows through an 11.6-mm sieve, implying that digesta particles smaller than this were eligible to flow out of the rumen. For flow measurements at the different sampling sites 4 multiparous, lactating Nordic Red cows fitted with ruminal cannulas were used in a Latin square design with 4 dietary treatments, in which crimped barley was replaced with 3 incremental levels of protein supplementation of canola meal. Digesta was collected from the rumen, reticulum, and omasum to represent a 24-h feeding cycle. Nutrient flow was calculated using the reconstitution system based on Cr, Yb, and indigestible neutral detergent fiber and using (15)N as microbial marker. Large and small particles and the fluid phase were recovered from digesta collected at all sampling sites. Bacterial samples were isolated from the digesta collected from the omasum. Several differences existed for digesta composition, nutrient flows, and estimates of ruminal digestibility among the 3 different sampling sites. Sampling site × diet interactions were not significant. The estimated flows of DM, potentially digestible neutral detergent fiber, nonammonia N, and microbial N were significantly different between all sampling sites. However, the difference between DM flow based on sampling from the reticulum and the omasum was small (0.13kg/d greater in the omasum). The equality between the reticulum and the omasum as sampling sites was supported by the following regression: omasal DM flow=0.37 (±0.649) + 0.94 (±0.054) reticular DM flow (R(2)=0.96 and root mean square error=0.438kg/d). More deviating nutrient-flow estimates when sampling digesta from the rumen than the reticulum compared with the omasum suggested that sampling from the reticulum is the most promising alternative to the omasal sampling technique. To definitively promote sampling from the reticulum as an alternative to the omasal sampling technique, more research is needed to determine selection criteria of reticular digesta for accurate and precise flow estimates across a range of diets. Copyright © 2015 American Dairy Science Association. Published by Elsevier Inc. All rights reserved.

Primary sources and secondary formation of organic aerosols in Beijing, China.

PubMed

Guo, Song; Hu, Min; Guo, Qingfeng; Zhang, Xin; Zheng, Mei; Zheng, Jun; Chang, Chih Chung; Schauer, James J; Zhang, Renyi

2012-09-18

Ambient aerosol samples were collected at an urban site and an upwind rural site of Beijing during the CAREBEIJING-2008 (Campaigns of Air quality REsearch in BEIJING and surrounding region) summer field campaign. Contributions of primary particles and secondary organic aerosols (SOA) were estimated by chemical mass balance (CMB) modeling and tracer-yield method. The apportioned primary and secondary sources explain 73.8% ± 9.7% and 79.6% ± 10.1% of the measured OC at the urban and rural sites, respectively. Secondary organic carbon (SOC) contributes to 32.5 ± 15.9% of the organic carbon (OC) at the urban site, with 17.4 ± 7.6% from toluene, 9.7 ± 5.4% from isoprene, 5.1 ± 2.0% from α-pinene, and 2.3 ± 1.7% from β-caryophyllene. At the rural site, the secondary sources are responsible for 38.4 ± 14.4% of the OC, with the contributions of 17.3 ± 6.9%, 13.9 ± 9.1%, 5.6 ± 1.9%, and 1.7 ± 1.0% from toluene, isoprene, α-pinene, and β-caryophyllene, respectively. Compared with other regions in the world, SOA in Beijing is less aged, but the concentrations are much higher; between the sites, SOA is more aged and affected by regional transport at the urban site. The high SOA loading in Beijing is probably attributed to the high regional SOC background (~2 μg m(-3)). The toluene SOC concentration is high and comparable at the two sites, implying that some anthropogenic components, at least toluene SOA, are widespread in Beijing and represents a major factor in affecting the regional air quality. The aerosol gaseous precursor concentrations and temperature correlate well with SOA, both affecting SOA formation. The significant SOA enhancement with increasing water uptake and acidification indicates that the aqueous-phase reactions are largely responsible SOA formation in Beijing.

Atmospheric behaviour of particulate oxalate at UK urban background and rural sites

NASA Astrophysics Data System (ADS)

Laongsri, Bunthoon; Harrison, Roy M.

2013-06-01

Oxalic acid is widely reported in the literature as one of the major components of organic aerosol. It has been reported as both a product of primary emissions from combustion processes and as a secondary product of atmospheric chemistry. Concentrations of particulate oxalate have been measured at a UK urban site (500 daily samples) and for a more limited period simultaneously at a rural site (100 samples) in the fine (less than 2.5 μm) and coarse (2.5-10 μm) size fractions. Full size distributions have also been measured by sampling with a MOUDI cascade impactor. Average concentrations of oxalate sampled over different intervals in PM10 are 0.04 ± 0.03 μg m-3 at the rural site and 0.06 ± 0.05 μg m-3 at the urban background site, broadly comparable with measurements from other European locations. During the period of simultaneous sampling at the urban and rural site, concentrations were very similar and the inter-site correlation in the PM2.5 fraction for oxalate (r = 0.45; p < 0.001) was appreciably weaker than that for sulphate and nitrate (r = 0.82 and 0.84, respectively). Nonetheless, the data clearly point to a predominantly secondary source of oxalate at these sites. Possible contributions from road traffic and woodsmoke appear to be very small. In the larger urban dataset, oxalate in PM2.5 was correlated significantly (p < 0.01) with sulphate (r = 0.60), nitrate (r = 0.48) and secondary organic carbon (r = 0.25). Clustering of air mass back trajectories demonstrates the importance of advection from mainland Europe. The size distribution of oxalate at the urban site showed a major mode at around 0.55 μm and a minor mode at around 1.5 μm in the mass distribution. The former mode is similar to that for sulphate suggesting either a similar in-cloud formation mechanism, or cloud processing of oxalate and sulphate after formation in homogeneous reaction processes.

Large-scale phylogenomic analyses indicate a deep origin of primary plastids within cyanobacteria.

PubMed

Criscuolo, Alexis; Gribaldo, Simonetta

2011-11-01

The emergence of photosynthetic eukaryotes has played a crucial role in evolution and has strongly modified earth's ecology. Several phylogenetic analyses have established that primary plastids arose from a cyanobacterium through endosymbiosis. However, the question of which present-day cyanobacterial lineage is most closely related to primary plastids has been unclear. Here, we have performed an extensive phylogenomic investigation on the origin of primary plastids based on the analysis of up to 191 protein markers and over 30,000 aligned amino acid sites from 22 primary photosynthetic eukaryotes and 61 cyanobacteria representing a wide taxonomic sampling of this phylum. By using a number of solutions to circumvent a large range of systematic errors, we have reconstructed a robust global phylogeny of cyanobacteria and studied the placement of primary plastids within it. Our results strongly support an early emergence of primary plastids within cyanobacteria, prior to the diversification of most present-day cyanobacterial lineages for which genomic data are available.

A survey of microbial community diversity in marine sediments impacted by petroleum hydrocarbons from the Gulf of Mexico and Atlantic shorelines, Texas to Florida

USGS Publications Warehouse

Lisle, John T.; Stellick, Sarah H.

2011-01-01

Microbial community genomic DNA was extracted from sediment samples collected along the Gulf of Mexico and Atlantic coasts from Texas to Florida. Sample sites were identified as being ecologically sensitive and (or) as having high potential of being impacted by Macondo-1 (M-1) well oil from the Deepwater Horizon blowout. The diversity within the microbial communities associated with the collected sediments provides a baseline dataset to which microbial community-diversity data from impacted sites could be compared. To determine the microbial community diversity in the samples, genetic fingerprints were generated and compared. Specific sequences within the community genomic DNA were first amplified using the polymerase chain reaction (PCR) with a primer set that provides possible resolution to the species level. A second nested PCR was performed on the primary PCR products using a primer set on which a GC-clamp was attached to one of the primers. The nested PCR products were separated using denaturing-gradient gel electrophoresis (DGGE) that resolves the nested PCR products based on sequence dissimilarities (or similarities), forming a genomic fingerprint of the microbial diversity within the respective samples. Samples with similar fingerprints were grouped and compared to oil-fingerprint data from the same sites (Rosenbauer and others, 2011). The microbial community fingerprints were generally grouped into sites that had been shown to contain background concentrations of non-Deepwater Horizon oil. However, these groupings also included sites where no oil signature was detected. This report represents some of the first information on naturally occurring microbial communities in sediment from shorelines along the Gulf of Mexico and Atlantic coasts from Texas to Florida.

42 CFR 82.18 - How will NIOSH calculate internal dose to the primary cancer site(s)?

Code of Federal Regulations, 2010 CFR

2010-10-01

... primary cancer site(s)? 82.18 Section 82.18 Public Health PUBLIC HEALTH SERVICE, DEPARTMENT OF HEALTH AND... Dose Reconstruction Process § 82.18 How will NIOSH calculate internal dose to the primary cancer site(s... cancer covered by a claim is in a tissue not covered by existing ICRP models, NIOSH will use the ICRP...

42 CFR 82.18 - How will NIOSH calculate internal dose to the primary cancer site(s)?

Code of Federal Regulations, 2011 CFR

2011-10-01

... primary cancer site(s)? 82.18 Section 82.18 Public Health PUBLIC HEALTH SERVICE, DEPARTMENT OF HEALTH AND... Dose Reconstruction Process § 82.18 How will NIOSH calculate internal dose to the primary cancer site(s... cancer covered by a claim is in a tissue not covered by existing ICRP models, NIOSH will use the ICRP...

42 CFR 82.18 - How will NIOSH calculate internal dose to the primary cancer site(s)?

Code of Federal Regulations, 2013 CFR

2013-10-01

... primary cancer site(s)? 82.18 Section 82.18 Public Health PUBLIC HEALTH SERVICE, DEPARTMENT OF HEALTH AND... Dose Reconstruction Process § 82.18 How will NIOSH calculate internal dose to the primary cancer site(s... cancer covered by a claim is in a tissue not covered by existing ICRP models, NIOSH will use the ICRP...

42 CFR 82.18 - How will NIOSH calculate internal dose to the primary cancer site(s)?

Code of Federal Regulations, 2014 CFR

2014-10-01

... primary cancer site(s)? 82.18 Section 82.18 Public Health PUBLIC HEALTH SERVICE, DEPARTMENT OF HEALTH AND... Dose Reconstruction Process § 82.18 How will NIOSH calculate internal dose to the primary cancer site(s... cancer covered by a claim is in a tissue not covered by existing ICRP models, NIOSH will use the ICRP...

42 CFR 82.18 - How will NIOSH calculate internal dose to the primary cancer site(s)?

Code of Federal Regulations, 2012 CFR

2012-10-01

... primary cancer site(s)? 82.18 Section 82.18 Public Health PUBLIC HEALTH SERVICE, DEPARTMENT OF HEALTH AND... Dose Reconstruction Process § 82.18 How will NIOSH calculate internal dose to the primary cancer site(s... cancer covered by a claim is in a tissue not covered by existing ICRP models, NIOSH will use the ICRP...

Field Validation of Toxicity Tests to Evaluate the Potential for Beneficial Use of Produced Water

DOE Office of Scientific and Technical Information (OSTI.GOV)

Joseph Bidwell; Jonathan Fisher; Naomi Cooper

2008-03-31

This study investigated potential biological effects of produced water contamination derived from occasional surface overflow and possible subsurface intrusion at an oil production site along the shore of Skiatook Lake, Oklahoma. We monitored basic chemistry and acute toxicity to a suite of standard aquatic test species (fathead minnow-Pimephales promelas, Daphnia pulex, Daphnia magna, and Ceriodaphnia dubia) in produced water and in samples taken from shallow groundwater wells on the site. Toxicity identification evaluations and ion toxicity modeling were used to identify toxic constituents in the samples. Lake sediment at the oil production site and at a reference site were alsomore » analyzed for brine intrusion chemically and by testing sediment toxicity using the benthic invertebrates, Chironomus dilutus, and Hyallela azteca. Sediment quality was also assessed with in situ survival and growth studies with H. azteca and the Asian clam, Corbicula fluminea, and by benthic macroinvertebrate community sampling. The produced water was acutely toxic to the aquatic test organisms at concentrations ranging from 1% to 10% of the whole produced water sample. Toxicity identification evaluation and ion toxicity modeling indicated major ion salts and hydrocarbons were the primary mixture toxicants. The standardized test species used in the laboratory bioassays exhibited differences in sensitivity to these two general classes of contaminants, which underscores the importance of using multiple species when evaluating produced water toxicity. Toxicity of groundwater was greater in samples from wells near a produced water injection well and an evaporation pond. Principle component analyses (PCA) of chemical data derived from the groundwater wells indicated dilution by lake water and possible biogeochemical reactions as factors that ameliorated groundwater toxicity. Elevated concentrations of major ions were found in pore water from lake sediments, but toxicity from these ions was limited to sediment depths of 10 cm or greater, which is outside of the primary zone of biological activity. Further, exposure to site sediments did not have any effects on test organisms, and macroinvertebrate communities did not indicate impairment at the oil production site as compared to a reference site. In situ experiments with H. azteca and C. fluminea, indicated a sublethal site effect (on growth of both species), but these could not be definitively linked with produced water infiltration. Severe weather conditions (drought followed by flooding) negatively influenced the intensity of lake sampling aimed at delineating produced water infiltration. Due to the lack of clear evidence of produced water infiltration into the sub-littoral zone of the lake, it was not possible to assess whether the laboratory bioassays of produced water effectively indicate risk in the receiving system. However, the acutely toxic nature of the produced water and general lack of biological effects in the lake at the oil production site suggest minimal to no produced water infiltration into surficial lake sediments and the near-shore water column. This study was able to demonstrate the utility of ion toxicity modeling to support data from toxicity identification evaluations aimed at identifying key toxic constituents in produced water. This information could be used to prioritize options for treating produced water in order to reduce toxic constituents and enhance options for reuse. The study also demonstrated how geographic information systems, toxicity modeling, and toxicity assessment could be used to facilitate future site assessments.« less

Ascribing soil erosion of hillslope components to river sediment yield.

PubMed

Nosrati, Kazem

2017-06-01

In recent decades, soil erosion has increased in catchments of Iran. It is, therefore, necessary to understand soil erosion processes and sources in order to mitigate this problem. Geomorphic landforms play an important role in influencing water erosion. Therefore, ascribing hillslope components soil erosion to river sediment yield could be useful for soil and sediment management in order to decrease the off-site effects related to downstream sedimentation areas. The main objectives of this study were to apply radionuclide tracers and soil organic carbon to determine relative contributions of hillslope component sediment sources in two land use types (forest and crop field) by using a Bayesian-mixing model, as well as to estimate the uncertainty in sediment fingerprinting in a mountainous catchment of western Iran. In this analysis, 137 Cs, 40 K, 238 U, 226 Ra, 232 Th and soil organic carbon tracers were measured in 32 different sampling sites from four hillslope component sediment sources (summit, shoulder, backslope, and toeslope) in forested and crop fields along with six bed sediment samples at the downstream reach of the catchment. To quantify the sediment source proportions, the Bayesian mixing model was based on (1) primary sediment sources and (2) combined primary and secondary sediment sources. The results of both approaches indicated that erosion from crop field shoulder dominated the sources of river sediments. The estimated contribution of crop field shoulder for all river samples was 63.7% (32.4-79.8%) for primary sediment sources approach, and 67% (15.3%-81.7%) for the combined primary and secondary sources approach. The Bayesian mixing model, based on an optimum set of tracers, estimated that the highest contribution of soil erosion in crop field land use and shoulder-component landforms constituted the most important land-use factor. This technique could, therefore, be a useful tool for soil and sediment control management strategies. Copyright © 2016 Elsevier Ltd. All rights reserved.

DOE Office of Scientific and Technical Information (OSTI.GOV)

Thompson, C.Y.

During second quarter 1992, samples from the six FAC monitoring wells at the F-Area Acid/Caustic Basin were analyzed for herbicides, indicator parameters, major ions, pesticides, radionuclides, turbidity, volatile organic compounds, and other constituents. Monitoring results that exceeded the US Environmental Protection Agency`s Primary Drinking Water Standards (PDWS) or the Savannah River Site flagging criteria or turbidity standards during the quarter are the focus of this report.

DOE Office of Scientific and Technical Information (OSTI.GOV)

Thompson, C.Y.

During second quarter 1992, samples from the six FAC monitoring wells at the F-Area Acid/Caustic Basin were analyzed for herbicides, indicator parameters, major ions, pesticides, radionuclides, turbidity, volatile organic compounds, and other constituents. Monitoring results that exceeded the US Environmental Protection Agency's Primary Drinking Water Standards (PDWS) or the Savannah River Site flagging criteria or turbidity standards during the quarter are the focus of this report.

40 CFR 63.1426 - Process vent requirements for determining organic HAP concentration, control efficiency, and...

Code of Federal Regulations, 2010 CFR

2010-07-01

... percent reduction may be measured as total epoxide, total organic HAP, or as TOC minus methane and ethane... TOC (minus methane and ethane) concentrations in all process vent streams and primary and secondary... million by volume total epoxide or TOC limit in § 63.1425(b)(1)(ii) or (b)(2)(iii), the sampling site...

Source apportionment of submicron organic aerosol at an urban background and a road site in Barcelona (Spain) during SAPUSS

NASA Astrophysics Data System (ADS)

Alier, M.; van Drooge, B. L.; Dall'Osto, M.; Querol, X.; Grimalt, J. O.; Tauler, R.

2013-10-01

This study investigates the contribution of potential sources to the submicron (PM1) organic aerosol (OA) simultaneously detected at an urban background (UB) and a road site (RS) in Barcelona during the 30 days of the intensive field campaign of SAPUSS (Solving Aerosol Problems by Using Synergistic Strategies, September-October 2010). A total of 103 filters at 12 h sampling time resolution were collected at both sites. Thirty-six neutral and polar organic compounds of known emission sources and photo-chemical transformation processes were analyzed by gas chromatography-mass spectrometry (GC-MS). The concentrations of the trace chemical compounds analyzed are herein presented and discussed. Additionally, OA source apportionment was performed by multivariate curve resolution-alternating least squares (MCR-ALS) and six OA components were identified at both sites: two were of primary anthropogenic OA origin and three of secondary OA origin, while a sixth one was not clearly defined. Primary organics from emissions of local anthropogenic activities (urban primary organic aerosol, or POA Urban), mainly traffic emissions but also cigarette smoke, contributed 43% (1.5 μg OC m-3) and 18% (0.4 μg OC m-3) to OA at RS and UB, respectively. A secondary primary source - biomass burning (BBOA) - was found in all the samples (average values 7% RS; 12% UB; 0.3 μg OC m-3), but this component was substantially contributing to OA only when the sampling sites were under influence of regional air mass circulation (REG.). Three secondary organic aerosol (SOA) components (describing overall 60% of the variance) were observed in the urban ambient PM1. Products of isoprene oxidation (SOA ISO) - i.e. 2-methylglyceric acid, C5 alkene triols and 2-methyltetrols - showed the highest abundance at both sites when the city was under influence of inland air masses. The overall concentrations of SOA ISO were similar at both sites (0.4 and 0.3 μg m-3, or 16% and 7%, at UB and RS, respectively). By contrast, a SOA biogenic component attributed to α-pinene oxidation (SOA BIO PIN) presented average concentrations of 0.5 μg m-3 at UB (24% of OA) and 0.2 μg m-3 at RS (7%), respectively, suggesting that this SOA component did not impact the two monitoring sites at the same level. A clear anti-correlation was observed between SOA ISO and SOA PIN during nucleation days, surprisingly suggesting that some of the growth of urban freshly nucleating particles may be driven by biogenic α-pinene oxidation products but inhibited by isoprene organic compounds. A third SOA component was formed by a mixture of aged anthropogenic and biogenic secondary organic compounds (SOA Aged) that accumulated under stagnant atmospheric conditions, contributing for 12% to OA at RS (0.4 μg OC m-3) and for 18% at UB (0.4 μg OC m-3). A sixth component, formed by C7-C9 dicarboxylic acids and detected especially during daytime, was called "urban oxygenated organic aerosol" (OOA Urban) due to its high abundance at urban RS (23%; 0.8 μg OCm-3) vs. UB (10%; 0.2 μg OCm-3), with a well-defined daytime maximum. This temporal trend and geographical differentiation suggests that local anthropogenic sources were determining this component. However, the changes of these organic molecules were also influenced by the air mass trajectories, indicating that atmospheric conditions have an influence on this component, although the specific origin on this component remains unclear. It points to a secondary organic component driven by primary urban sources including cooking and traffic (mainly gasoline) activities.

Source apportionment of submicron organic aerosol at an urban background and a road site in Barcelona, Spain

NASA Astrophysics Data System (ADS)

Alier, M.; van Drooge, B. L.; Dall'Osto, M.; Querol, X.; Grimalt, J. O.; Tauler, R.

2013-04-01

This study investigates the contribution of potential sources to the sub-micron (PM1) organic aerosol (OA) simultaneously detected at an urban background (UB) and a road site (RS) in Barcelona during the 30 days of the intensive field campaign of SAPUSS (Solving Aerosol Problems by Using Synergistic Strategies, September-October 2010). 103 filters at 12 h sampling time resolution were collected at both sites. Thirty-six neutral and polar organic compounds of known emission sources and photo-chemical transformation processes were analyzed by Gas Chromatography-Mass Spectrometry (GC-MS). The concentrations of the trace chemical compounds analyzed are herein presented and discussed. Additionally, OA source apportionment was performed by Multivariate Curve Resolution-Alternating Least Squares (MCR-ALS) and six OA components were identified at both sites: two were of primary anthropogenic OA origin, three of secondary OA origin while a sixth one was not clearly defined. Primary organics from emissions of local anthropogenic activities (Urban primary organic aerosol, Urban POA) contributed for 43% (1.5 μg OC m-3) and 18% (0.4 μg OC m-3) to OA in RS and UB, respectively. A secondary primary source - biomass burning (BBOA) - was found in all the samples (average values 7% RS; 12% UB; 0.3 μg OC m-3), but this component was substantially contributing to OA only when the sampling sites were under influence of regional air mass circulation. Three Secondary Organic Aerosol (SOA) components (describing overall 60% of the variance) were observed in the urban ambient PM1. Products of isoprene oxidation (SOA ISO), i.e. 2-methylglyceric acid, C5 alkene triols and 2-methyltetrols, showed the highest abundance at both sites when the city was under influence of inland air masses. The overall concentrations of SOA ISO were similar at both sites (0.4 and 0.3 μg m-3, 16% and 7%, at UB and RS, respectively). By contrast, a SOA biogenic component attributed to α-pinene oxidation (SOA BIO PIN) presented average concentrations of 0.5 μg m-3 at UB (24% of OA) and 0.2 μg m-3 at RS (7%), respectively, suggesting that this SOA component did not impact the two monitoring site at the same level. A clear anti correlation was observed between SOA ISO and SOA PIN during nucleation days, surprisingly suggesting that some of the growth of urban freshly nucleating particles may be driven by biogenic α-pinene oxidation products but inhibited by isoprene organic compounds. A third SOA component was formed by a mixture of aged anthropogenic and biogenic secondary organic compounds (Aged SOA) that accumulated under stagnant atmospheric conditions, contributing for 12% to OA at RS (0.4 μg OC m-3) and for 18% at UB (0.4 μg OC m-3). A sixth component, formed by C7-C9 dicarboxylic acids and detected especially during daytime, was called "urban oxygenated organic aerosol" (Urban OOA) due to its high abundance in urban RS (23%; 0.8 μg OC m-3) vs. UB (10%; 0.2 μg OC m-3), with a well-defined daytime maximum. This temporal trend and geographical differentiation suggests that local anthropogenic sources were determining this component. However, the changes of these organic molecules were also influenced by the air mass trajectories, indicating that atmospheric conditions had an influence on this component although the specific origin on this component remains unclear. It points to a secondary organic component driven by primary urban sources including cooking and traffic (mainly gasoline) activities.

E2F1 somatic mutation within miRNA target site impairs gene regulation in colorectal cancer.

PubMed

Lopes-Ramos, Camila M; Barros, Bruna P; Koyama, Fernanda C; Carpinetti, Paola A; Pezuk, Julia; Doimo, Nayara T S; Habr-Gama, Angelita; Perez, Rodrigo O; Parmigiani, Raphael B

2017-01-01

Genetic studies have largely concentrated on the impact of somatic mutations found in coding regions, and have neglected mutations outside of these. However, 3' untranslated regions (3' UTR) mutations can also disrupt or create miRNA target sites, and trigger oncogene activation or tumor suppressor inactivation. We used next-generation sequencing to widely screen for genetic alterations within predicted miRNA target sites of oncogenes associated with colorectal cancer, and evaluated the functional impact of a new somatic mutation. Target sequencing of 47 genes was performed for 29 primary colorectal tumor samples. For 71 independent samples, Sanger methodology was used to screen for E2F1 mutations in miRNA predicted target sites, and the functional impact of these mutations was evaluated by luciferase reporter assays. We identified germline and somatic alterations in E2F1. Of the 100 samples evaluated, 3 had germline alterations at the MIR205-5p target site, while one had a somatic mutation at MIR136-5p target site. E2F1 gene expression was similar between normal and tumor tissues bearing the germline alteration; however, expression was increased 4-fold in tumor tissue that harbored a somatic mutation compared to that in normal tissue. Luciferase reporter assays revealed both germline and somatic alterations increased E2F1 activity relative to wild-type E2F1. We demonstrated that somatic mutation within E2F1:MIR136-5p target site impairs miRNA-mediated regulation and leads to increased gene activity. We conclude that somatic mutations that disrupt miRNA target sites have the potential to impact gene regulation, highlighting an important mechanism of oncogene activation.

ATMOSPHERIC AEROSOL SOURCE-RECEPTOR RELATIONSHIPS: THE ROLE OF COAL-FIRED POWER PLANTS

DOE Office of Scientific and Technical Information (OSTI.GOV)

Allen L. Robinson; Spyros N. Pandis; Cliff I. Davidson

2004-04-01

This report describes the technical progress made on the Pittsburgh Air Quality Study (PAQS) during the period of September 2003 through February 2004. Significant progress was made this project period on the analysis of ambient data, source apportionment, and deterministic modeling activities. Results highlighted in this report include chemical fractionation of the organic fraction to quantify the ratio of organic mass to organic carbon (OM/OC). The average OM/OC ratio for the 31 samples analyzed so far is 1.89, ranging between 1.62 and 2.53, which is consistent with expectations for an atmospherically processed regional aerosol. Analysis of the single particle datamore » reveals that a on a particles in Pittsburgh consist of complex mixture of primary and secondary components. Approximately 79% of all particles measured with the instrument containing some form of carbon, with Carbonaceous Ammonium Nitrate (54.43%) being the dominant particle class. PMCAMx predictions were compared with data from more than 50 sites of the STN network located throughout the Eastern United States for the July 2001 period. OC and sulfate concentrations predicted by PMCAMx are within {+-}30% of the observed concentration at most of these sites. Spherical Aluminum Silicate particle concentrations (SAS) were used to estimate the contribution of primary coal emissions to fine particle levels at the central monitoring site. Primary emissions from coal combustion contribute on average 0.44 {+-} 0.3 {micro}g/m{sup 3} to PM{sub 2.5} at the site or 1.4 {+-} 1.3% of the total PM{sub 2.5} mass. Chemical mass balance analysis was performed to apportion the primary organic aerosol. About 70% of the primary OC emissions are from vehicular sources, with the gasoline contribution being on average three times greater than the diesel emissions in the summer.« less

Adaptive changes in HIV-1 subtype C proteins during early infection are driven by changes in HLA-associated immune pressure

PubMed Central

Treurnicht, F.K.; Seoighe, C.; Martin, D.P.; Wood, N.; Abrahams, M-R.; de Assis Rosa, D.; Bredell, H.; Woodman, Z.; Hide, W.; Mlisana, K.; Karim, S Abdool; Gray, C.M.; Williamson, C.

2009-01-01

It is unresolved whether recently transmitted human immunodeficiency viruses (HIV) have genetic features that specifically favour their transmissibility. To identify potential “transmission signatures”, we compared 20 full-length HIV-1 subtype C genomes from primary infections, with 66 sampled from ethnically and geographically matched individuals with chronic infections. Controlling for recombination and phylogenetic relatedness, we identified 39 sites at which amino acid frequency spectra differed significantly between groups. These sites were predominantly located within Env, Pol and Gag (14/39, 9/39 and 6/39 respectively) and were significantly clustered (33/39) within known immunoreactive peptides. Within 6 months of infection we detected reversion-to-consensus mutations at 14 sites and potential CTL escape mutations at seven. Here we provide evidence that frequent reversion mutations probably allows the virus to recover replicative fitness which, together with immune escape driven by the HLA alleles of the new hosts, differentiate sequences from chronic infections from those sampled shortly after transmission. PMID:19913270

HPV status in patients with head and neck of carcinoma of unknown primary site: HPV, tobacco smoking, and outcome.

PubMed

Tribius, Silke; Hoffmann, Anna S; Bastrop, Sophie; Görögh, Tibor; Haag, Jochen; Röcken, Christoph; Clauditz, Till; Grob, Tobias; Wilczak, Waldemar; Tennstedt, Pierre; Borcherding, Aileen; Petersen, Cordula; Hoffmann, Markus

2012-11-01

Infection with human papillomavirus (HPV) is linked to oropharyngeal cancer. This analysis investigated possible associations between HPV status, smoking history and survival outcome in patients with neck metastasis and carcinoma of unknown primary (CUP). Registries at the Universities of Hamburg and Kiel were searched for patients with CUP diagnosed from 2002 to 2011 who had formalin-fixed and paraffin-embedded metastatic lymph node samples available. All patients underwent routine diagnostic procedures to establish the primary site and received radiotherapy (60Gy using conventional fractionation) with or without concurrent cisplatin-based chemotherapy depending on disease extent. Genotyping was performed using polymerase chain reaction; p16([INK4a]) expression was assessed using immunohistochemistry. Sixty-three patients were included; 23 (37%) had HPV DNA/p16+ samples and 40 (63%) were negative for either/both markers. A high proportion of patients had a history of tobacco smoking; significantly fewer patients with HPV+/p16+ samples were smokers than those who were negative for either/both markers (61% vs. 90%, respectively; p = 0.0067). There were no statistically significant differences between overall or recurrence-free survival in HPV+/p16+ patients vs. those negative for either/both markers. Overall survival appeared to be superior in patients with <10 pack-years smoking history and HPV+/p16+ disease. This study, the largest to date investigating HPV status in head and neck CUP, identified HPV and p16 overexpression in over one-third of patients. Tobacco smoking history appeared to affect survival in HPV+/p16+ patients. Smoking status should be considered as a prognostic factor in patients with CUP, along with HPV DNA status. Copyright © 2012 Elsevier Ltd. All rights reserved.

Public health concerns for anti-obesity medicines imported for personal use through the internet: a cross-sectional study

PubMed Central

Tanimoto, Tsuyoshi; Nakanishi, Yoko; Yoshida, Naoko; Tsuboi, Hirohito; Kimura, Kazuko

2012-01-01

Objective To explore the circulation of anti-obesity medicines via the internet and their quality. Design Cross-sectional study. Setting Internet pharmacies and pharmaceutical suppliers accessible from Japan. Participants Anti-obesity medicines were purchased using relevant keywords on Japanese Google search engine. Blogs and advertisement-only sites were excluded. Primary and secondary outcome measures The authenticity of the samples was investigated in collaboration with the manufacturers of the samples and medicine regulatory authorities. Quality of the samples was assessed by pharmacopoeial analyses using high-performance liquid chromatography. Results 82 samples were purchased from 36 internet sites. Approximately half of the sites did not mention a physical address, and 45% of the samples did not contain a package insert. A variety of custom declarations were made for the shipments of the samples: personal health items, supplement, medicines, general merchandise, tea and others. Among 82 samples, 52 samples were analysed to check their pharmacopoeial quality. Authenticity responses were received from only five of 20 manufacturing companies. According to the pharmacopoeial analyses and authenticity investigation, three of the samples were identified as counterfeits and did not contain any active ingredients. Two of these samples were confirmed as counterfeits by the manufacturer of the authentic products. The manufacturer of the other sample did not respond to our request for an authenticity check even after several communication attempts. These counterfeit cases have been reported at the rapid alert system of Western Pacific Region of the WHO. Conclusions Many counterfeit and unapproved anti-obesity medicines may be easily bypassing regulatory checks during shipping and are widely circulated through the internet. Regulatory authorities should take measures to prevent these medicines from entering countries to safeguard their citizens. PMID:22581794

Assessment of possible sources of microbiological contamination in the water column and streambed sediment of the Jacks Fork, Ozark National Scenic Riverways, Missouri - Phase III

USGS Publications Warehouse

Davis, Jerri V.; Barr, Miya N.

2006-01-01

In 1998, a 5 river-mile reach of the Jacks Fork was included on Missouri's list of impaired waters as required by Section 303(d) of the Federal Clean Water Act. The identified pollutant on the Jacks Fork was fecal coliform bacteria. The length of the impaired reach was changed to 7 miles on the Missouri 2002 303(d) list because of data indicating the fecal coliform bacteria problem existed over a broader area. The U.S. Geological Survey, in cooperation with the National Park Service, conducted a study to better understand the extent and sources of microbiological contamination within the Jacks Fork from Alley Spring to the mouth, which includes the 7-mile 303(d) reach. Ten sites were sampled from June 2003 through October 2003 and from June 2004 through October 2004. Water-column and streambed sediment samples were collected from main-stem and tributary sites mostly during base-flow conditions during a variety of recreational season river uses and analyzed for fecal coliform and Escherichia coli bacteria. Isolates of Escherichia coli obtained from water samples collected at five sites were submitted for rep-PCR analysis to identify presumptive sources of fecal indicator bacteria in the Jacks Fork. Results indicate that recreational users (including boaters and swimmers) are not the primary source of fecal coliform bacteria in the Jacks Fork; rather, the presence of fecal coliform bacteria is associated with other animals, of which horses are the primary source. Increases in fecal coliform bacteria densities in the Jacks Fork are associated with cross-country horseback trail-riding events.

Profiles of Brain Metastases: Prioritization of Therapeutic Targets.

PubMed

Ferguson, Sherise D; Zheng, Siyuan; Xiu, Joanne; Zhou, Shouhao; Khasraw, Mustafa; Brastianos, Priscilla K; Kesari, Santosh; Hu, Jethro; Rudnick, Jeremy; Salacz, Michael E; Piccioni, David; Huang, Suyun; Davies, Michael A; Glitza, Isabella C; Heymach, John V; Zhang, Jianjun; Ibrahim, Nuhad K; DeGroot, John F; McCarty, Joseph; O'Brien, Barbara J; Sawaya, Raymond; Verhaak, Roeland G W; Reddy, Sandeep K; Priebe, Waldemar; Gatalica, Zoran; Spetzler, David; Heimberger, Amy B

2018-06-19

We sought to compare the tumor profiles of brain metastases from common cancers with those of primary tumors and extracranial metastases in order to identify potential targets and prioritize rational treatment strategies. Tumor samples were collected from both the primary and metastatic sites of non-small cell lung cancer, breast cancer, and melanoma from patients in locations worldwide, and these were submitted to Caris Life Sciences for tumor multiplatform analysis, including gene sequencing (Sanger and next-generation sequencing with a targeted 47-gene panel), protein expression (assayed by immunohistochemistry), and gene amplification (assayed by in situ hybridization). The data analysis considered differential protein expression, gene amplification, and mutations among brain metastases, extracranial metastases, and primary tumors. The analyzed population included: 16,999 unmatched primary tumor and/or metastasis samples: 8178 non-small cell lung cancers (5098 primaries; 2787 systemic metastases; 293 brain metastases), 7064 breast cancers (3496 primaries; 3469 systemic metastases; 99 brain metastases), and 1757 melanomas (660 primaries; 996 systemic metastases; 101 brain metastases). TOP2A expression was increased in brain metastases from all 3 cancers, and brain metastases overexpressed multiple proteins clustering around functions critical to DNA synthesis and repair and implicated in chemotherapy resistance, including RRM1, TS, ERCC1, and TOPO1. cMET was overexpressed in melanoma brain metastases relative to primary skin specimens. Brain metastasis patients may particularly benefit from therapeutic targeting of enzymes associated with DNA synthesis, replication, and/or repair. This article is protected by copyright. All rights reserved. © 2018 UICC.

Comparison and continuous estimates of fecal coliform and Escherichia coli bacteria in selected Kansas streams, May 1999 through April 2002

USGS Publications Warehouse

Rasmussen, Patrick P.; Ziegler, Andrew C.

2003-01-01

The sanitary quality of water and its use as a public-water supply and for recreational activities, such as swimming, wading, boating, and fishing, can be evaluated on the basis of fecal coliform and Escherichia coli (E. coli) bacteria densities. This report describes the overall sanitary quality of surface water in selected Kansas streams, the relation between fecal coliform and E. coli, the relation between turbidity and bacteria densities, and how continuous bacteria estimates can be used to evaluate the water-quality conditions in selected Kansas streams. Samples for fecal coliform and E. coli were collected at 28 surface-water sites in Kansas. Of the 318 samples collected, 18 percent exceeded the current Kansas Department of Health and Environment (KDHE) secondary contact recreational, single-sample criterion for fecal coliform (2,000 colonies per 100 milliliters of water). Of the 219 samples collected during the recreation months (April 1 through October 31), 21 percent exceeded the current (2003) KDHE single-sample fecal coliform criterion for secondary contact rec-reation (2,000 colonies per 100 milliliters of water) and 36 percent exceeded the U.S. Environmental Protection Agency (USEPA) recommended single-sample primary contact recreational criterion for E. coli (576 colonies per 100 milliliters of water). Comparisons of fecal coliform and E. coli criteria indicated that more than one-half of the streams sampled could exceed USEPA recommended E. coli criteria more frequently than the current KDHE fecal coliform criteria. In addition, the ratios of E. coli to fecal coliform (EC/FC) were smallest for sites with slightly saline water (specific conductance greater than 1,000 microsiemens per centimeter at 25 degrees Celsius), indicating that E. coli may not be a good indicator of sanitary quality for those streams. Enterococci bacteria may provide a more accurate assessment of the potential for swimming-related illnesses in these streams. Ratios of EC/FC and linear regression models were developed for estimating E. coli densities on the basis of measured fecal coliform densities for six individual and six groups of surface-water sites. Regression models developed for the six individual surface-water sites and six groups of sites explain at least 89 percent of the variability in E. coli densities. The EC/FC ratios and regression models are site specific and make it possible to convert historic fecal coliform bacteria data to estimated E. coli densities for the selected sites. The EC/FC ratios can be used to estimate E. coli for any range of historical fecal coliform densities, and in some cases with less error than the regression models. The basin- and statewide regression models explained at least 93 percent of the variance and best represent the sites where a majority of the data used to develop the models were collected (Kansas and Little Arkansas Basins). Comparison of the current (2003) KDHE geometric-mean primary contact criterion for fecal coliform bacteria of 200 col/100 mL to the 2002 USEPA recommended geometric-mean criterion of 126 col/100 mL for E. coli results in an EC/FC ratio of 0.63. The geometric-mean EC/FC ratio for all sites except Rattlesnake Creek (site 21) is 0.77, indicating that considerably more than 63 percent of the fecal coliform is E. coli. This potentially could lead to more exceedances of the recommended E. coli criterion, where the water now meets the current (2003) 200-col/100 mL fecal coliform criterion. In this report, turbidity was found to be a reliable estimator of bacteria densities. Regression models are provided for estimating fecal coliform and E. coli bacteria densities using continuous turbidity measurements. Prediction intervals also are provided to show the uncertainty associated with using the regression models. Eighty percent of all measured sample densities and individual turbidity-based estimates from the regression models were in agreement as exceedi

WAG 2 remedial investigation and site investigation site-specific work plan/health and safety checklist for the ecological assessment task, Kingfisher Study

DOE Office of Scientific and Technical Information (OSTI.GOV)

Holt, V.L.; Baron, L.A.

1994-05-01

This report provides specific details and requirements for the WAG 2 remedial investigation and site investigation Ecological Assessment Task, Kingfisher Study, including information that will contribute to safe completion of the project. The report includes historical background; a site map; project organization; task descriptions and hazard evaluations; controls; and monitoring, personal protective equipment, decontamination, and medical surveillance program requirements. The report also includes descriptions of site personnel and their certifications as well as suspected WAG 2 contaminants and their characteristics. The primary objective of the WAG 2 Kingfisher Study is to assess the feasibility of using kingfishers as biological monitorsmore » of contaminants on the Oak Ridge Reservation (ORR). Kingfisher sample collection will be used to determine the levels of contaminants and degree of bioaccumulation within a common piscivorous bird feeding on contaminated fish from streams on the ORR.« less

Insecticide residues in stored grains in Sonora, Mexico: quantification and toxicity testing.

PubMed

Aldana-Madrid, M L; Valdez-Hurtado, S; Vargas-Valdez, N D; Salazar-Lopez, N J; Silveira-Gramont, M I; Loarca-Piña, F G; Rodríguez-Olibarria, G; Wong-Corral, F J; Borboa-Flores, J; Burgos-Hernández, A

2008-02-01

Food safety has acquired great attention by food importer and exporters. Food rejection or acceptance across international borders is based on the compliance with international food regulations. Due to the lack of recent data on pesticide residues in Mexican grains, this study focused on detecting and quantifying insecticide residues in stored wheat, corn, chickpeas, and beans, as well as to determine their mutagenic potential. Grains were sampled from primary storage sites in Sonora, Mexico. Malathion, chlorpyrifos, deltamethrin, cypermethrin, 4,4-DDE, 4,4-DDD and 4,4-DDT were analyzed in 135 samples. Grain samples were not mutagenic and most pesticide levels were within regulation limits.

Contamination of the Surgical Field with Propionibacterium acnes in Primary Shoulder Arthroplasty.

PubMed

Falconer, Travis M; Baba, Mohammed; Kruse, Lisa M; Dorrestijn, Oscar; Donaldson, Matthew J; Smith, Margaret M; Figtree, Melanie C; Hudson, Bernard J; Cass, Benjamin; Young, Allan A

2016-10-19

Propionibacterium acnes is a common pathogen identified in postoperative shoulder infection. It has been shown to be present in culture specimens during primary shoulder arthroplasty; however, recent work has suggested that it is most likely to be a contaminant. Our aim was to identify the potential sources of contamination in shoulder arthroplasty. Tissue swabs were obtained for microbiological analysis from consecutive patients undergoing primary shoulder arthroplasty. Routine surgical technique was maintained, and 5 specimens were taken from different sites: (1) the subdermal layer, (2) the tip of the surgeon's glove, (3) the inside scalpel blade (used for deeper incision), (4) the forceps, and (5) the outside scalpel blade (used for the skin incision). Forty patients (25 female patients and 15 male patients) were included. Thirteen (33%) of the 40 patients had at least 1 culture specimen positive for P. acnes. Two (8%) of the 25 female patients and 11 (73%) of the 15 male patients had ≥1 culture specimen positive for P. acnes. The most common site of growth of P. acnes was the subdermal layer (12 positive samples), followed by the forceps (7 positive samples), the tip of the surgeon's glove (7 positive samples), the outside scalpel blade (4 positive samples), and the inside scalpel blade (1 positive sample). There were 27 of 75 swabs that were positive on culture for P. acnes in male patients compared with 4 of 125 swabs in female patients. Male patients had 66 times (95% confidence interval, 6 to 680 times) higher odds of having a positive culture indicating subdermal colonization compared with female patients (p < 0.001). P. acnes is a common contaminant of the surgical field in primary shoulder arthroplasty. The subdermal layer may be the source of this contamination, and the prevalence of P. acnes in the surgical wound may be due to the surgeon's manipulation with gloves and instruments. Our findings are consistent with those regarding the increased rates of P. acnes bacterial load and intraoperative growth in male patients compared with female patients. P. acnes is likely to be spread throughout the surgical field from the subdermal layer via soft-tissue handling by the surgeon and instruments. Strategies need to be utilized to minimize this contact and to reduce the chance of colonization. Copyright © 2016 by The Journal of Bone and Joint Surgery, Incorporated.

Back pain in seniors: the Back pain Outcomes using Longitudinal Data (BOLD) cohort baseline data.

PubMed

Jarvik, Jeffrey G; Comstock, Bryan A; Heagerty, Patrick J; Turner, Judith A; Sullivan, Sean D; Shi, Xu; Nerenz, David R; Nedeljkovic, Srdjan S; Kessler, Larry; James, Kathryn; Friedly, Janna L; Bresnahan, Brian W; Bauer, Zoya; Avins, Andrew L; Deyo, Richard A

2014-04-23

Back pain represents a substantial burden globally, ranking first in a recent assessment among causes of years lived with disability. Though back pain is widely studied among working age adults, there are gaps with respect to basic descriptive epidemiology among seniors, especially in the United States. Our goal was to describe how pain, function and health-related quality of life vary by demographic and geographic factors among seniors presenting to primary care providers with new episodes of care for back pain. We examined baseline data from the Back pain Outcomes using Longitudinal Data (BOLD) registry, the largest inception cohort to date of seniors presenting to a primary care provider for back pain. The sample included 5,239 patients ≥ 65 years old with a new primary care visit for back pain at three integrated health systems (Northern California Kaiser-Permanente, Henry Ford Health System [Detroit], and Harvard Vanguard Medical Associates [Boston]). We examined differences in patient characteristics across healthcare sites and associations of patient sociodemographic and clinical characteristics with baseline patient-reported measures of pain, function, and health-related quality of life. Patients differed across sites in demographic and other characteristics. The Detroit site had more African-American patients (50%) compared with the other sites (7-8%). The Boston site had more college graduates (68%) compared with Detroit (20%). Female sex, lower educational status, African-American race, and older age were associated with worse functional disability as measured by the Roland-Morris Disability Questionnaire. Except for age, these factors were also associated with worse pain. Baseline pain and functional impairment varied substantially with a number of factors in the BOLD cohort. Healthcare site was an important factor. After controlling for healthcare site, lower education, female sex, African-American race, and older age were associated with worse physical disability and all of these factors except age were associated with worse pain. Clinical Trials.gov NCT01776242; Registration date: June 13, 2012.

Introduction of Monochloramine into a Municipal Water System: Impact on Colonization of Buildings by Legionella spp.

PubMed Central

Moore, Matthew R.; Pryor, Marsha; Fields, Barry; Lucas, Claressa; Phelan, Maureen; Besser, Richard E.

2006-01-01

Legionnaires' disease (LD) outbreaks are often traced to colonized potable water systems. We collected water samples from potable water systems of 96 buildings in Pinellas County, Florida, between January and April 2002, during a time when chlorine was the primary residual disinfectant, and from the same buildings between June and September 2002, immediately after monochloramine was introduced into the municipal water system. Samples were cultured for legionellae and amoebae using standard methods. We determined predictors of Legionella colonization of individual buildings and of individual sampling sites. During the chlorine phase, 19 (19.8%) buildings were colonized with legionellae in at least one sampling site. During the monochloramine phase, six (6.2%) buildings were colonized. In the chlorine phase, predictors of Legionella colonization included water source (source B compared to all others, adjusted odds ratio [aOR], 6.7; 95% confidence interval [CI], 2.0 to 23) and the presence of a system with continuously circulating hot water (aOR, 9.8; 95% CI, 1.9 to 51). In the monochloramine phase, there were no predictors of individual building colonization, although we observed a trend toward greater effectiveness of monochloramine in hotels and single-family homes than in county government buildings. The presence of amoebae predicted Legionella colonization at individual sampling sites in both phases (OR ranged from 15 to 46, depending on the phase and sampling site). The routine introduction of monochloramine into a municipal drinking water system appears to have reduced colonization by Legionella spp. in buildings served by the system. Monochloramine may hold promise as community-wide intervention for the prevention of LD. PMID:16391067

Causes of toxicity to Hyalella azteca in a stormwater management facility receiving highway runoff and snowmelt. Part II: salts, nutrients, and water quality.

PubMed

Bartlett, A J; Rochfort, Q; Brown, L R; Marsalek, J

2012-01-01

The Terraview-Willowfield Stormwater Management Facility (TWSMF) features a tandem of stormwater management ponds, which receive inputs of multiple contaminants from highway and residential runoff. Previous research determined that benthic communities in the ponds were impacted by poor habitat quality, due to elevated sediment concentrations of metals and polycyclic aromatic hydrocarbons (PAHS), and salinity in the overlying water, but did not address seasonal changes, including those caused by the influx of contaminants with the snowmelt. In order to address this issue, water and sediment samples were collected from the TWSMF during the fall and spring, and four-week sediment toxicity tests were conducted with Hyalella azteca. The effects of metals and PAHs are discussed in a companion paper; the effects of road salt, nutrients, and water quality are discussed here. After exposure to fall samples, survival of Hyalella was reduced (64-74% of controls) at three out of four sites, but growth was not negatively affected. After exposure to spring samples, survival was 0-75% of controls at the two sites furthest downstream, and growth was significantly lower in four out of five sites when comparing Hyalella exposed to site water overlying site sediment versus control water overlying site sediment. Toxicity appeared to be related to chloride concentrations: little or no toxicity occurred in fall samples (200 mg Cl(-)/L), and significant effects on survival and growth occurred in spring samples above 1550 mg Cl(-)/L and 380 mg Cl(-)/L, respectively. Sodium chloride toxicity tests showed similar results: four-week LC50s and EC25s (growth) were 1200 and 420 mg Cl(-)/L, respectively. Although water quality and nutrients were associated with effects observed in the TWSMF, chloride from road salt was the primary cause of toxicity in this study. Chloride persists during much of the year at concentrations representing a significant threat to benthic communities in the TWSMF. Copyright © 2011. Published by Elsevier B.V.

Mercury in Nelson's Sparrow Subspecies at Breeding Sites

PubMed Central

Winder, Virginia L.; Emslie, Steven D.

2012-01-01

Background Mercury is a persistent, biomagnifying contaminant that can cause negative effects on ecosystems. Marshes are often areas of relatively high mercury methylation and bioaccumulation. Nelson's Sparrows (Ammodramus nelsoni) use marsh habitats year-round and have been documented to exhibit tissue mercury concentrations that exceed negative effects thresholds. We sought to further characterize the potential risk of Nelson's Sparrows to mercury exposure by sampling individuals from sites within the range of each of its subspecies. Methodology/Principal Findings From 2009 to 2011, we captured adult Nelson's Sparrows at sites within the breeding range of each subspecies (A. n. nelsoni: Grand Forks and Upham, North Dakota; A. n. alterus: Moosonee, Ontario; and A. n. subvirgatus: Grand Manan Island, New Brunswick) and sampled breast feathers, the first primary feather (P1), and blood for total mercury analysis. Mean blood mercury in nelsoni individuals captured near Grand Forks ranged from 0.84±0.37 to 1.65±1.02 SD ppm among years, between 2.0 and 4.9 times as high as concentrations at the other sites (P<0.01). Breast feather mercury did not vary among sites within a given sampling year (site means ranged from 0.98±0.69 to 2.71±2.93 ppm). Mean P1 mercury in alterus (2.96±1.84 ppm fw) was significantly lower than in any other sampled population (5.25±2.24–6.77±3.51 ppm; P≤0.03). Conclusions/Significance Our study further characterized mercury in Nelson's Sparrows near Grand Forks; we documented localized and potentially harmful mercury concentrations, indicating that this area may represent a biological mercury hotspot. This finding warrants further research to determine if wildlife populations of conservation or recreational interest in this area may be experiencing negative effects due to mercury exposure. We present preliminary conclusions about the risk of each sampled population to mercury exposure. PMID:22384194

Spatial variations in δ13C and δ15N values of primary consumers in a coastal lagoon

NASA Astrophysics Data System (ADS)

Como, S.; Magni, P.; Van Der Velde, G.; Blok, F. S.; Van De Steeg, M. F. M.

2012-12-01

The analysis of the contribution of a food source to a consumer's diet or the trophic position of a consumer is highly sensitive to the variability of the isotopic values used as input data. However, little is known in coastal lagoons about the spatial variations in the isotopic values of primary consumers considered 'end members' in the isotope mixing models for quantifying the diet of secondary consumers or as a baseline for estimating the trophic position of consumers higher up in the food web. We studied the spatial variations in the δ13C and δ15N values of primary consumers and sedimentary organic matter (SOM) within a selected area of the Cabras lagoon (Sardinia, Italy). Our aim was to assess how much of the spatial variation in isotopic values of primary consumers was due to the spatial variability between sites and how much was due to differences in short distances from the shore. Samples were collected at four stations (50-100 m apart) selected randomly at two sites (1.5-2 km apart) chosen randomly at two distances from the shore (i.e. in proximity of the shore -Nearshore - and about 200 m away from the shore -Offshore). The sampling was repeated in March, May and August 2006 using new sites at the two chosen distances from the shore on each date. The isotopic values of size-fractionated seston and macrophytes were also analyzed as a complementary characterization of the study area. While δ15N did not show any spatial variations, the δ13C values of deposit feeders, Alitta (=Neanthes) succinea, Lekanesphaera hookeri, Hydrobia acuta and Gammarus aequicauda, were more depleted Offshore than Nearshore. For these species, there were significant effects of distance or distance × dates in the mean δ13C values, irrespective of the intrinsic variation between sites. SOM showed similar spatial variations in δ13C values, with Nearshore-Offshore differences up to 6‰. This indicates that the spatial isotopic changes are transferred from the food sources to the deposit feeders studied. In contrast, δ13C and δ15N values of suspension feeders, Ficopomatus enigmaticus and Amphibalanus amphitrite, did not show major variations, either between sites, or between Nearshore and Offshore. These different patterns between deposit feeders and suspension feeders are probably due to a weaker trophic link of the latter with SOM. We suggest that the Nearshore-Offshore gradient might be an important source of isotopic variation that needs to be considered in future web studies in coastal lagoons.

Occurrence of Chlorothalonil, Its Transformation Products, and Selected Other Pesticides in Texas and Oklahoma Streams, 2003-2004

USGS Publications Warehouse

Battaglin, William A.; Kuivila, Kathryn; Winton, Kim; Meyer, Michael

2008-01-01

The primary purpose of the study described in this report was to determine if the fungicide chlorothalonil (2,4,5,6-tetrachloroisophthalonitrile), three of its transformation products, or selected other pesticides are transported to surface water after use on peanuts or other crops in Texas and Oklahoma. The results summarized here are part of a larger study that includes data from sites in Alabama, Florida, and Georgia. Chlorothalonil is classified as a probable carcinogen, and the 4-hydroxy of chlorothalonil transformation product is more soluble, more stable, and, for some species, more toxic than its parent compound. In 2003, water samples were collected from three surface-water sites in Texas and two surface-water sites in Oklahoma; in 2004, samples were collected from the two Oklahoma sites. Chlorothalonil was not detected in any of the 20 samples analyzed. The 4-hydroxy of chlorothalonil transformation product was detected in three samples collected in 2004, with a maximum concentration of 0.018 microgram per liter (?g/L); the other two transformation products (diamide chlorothalonil and 1-amide-4-hydroxy chlorothalonil) were not detected in any sample. In addition, 19 samples were analyzed for as many as 109 other pesticides and transformation products. Atrazine was detected in 13 samples and had a maximum concentration of 0.122 ?g/L. Deethylatrazine was detected in 10 samples and had a maximum concentration of 0.04 ?g/L. Metolachlor was detected in eight samples and had a maximum concentration of 0.019 ?g/L. Fifteen other pesticides or pesticide transformation products also were detected. In general, concentrations of pesticides were less than concentrations that are commonly observed in Midwestern streams. The results indicate that the use of chlorothalonil on peanut crops has not resulted in substantial contamination of the studied streams in Texas and Oklahoma.

Water quality parameters controlling the photodegradation of two herbicides in surface waters of the Columbia Basin, Washington.

PubMed

Furman, Olha S; Yu, Miao; Teel, Amy L; Watts, Richard J

2013-11-01

The water quality parameters nitrate-nitrogen, dissolved organic carbon, and suspended solids were correlated with photodegradation rates of the herbicides atrazine and 2,4-D in samples collected from four sites in the Columbia River Basin, Washington, USA. Surface water samples were collected in May, July, and October 2010 and analyzed for the water quality parameters. Photolysis rates for the two herbicides in the surface water samples were then evaluated under a xenon arc lamp. Photolysis rates of atrazine and 2,4-D were similar with rate constants averaging 0.025 h(-1) for atrazine and 0.039 h(-1) for 2,4-D. Based on multiple regression analysis, nitrate-nitrogen was the primary predictor of photolysis for both atrazine and 2,4-D, with dissolved organic carbon also a predictor for some sites. However, at sites where suspended solids concentrations were elevated, photolysis rates of the two herbicides were controlled by the suspended solids concentration. The results of this research provide a basis for evaluating and predicting herbicide photolysis rates in shallow surface waters. Copyright © 2013 Elsevier Ltd. All rights reserved.

Actinobacillus actinomycetemcomitans in Human Periodontal Disease: a Cross-Sectional Microbiological Investigation

PubMed Central

Slots, Jørgen; Reynolds, Homer S.; Genco, Robert J.

1980-01-01

Actinobacillus actinomycetemcomitans is a facultative gram-negative bacterium which has been associated with severe oral and nonoral infections. This study examined its occurrence in the oral cavities of 10 normal juveniles, 11 normal adults, 10 juvenile periodontitis patients, and 12 adult periodontitis patients. Four deep periodontal pockets and two normal periodontal sites were sampled in the diseased patients, and six normal periodontal sites were sampled in the healthy individuals. In all subjects samples were obtained from the cheek, tongue, and saliva. Samples from a total of 172 normal periodontal sites, 83 deep periodontal pockets, 42 cheek mucosae, 42 tongue dorsa, and 42 salivas were examined. Isolation was performed by using a medium for selective isolation of A. actinomycetemcomitans (Trypticase soy agar [BBL Microbiology Systems] supplemented with 10% serum and 75 μg of bacitracin per ml). The carrier rates were 20% for normal juveniles, 36% for normal adults, 50% for adult periodontitis patients, and 90% for juvenile periodontitis patients. A. actinomycetemcomitans was on average recovered in about fivefold-higher numbers from infected deep periodontal pockets than from infected normal subgingival areas. Samples of periodontal pockets generally contained 100-fold-more cells of A. actinomycetemcomitans than did samples of the cheek, tongue, and saliva. A. actinomycetemcomitans is commonly isolated from patients with juvenile periodontitis, often isolated from patients with adult periodontitis, and occasionally isolated from normal juveniles and adults. Its primary oral ecological niche appears to be dental plaque and periodontal pockets. PMID:6968718

In their own words: why teenagers don't use social networking sites.

PubMed

Baker, Rosland K; White, Katherine M

2011-06-01

We explored common reasons for non-use of the rapidly growing popularity of social networking sites among a sample of Australian adolescents (N = 69). Transcripts were coded by grouping responses along similar themes for non-use that had been commonly stated by participants. The primary reasons offered by adolescents were: lack of motivation, poor use of time, preference for other forms of communication, preference for engaging in other activities, cybersafety concerns, and a dislike of self-presentation online. The identification of these themes allows for a greater understanding of teenagers' decisions not to engage in the popular medium of communication and points to possible strategies that could be utilised by Web site developers in efforts to appeal to a wider teenage audience.

Independent Verification Final Summary Report for the David Witherspoon, Inc. 1630 Site Knoxville, Tennessee

DOE Office of Scientific and Technical Information (OSTI.GOV)

P.C. Weaver

2009-04-29

The primary objective of the independent verification was to determine if BJC performed the appropriate actions to meet the specified “hot spot” cleanup criteria of 500 picocuries per gram (pCi/g) uranium-238 (U-238) in surface soil. Specific tasks performed by the independent verification team (IVT) to satisfy this objective included: 1) performing radiological walkover surveys, and 2) collecting soil samples for independent analyses. The independent verification (IV) efforts were designed to evaluate radioactive contaminants (specifically U-238) in the exposed surfaces below one foot of the original site grade, given that the top one foot layer of soil on the site wasmore » removed in its entirety.« less

Water-quality, phytoplankton, and trophic-status characteristics of Big Base and Little Base lakes, Little Rock Air Force Base, Arkansas, 2003-2004

USGS Publications Warehouse

Justus, B.G.

2005-01-01

Little Rock Air Force Base is the largest C-130 base in the Air Force and is the only C-130 training base in the Department of Defense. Little Rock Air Force Base is located in central Arkansas near the eastern edge of the Ouachita Mountains, near the Mississippi Alluvial Plain, and within the Arkansas Valley Ecoregion. Habitats include upland pine forests, upland deciduous forest, broad-leaved deciduous swamps, and two small freshwater lakes?Big Base Lake and Little Base Lake. Big Base and Little Base Lakes are used primarily for recreational fishing by base personnel and the civilian public. Under normal (rainfall) conditions, Big Base Lake has a surface area of approximately 39 acres while surface area of Little Base Lake is approximately 1 acre. Little Rock Air Force Base personnel are responsible for managing the fishery in these two lakes and since 1999 have started a nutrient enhancement program that involves sporadically adding fertilizer to Big Base Lake. As a means of determining the relations between water quality and primary production, Little Rock Air Force Base personnel have a need for biological (phytoplankton density), chemical (dissolved-oxygen and nutrient concentrations), and physical (water temperature and light transparency) data. To address these monitoring needs, the U.S. Geological Survey in cooperation with Little Rock Air Force Base, conducted a study to collect and analyze biological, chemical, and physical data. The U.S. Geological Survey sampled water quality in Big Base Lake and Little Base Lake on nine occasions from July 2003 through June 2004. Because of the difference in size, two sampling sites were established on Big Base Lake, while only one site was established on Little Base Lake. Lake profile data for Big Base Lake indicate that low dissolved- oxygen concentrations in the hypolimnion probably constrain most fish species to the upper 5-6 feet of depth during the summer stratification period. Dissolved-oxygen concentrations in Big Base Lake below a depth of 6 feet generally were less than 3 milligrams per liter for summer months that were sampled in 2003 and 2004. Some evidence indicates that phosphorus was limiting primary production during the sampling period. Dissolved nitrogen constituents frequently were detected in water samples (indicating availability) but dissolved phosphorus constituents-orthophosphorus and dissolved phosphorus-were not detected in any samples collected at the two lakes. The absence of dissolved phosphorus constituents and presence of total phosphorus indicates that all phosphorus was bound to suspended material (sediment particles and living organisms). Nitrogen:phosphorus ratios on most sampling occasions tended to be slightly higher than 16:1, which can be interpreted as further indication that phosphorus could be limiting primary production to some extent. An alkalinity of 20 milligrams per liter of calcium carbonate or higher is recommended to optimize nutrient availability and buffering capacity in recreational fishing lakes and ponds. Median values for water samples collected at the three sites ranged from 12-13 milligrams per liter of calcium carbonate. Alkalinities ranged from 9-60 milligrams per liter of calcium carbonate, but 13 of 17 samples collected at the deepest site had alkalinities less than 20 milligrams per liter of calcium carbonate. Results of three trophic-state indices, and a general trophic classification, as well as abundant green algae and large growths of blue-green algae indicate that Big Base Lake may be eutrophic. Trophic-state index values calculated using total phosphorus, chlorophyll a, and Secchi disc measurements from both lakes generally exceeded criteria at which lakes are considered to be eutrophic. A second method of determining lake trophic status-the general trophic classification-categorized the three sampling sites as mesotrophic or eutrophic. Green algae were found to be in abundance throughout mos

Site vegetation report: Terrestrial vegetation survey (1993--1995) for the Rocky Flats Environmental Technology Site

DOE Office of Scientific and Technical Information (OSTI.GOV)

NONE

1997-06-01

The Ecological Monitoring Program (EcMP) was designed to investigate the long-term ecological trends in terrestrial and aquatic ecosystems at the US Department of energy`s (DOE`s) Rocky Flats Environmental Technology Site (Site) (DOE 1993). Field sampling was conducted during 1993, 1994, and 1995, until the program was terminated in late 1995. This report presents the terrestrial vegetation data that were gathered by the EcMP. The site is located on the Colorado Piedmont, east of the Front Range, between Boulder and Golden, approximately 25 km (16 miles) northwest of Denver. The topography and proximity of the Site to the mountain front resultmore » in an interesting mixture of prairie and mountain plant species. The Site is one of the few large, relatively undisturbed areas of its kind that remains along the Colorado Piedmont. Until 1989, the primary mission of the Site was the production of nuclear weapons components (DOE 1993). After production ceased, Site personnel shifted their focus to cleanup and closure.« less

A sampling design framework for monitoring secretive marshbirds

USGS Publications Warehouse

Johnson, D.H.; Gibbs, J.P.; Herzog, M.; Lor, S.; Niemuth, N.D.; Ribic, C.A.; Seamans, M.; Shaffer, T.L.; Shriver, W.G.; Stehman, S.V.; Thompson, W.L.

2009-01-01

A framework for a sampling plan for monitoring marshbird populations in the contiguous 48 states is proposed here. The sampling universe is the breeding habitat (i.e. wetlands) potentially used by marshbirds. Selection protocols would be implemented within each of large geographical strata, such as Bird Conservation Regions. Site selection will be done using a two-stage cluster sample. Primary sampling units (PSUs) would be land areas, such as legal townships, and would be selected by a procedure such as systematic sampling. Secondary sampling units (SSUs) will be wetlands or portions of wetlands in the PSUs. SSUs will be selected by a randomized spatially balanced procedure. For analysis, the use of a variety of methods as a means of increasing confidence in conclusions that may be reached is encouraged. Additional effort will be required to work out details and implement the plan.

Occurrence of pesticides in water and sediment collected from amphibian habitats located throughout the United States, 2009-10

USGS Publications Warehouse

Smalling, Kelly L.; Orlando, James L.; Calhoun, Daniel; Battaglin, William A.; Kuivila, Kathryn

2012-01-01

Water and bed-sediment samples were collected by the U.S. Geological Survey (USGS) in 2009 and 2010 from 11 sites within California and 18 sites total in Colorado, Georgia, Idaho, Louisiana, Maine, and Oregon, and were analyzed for a suite of pesticides by the USGS. Water samples and bed-sediment samples were collected from perennial or seasonal ponds located in amphibian habitats in conjunction with research conducted by the USGS Amphibian Research and Monitoring Initiative and the USGS Toxic Substances Hydrology Program. Sites selected for this study in three of the states (California, Colorado, and Orgeon) have no direct pesticide application and are considered undeveloped and remote. Sites selected in Georgia, Idaho, Louisiana, and Maine were in close proximity to either agricultural or suburban areas. Water and sediment samples were collected once in 2009 during amphibian breeding seasons. In 2010, water samples were collected twice. The first sampling event coincided with the beginning of the frog breeding season for the species of interest, and the second event occurred 10-12 weeks later when pesticides were being applied to the surrounding areas. Additionally, water was collected during each sampling event to measure dissolved organic carbon, nutrients, and the fungus, Batrachochytrium dendrobatidis, which has been linked to amphibian declines worldwide. Bed-sediment samples were collected once during the beginning of the frog breeding season, when the amphibians are thought to be most at risk to pesticides. Results of this study are reported for the following two geographic scales: (1) for a national scale, by using data from the 29 sites that were sampled from seven states, and (2) for California, by using data from the 11 sampled sites in that state. Water samples were analyzed for 96 pesticides by using gas chromatography/mass spectrometry. A total of 24 pesticides were detected in one or more of the 54 water samples, including 7 fungicides, 10 herbicides, 4 insecticides, 1 synergist, and 2 pesticide degradates. On a national scale, aminomethylphosphonic acid (AMPA), the primary degradate of the herbicide glyphosate, which is the active ingredient in Roundup®, was the most frequently detected pesticide in water (16 of 54 samples) followed by glyphosate (8 of 54 samples). The maximum number of pesticides observed at a single site was nine compounds in a water sample from a site in Louisiana. The maximum concentration of a pesticide or degradate observed in water was 2,880 nanograms per liter of clomazone (a herbicide) at a site in Louisiana. In California, a total of eight pesticides were detected among all of the low and high elevation sites; AMPA was the most frequently detected pesticide, but glyphosate was detected at the highest concentrations (1.1 micrograms per liter). Bed-sediment samples were analyzed for 94 pesticides by using accelerated solvent extraction, gel permeation chromatography for sulfur removal, and carbon/alumina stacked solid-phase extraction cartridges to remove interfering sediment matrices. In bed sediment, 22 pesticides were detected in one or more of the samples, including 9 fungicides, 3 pyrethroid insecticides, p,p'-dichlorodiphenyltrichloroethane (p,p'-DDT) and its major degradates, as well as several herbicides. Pyraclostrobin, a strobilurin fungicide, and bifenthrin, a pyrethroid insecticide, were detected most frequently. Maximum pesticide concentrations ranged from less than their respective method detection limits to 1,380 micrograms per kilogram (tebuconazole in California). The number of pesticides detected in samples from each site ranged from zero to six compounds. The sites with the greatest number of pesticides were in Maine and Oregon with six pesticides detected in one sample from each state, followed by Georgia with four pesticides in one sample. For California, a total of 10 pesticides were detected among all sites, and 4 pesticides were detected at both low and high elevation sites; tebuconazole and pyraclostrobin were the two most frequently detected pesticides in California. For the other six selected states, the most frequently detected pesticides in bed sediment were pyraclostrobin (detected in 17 of 42 samples), bifenthrin (detected in 14 of 42 samples), and tebuconazole (detected in 10 of 42 samples). The fungus, Batrachochytrium dendrobatidis (Bd), was detected in water samples in sites from four of the seven states during 2009 and 2010, and the number of zoospore equivalents per liter of water in samples where Bd was detected ranged from 1.6 to 343. Bd was not detected in water samples from sites in Georgia, Louisiana, and Oregon.

Petrographic and petrological study of lunar rock materials

NASA Technical Reports Server (NTRS)

Winzer, S. R.

1977-01-01

Impact melts and breccias from the Apollo 15 and 16 landing sites were examined optically and by electron microscope/microprobe. Major and trace element abundances were determined for selected samples. Apollo 16 breccias contained impact melts, metamorphic and primary igneous rocks. Metamorphic rocks may be the equivalents of the impact melts. Apollo 15 breccias studied were fragment-laden melts derived from gabbro and more basalt target rocks.

Quantitative assessment of anthrax vaccine immunogenicity using the dried blood spot matrix.

PubMed

Schiffer, Jarad M; Maniatis, Panagiotis; Garza, Ilana; Steward-Clark, Evelene; Korman, Lawrence T; Pittman, Phillip R; Mei, Joanne V; Quinn, Conrad P

2013-03-01

The collection, processing and transportation to a testing laboratory of large numbers of clinical samples during an emergency response situation present significant cost and logistical issues. Blood and serum are common clinical samples for diagnosis of disease. Serum preparation requires significant on-site equipment and facilities for immediate processing and cold storage, and significant costs for cold-chain transport to testing facilities. The dried blood spot (DBS) matrix offers an alternative to serum for rapid and efficient sample collection with fewer on-site equipment requirements and considerably lower storage and transport costs. We have developed and validated assay methods for using DBS in the quantitative anti-protective antigen IgG enzyme-linked immunosorbent assay (ELISA), one of the primary assays for assessing immunogenicity of anthrax vaccine and for confirmatory diagnosis of Bacillus anthracis infection in humans. We have also developed and validated high-throughput data analysis software to facilitate data handling for large clinical trials and emergency response. Published by Elsevier Ltd.

Emergence of Secondary Trigger Sites after Primary Migraine Surgery.

PubMed

Punjabi, Ayesha; Brown, Matthew; Guyuron, Bahman

2016-04-01

Surgical decompression of a migraine headache may unmask headaches originating from secondary sites. A retrospective chart review investigated the incidence and characteristics of secondary trigger sites to identify clinical patterns that could aid in predicting and perhaps reducing postoperative migraines. One hundred eighty-five charts for migraine patients who underwent surgery at the senior author's (B.G.) practice were reviewed. Sites from which migraine headaches initiated or occurred independently were considered primary. The sites that were not active at the time of preoperative evaluation but became active after surgery were considered secondary. Bivariate analysis was performed to characterize postoperative migraines. Of 185 patients, 33 (17.8 percent) developed secondary migraine headache trigger sites. Of patients with primary site I (frontal) symptoms, 20.83 percent had site III (septonasal) symptoms unmasked after surgery (versus 7 percent for patients with other primary sites; p = 0.04). Of the patients with site II (temporal) migraines, 17.14 percent had secondary frontal symptoms (versus 5.68 percent; p = 0.04). Primary site II symptoms predicted postoperative site IV (occipital) symptoms (11.43 versus 1.1 percent; p = 0.008), and primary occipital symptoms predicted postoperative temporal symptoms (11.1 versus 2.33 percent; p = 0.04). The authors observed that 17.8 percent of patients develop postoperative migraine headache triggers that are not reported during the initial assessment. Knowledge of secondary migraine emergence patterns, and the presence of some preoperative symptoms, can aid in predicting the migraines that will arise from a new site postoperatively. Therapeutic, IV.

Source apportionment of airborne particulate matter using organic compounds as tracers

NASA Astrophysics Data System (ADS)

Schauer, James J.; Rogge, Wolfgang F.; Hildemann, Lynn M.; Mazurek, Monica A.; Cass, Glen R.; Simoneit, Bernd R. T.

A chemical mass balance receptor model based on organic compounds has been developed that relates source contributions to airborne fine particle mass concentrations. Source contributions to the concentrations of specific organic compounds are revealed as well. The model is applied to four air quality monitoring sites in southern California using atmospheric organic compound concentration data and source test data collected specifically for the purpose of testing this model. The contributions of up to nine primary particle source types can be separately identified in ambient samples based on this method, and approximately 85% of the organic fine aerosol is assigned to primary sources on an annual average basis. The model provides information on source contributions to fine mass concentrations, fine organic aerosol concentrations and individual organic compound concentrations. The largest primary source contributors to fine particle mass concentrations in Los Angeles are found to include diesel engine exhaust, paved road dust, gasoline-powered vehicle exhaust, plus emissions from food cooking and wood smoke, with smaller contribution from tire dust, plant fragments, natural gas combustion aerosol, and cigarette smoke. Once these primary aerosol source contributions are added to the secondary sulfates, nitrates and organics present, virtually all of the annual average fine particle mass at Los Angeles area monitoring sites can be assigned to its source.

Source apportionment of airborne particulate matter using organic compounds as tracers

NASA Astrophysics Data System (ADS)

Schauer, James J.; Rogge, Wolfgang F.; Hildemann, Lynn M.; Mazurek, Monica A.; Cass, Glen R.; Simoneit, Bernd R. T.

A chemical mass balance receptor model based on organic compounds has been developed that relates sours; contributions to airborne fine particle mass concentrations. Source contributions to the concentrations of specific organic compounds are revealed as well. The model is applied to four air quality monitoring sites in southern California using atmospheric organic compound concentration data and source test data collected specifically for the purpose of testing this model. The contributions of up to nine primary particle source types can be separately identified in ambient samples based on this method, and approximately 85% of the organic fine aerosol is assigned to primary sources on an annual average basis. The model provides information on source contributions to fine mass concentrations, fine organic aerosol concentrations and individual organic compound concentrations. The largest primary source contributors to fine particle mass concentrations in Los Angeles are found to include diesel engine exhaust, paved road dust, gasoline-powered vehicle exhaust, plus emissions from food cooking and wood smoke, with smaller contribution:; from tire dust, plant fragments, natural gas combustion aerosol, and cigarette smoke. Once these primary aerosol source contributions are added to the secondary sulfates, nitrates and organics present, virtually all of the annual average fine particle mass at Los Angeles area monitoring sites can be assigned to its source.

[Smartphone usage among adolescents].

PubMed

Körmendi, Attila

2015-01-01

Among our technological gadgets smartphones play the most important role, new generation devices offer other functions beyond calling (internet availability, computer games, music player, camera functions etc.) In everydays can be experienced that youth spend more and more time with their smartphones and despite the actuality of this issue there are no studies on the excessive smartphone usage in Hungary and we can find only a few international studies. Our goal is to examine smartphone usage in primary and secondary schools in Hajdu-Bihar county, Hungary and its relationship with personality traits. Our sample consist of 263 youth from primary and secondary schools. We measured the characteristics of smartphone using and attitudes with a Mobilephone Using Questionnare. Personality traits are measured with Impulsiveness, Venturesomeness, Empathy Scale. The Child Behavior Checklist gives information about peer relationships, mental state and emotions. Average phone using time is 4,48 hours per day regarding the whole sample. This mean for boys is 3,40 hour for girls 5,39 hour. Average phone using time is higher at 16 (6,35 hour per day). The most frequent used applications are calling and visiting community sites. There is no connection between phone using and grades. The smartphone using time per day shows a significant positive relationship with Impulsivity, Anxiety and Depression, Attention deficits and Somatic problems within 17-19 ages. One of the explanation of excessive smartphone using may be the frequent visiting of community sites. Mobile phones in this case raise the availability of addictive object (community site) therefore contribute to the development of community site addiction. The connection with impulsivity, somatic problems and attention deficits refer to the anxiety reducing role of smartphones within 17-19 ages.

Impact of metals on histopathology and expression of HSP 70 in different tissues of Milk fish (Chanos chanos) of Kaattuppalli Island, South East Coast, India.

PubMed

Rajeshkumar, Sivakumar; Munuswamy, Natesan

2011-04-01

Histological and Immunohistochemical studies were carried out to document the possible impact of heavy metal contamination in different tissues of Chanos chanos. Heavy metals such as Cu, Pb, Zn, Cd, Mn and Fe were predominant in water, sediment and biota of Kaattuppalli Island and varied significantly between two different sites. Histological changes such as swelling of muscle fiber and break down of muscle bundles were noted in the muscle. Similarly gill filament cell proliferation, increase in intercellular spaces and primary and secondary lamellar epithelium were evident in gills. The hepatocytes showed damage of central vein and rupture of irregular hepatic plate with more number of vacuoles in the fish collected from polluted site compared to that from the less polluted site. The impact of pollution was also assessed in different tissues by immunohistochemistry using primary antibody (mouse monoclonal HSP70 antibody 1:2000) and secondary antibody (HRP conjugated antibody) for expression of stress protein. Immunostaining analysis showed expression of HSP70 with high intensity in the tissues of fish collected from polluted site compared to less polluted sites. Further, HSP70 positive cells were analyzed from six locations per fish tissue section. One-way analysis of variance (ANOVA) followed by least significant difference (LSD) was used to check if the expression was significant. Results indicate that the values are statistically significant at the two different sampling sites (P<0.05). Copyright © 2011 Elsevier Ltd. All rights reserved.

Water-quality data for Walnut Canyon and Wupatki National Monuments, Arizona, 2001-02

USGS Publications Warehouse

Thomas, Blakemore E.

2003-01-01

Water-quality data are provided for four sites in Walnut Canyon and Wupatki National Monuments in north-central Arizona. These data describe the current water quality and provide baseline water-quality information for monitoring future trends. Water samples were collected from a ground-water seep and well in Walnut Canyon and from a spring and a river in Wupatki during September 2001 to September 2002. Water from the four sites is from four different sources. In Walnut Canyon, Cherry Canyon seep is in a shallow local aquifer, and the Little Colorado River contains ground-water discharge from several aquifers and runoff from a 22,000 square-mile drainage area. Concentrations of dissolved solids were similar within the two monuments; the range for water samples from Walnut Canyon was 203 to 248 milligrams per liter, and the range for water samples from Wupatki was 503 to 614 milligrams per liter. Concentrations of trace elements were generally low in water samples from the three ground-water sites--Cherry Canyon seep, Walnut Canyon headquarters well, and Heiser Spring. The water sample collected from the Little Colorado River, however, had high concentrations of aluminum (4,020 micrograms per liter), antimony (54 micrograms per liter), arsenic (14.3 micrograms per liter), and iron (749 micrograms per liter) relative to U.S. Environmental Protection Agency Primary and Secondary Maximum Contaminant Levels. Concentrations of nitrate (as nitrogen) in water samples from the four sites were generally low (0.11 to 1.8 milligrams per liter) and are within the upper 25 percent of nitrate concentrations measured in the regional aquifer near Flagstaff in 1996 and 1997. Water samples from Cherry Canyon seep, Heiser Spring, and the Little Colorado River contained total coliform bacteria. Fecal coliform and Escherichia coli bacteria were found in water samples from Cherry Canyon seep and the Little Colorado River.

Benthic macroinvertebrate and fish communities in Lake Huron are linked to submerged groundwater vents

USGS Publications Warehouse

Garrison, Sanders T.; Biddanda, B.A.; Stricker, C.A.; Nold, S.C.

2011-01-01

Groundwater can be an important source of nutrients and energy to aquatic ecosystems, but quantifying the inputs and biogeochemical importance remains challenging. A series of submerged groundwater vents in northern Lake Huron were examined to determine the linkage between groundwater nutrients and aquatic food webs. We collected samples of key food-web components from groundwater vent and reference habitats and analyzed them for 13C, 15N, and 34S isotopes. Dissolved inorganic carbon (DIC) in the groundwater was depleted in 13C, while aqueous sulfate was enriched in 34S (mean differences between groundwater and reference sites were -3.9% and +12.0%, respectively). Benthic primary producers, macroinvertebrates, and benthivorous fish had significantly lower ??13C values in groundwater environments, and benthivorous fish were somewhat depleted (-2.5%) in ??34S at groundwater sites compared to reference sites. However, ??15N values were not different between groundwater and reference sites, and pelagic components of the ecosystems (plankton and planktivorous and piscivorous fish) were similar in both ??13C and ??15N. These data suggest benthic metazoan communities surrounding groundwater vents are partially linked to groundwater-derived benthic primary production, while planktivorous and piscivorous communities not directly associated with the benthos do not rely on groundwater nutrients. ?? Inter-Research 2011.

Characterization of carbonaceous species of ambient PM2.5 in Beijing, China

DOE Office of Scientific and Technical Information (OSTI.GOV)

Fumo Yang; Kebin He; Yongliang Ma

2005-07-01

One-week integrated fine particulate matter (i.e., particles {lt}2.5 {mu}m in diameter; PM2.5) samples were collected continuously with a low-flow rate sampler at a downtown site (Chegongzhuang) and a residential site (Tsinghua University) in Beijing between July 1999 and June 2000. The annual average concentrations of organic carbon (OC) and elemental carbon (EC) at the urban site were 23.9 and 8.8 {mu}g m{sup -3}, much higher than those in some cities with serious air pollution. Similar weekly variations of OC and EC concentrations were found for the two sampling sites with higher concentrations in the winter and autumn. The highest weeklymore » variations of OC and EC occurred in the winter, suggesting that combustion sources for space heating were important contributors to carbonaceous particles, along with a significant impact from variable meteorological conditions. High emissions coupled with unfavorable meteorological conditions led to the maximum weekly carbonaceous concentration the week of November 18-25, 1999. The weekly mass ratios of OC:EC ranged between 2 and 4 for most samples and averaged 2.9, probably suggesting that secondary OC (SOC) is present most weeks. The range of contemporary carbon fraction, based on the C14 analyses of eight samples collected in 2001, is 0.330-0.479. Estimated SOC accounted for {approximately}38% of the total OC at the two sites. Average OC and EC concentrations at Tsinghua University were 25% and 18%, respectively, higher than those at Chegongzhuang, which could be attributed to different local emissions of primary carbonaceous particles and gaseous precursors of SOC, as well as different summer photochemical intensities between the two locations. Main carbonaceous sources are from coal combustion, vehicles and cooking. 44 refs., 5 figs., 2 tabs.« less

Characterization of carbonaceous species of ambient PM2.5 in Beijing, China.

PubMed

Yang, Fumo; He, Kebin; Ma, Yongliang; Zhang, Qiang; Cadle, Steven H; Chan, Tai; Mulawa, Patricia A

2005-07-01

One-week integrated fine particulate matter (i.e., particles <2.5 microm in diameter; PM2.5) samples were collected continuously with a low-flow rate sampler at a downtown site (Chegongzhuang) and a residential site (Tsinghua University) in Beijing between July 1999 and June 2000. The annual average concentrations of organic carbon (OC) and elemental carbon (EC) at the urban site were 23.9 and 8.8 microg m(-3), much higher than those in some cities with serious air pollution. Similar weekly variations of OC and EC concentrations were found for the two sampling sites with higher concentrations in the winter and autumn. The highest weekly variations of OC and EC occurred in the winter, suggesting that combustion sources for space heating were important contributors to carbonaceous particles, along with a significant impact from variable meteorological conditions. High emissions coupled with unfavorable meteorological conditions led to the max weekly carbonaceous concentration the week of November 18-25, 1999. The weekly mass ratios of OC:EC ranged between 2 and 4 for most samples and averaged 2.9, probably suggesting that secondary OC (SOC) is present most weeks. The range of contemporary carbon fraction, based on the C14 analyses of eight samples collected in 2001, is 0.330-0.479. Estimated SOC accounted for approximately 38% of the total OC at the two sites. Average OC and EC concentrations at Tsinghua University were 25% and 18%, respectively, higher than those at Chegongzhuang, which could be attributed to different local emissions of primary carbonaceous particles and gaseous precursors of SOC, as well as different summer photochemical intensities between the two locations.

Carbonyl sulfide produced by abiotic thermal and photodegradation of soil organic matter from wheat field substrate

NASA Astrophysics Data System (ADS)

Whelan, Mary E.; Rhew, Robert C.

2015-01-01

Carbonyl sulfide (COS) is a reduced sulfur gas that is taken up irreversibly in plant leaves proportionally with CO2, allowing its potential use as a tracer for gross primary production. Recently, wheat field soil at the Southern Great Plains Atmospheric Radiation Measurement site in Lamont, Oklahoma, was found to be a measureable source of COS to the atmosphere. To understand the mechanism of COS production, soil and root samples were collected from the site and incubated in the laboratory over a range of temperatures (15-34°C) and light conditions (light and dark). Samples exhibited mostly COS net uptake from the atmosphere in dark and cool (<22-25°C) trials. COS emission was observed during dark incubations at high temperatures (>25°C), consistent with field observations, and at a lower temperature (19°C) when a full spectrum lamp (max wavelength 600 nm) was applied. Sterilized soil and root samples yielded only COS production that increased with temperature, supporting the hypothesis that (a) COS production in these samples is abiotic, (b) production is directly influenced by temperature and light, and (c) some COS consumption in soil and root samples is biotic.

Patients' experiences of diabetes education teams integrated into primary care.

PubMed

Grohmann, Barbara; Espin, Sherry; Gucciardi, Enza

2017-02-01

To explore patients' perspectives on care received from diabetes education teams (a registered nurse and a registered dietitian) integrated into primary care. Qualitative study using semistructured, one-on-one interviews. Three diabetes education programs operating in 11 primary care sites in one region of Ontario. Twenty-three patients with diabetes. Purposeful sampling was used to recruit participants from each site for interviews. Educator teams invited patients with whom they had met at least once to participate in semistructured interviews. Data were analyzed using thematic analysis with NVivo 11 software. The diabetes education teams integrated into primary care exhibited many of the principles of person-centred care, as evidenced by the 2 overarching themes. The first is personalized care, with the subthemes care environment, shared decision making, and patient preference for one-on-one care. Participants described feeling included in partnerships with their health care providers, as they collaborated with physicians and diabetes educators to develop knowledge and set goals in the convenience and comfort of their usual primary care settings. Many participants also expressed a preference for one-on-one sessions. The second theme is patient-provider relationship, with the subthemes respect, supportive interaction, and facilitating patient engagement. Supportive environments created by the educators built trusting relationships, where patients expressed enhanced motivation to improve their self-care. Diabetes educators integrated into primary care can serve to enrich the experience of patients, provide key education to improve patient understanding, and support primary care physicians in providing timely and comprehensive clinical care. Diabetes patients appear to benefit from convenient access to interprofessional teams of educators in primary care to support diabetes self-management. Copyright© the College of Family Physicians of Canada.

Overcoming Barriers to Integrating Behavioral Health and Primary Care Services

PubMed Central

Grazier, Kyle L.; Smiley, Mary L.; Bondalapati, Kirsten S.

2016-01-01

Objective: Despite barriers, organizations with varying characteristics have achieved full integration of primary care services with providers and services that identify, treat, and manage those with mental health and substance use disorders. What are the key factors and common themes in stories of this success? Methods: A systematic literature review and snowball sampling technique was used to identify organizations. Site visits and key informant interviews were conducted with 6 organizations that had over time integrated behavioral health and primary care services. Case studies of each organization were independently coded to identify traits common to multiple organizations. Results: Common characteristics include prioritized vulnerable populations, extensive community collaboration, team approaches that included the patient and family, diversified funding streams, and data-driven approaches and practices. Conclusions: While significant barriers to integrating behavioral health and primary care services exist, case studies of organizations that have successfully overcome these barriers share certain common factors. PMID:27380923

Y-12 National Security Complex Biological Monitoring and Abatement Program 2007 Calendar Yeare Report

DOE Office of Scientific and Technical Information (OSTI.GOV)

Peterson, M.J.; Greeley, M. S. Jr.; Morris, G. W.

2008-07-01

The National Pollutant Discharge Elimination System (NPDES) permit issued for the Oak Ridge Y-12 National Security Complex (Y-12 Complex) which became effective May 1, 2006, continued a requirement for a Biological Monitoring and Abatement Program (BMAP). The BMAP was originally developed in 1985 to demonstrate that the effluent limitations established for the Y-12 Complex protected the classified uses of the receiving stream (East Fork Poplar Creek: EFPC), in particular, the growth and propagation of aquatic life (Loar et al. 1989). The objectives of the current BMAP are similar, specifically to assess stream ecological conditions relative to regulatory limits and criteria,more » to assess ecological impacts as well as recovery in response to Y-12 operations, and to investigate the causes of continuing impacts. The BMAP consists of three tasks that reflect complementary approaches to evaluating the effects of the Y-12 Complex discharges on the biotic integrity of EFPC. These tasks include: (1) bioaccumulation monitoring, (2) benthic macroinvertebrate community monitoring, and (3) fish community monitoring. As required by the NPDES permit, the BMAP benthic macroinvertebrate community monitoring task includes studies to annually evaluate the receiving stream's biological integrity in comparison to TN Water Quality Criteria. BMAP monitoring is currently being conducted at five primary EFPC sites, although sites may be excluded or added depending upon the specific objectives of the various tasks. Criteria used in selecting the sites include: (1) location of sampling sites used in other studies, (2) known or suspected sources of downstream impacts, (3) proximity to U.S. Department of Energy (DOE) Oak Ridge Reservation (ORR) boundaries, (4) appropriate habitat distribution, and (5) access. The primary sampling sites include upper EFPC at kilometers (EFKs) 24.4 and 23.4 [upstream and downstream of Lake Reality (LR) respectively]; EFK 18.7 (also EFK 18.2 and 19), located off the ORR and below an area of intensive commercial and light industrial development; EFK 13.8, located upstream from the Oak Ridge Wastewater Treatment Facility (ORWTF); and EFK 6.3 located approximately 1.4 km below the ORR boundary (Fig. 1.1). Actual sampling locations on EFPC may differ slightly by task according to specific requirements of the task. Brushy Fork (BF) at kilometer (BFK) 7.6 and Hinds Creek at kilometer (HCK) 20.6 are the most commonly used reference sites for the Y-12 BMAP. Additional sites off the ORR are also occasionally used for reference, including Beaver Creek, Bull Run, Cox Creek, and Paint Rock Creek (Fig. 1.2). Summaries of the sampling designs for the three primary tasks of the Y-12 Complex BMAP for EFPC are presented in Tables 1.1-1.3. This report covers the 2007 study period, although data collected outside this time period are included as appropriate. To address the biological monitoring requirements for Bear Creek and McCoy Branch, CERCLA-funded data is summarized in Appendix A (for Bear Creek) and Appendix B (for McCoy Branch). Data for these two watersheds is provided herein to address Section IX of the NPDES Permit for Y-12, where 'Results of these CERCLA programs can be used to meet the biological monitoring requirements of this permit'. For potential comparison with instream biological measures, a summary of the toxicity testing results for Y-12 outfalls into upper EFPC is provided in Appendix C (these results have been previously reported).« less

Local source impacts on primary and secondary aerosols in the Midwestern United States

NASA Astrophysics Data System (ADS)

Jayarathne, Thilina; Rathnayake, Chathurika M.; Stone, Elizabeth A.

2016-04-01

Atmospheric particulate matter (PM) exhibits heterogeneity in composition across urban areas, leading to poor representation of outdoor air pollutants in human exposure assessments. To examine heterogeneity in PM composition and sources across an urban area, fine particulate matter samples (PM2.5) were chemically profiled in Iowa City, IA from 25 August to 10 November 2011 at two monitoring stations. The urban site is the federal reference monitoring (FRM) station in the city center and the peri-urban site is located 8.0 km to the west on the city edge. Measurements of PM2.5 carbonaceous aerosol, inorganic ions, molecular markers for primary sources, and secondary organic aerosol (SOA) tracers were used to assess statistical differences in composition and sources across the two sites. PM2.5 mass ranged from 3 to 26 μg m-3 during this period, averaging 11.2 ± 4.9 μg m-3 (n = 71). Major components of PM2.5 at the urban site included organic carbon (OC; 22%), ammonium (14%), sulfate (13%), nitrate (7%), calcium (2.9%), and elemental carbon (EC; 2.2%). Periods of elevated PM were driven by increases in ammonium, sulfate, and SOA tracers that coincided with hot and dry conditions and southerly winds. Chemical mass balance (CMB) modeling was used to apportion OC to primary sources; biomass burning, vegetative detritus, diesel engines, and gasoline engines accounted for 28% of OC at the urban site and 24% of OC at the peri-urban site. Secondary organic carbon from isoprene and monoterpene SOA accounted for an additional 13% and 6% of OC at the urban and peri-urban sites, respectively. Differences in biogenic SOA across the two sites were associated with enhanced combustion activities in the urban area and higher aerosol acidity at the urban site. Major PM constituents (e.g., OC, ammonium, sulfate) were generally well-represented by a single monitoring station, indicating a regional source influence. Meanwhile, nitrate, biomass burning, food cooking, suspended dust, and biogenic SOA were not well-represented by a single site and demonstrated local influences. For isoprene SOA, product distributions indicated a larger role for the high-NOx pathway at the urban site. These local sources are largely responsible for differences in population exposures to outdoor PM in the study domain located within the Midwestern US.

Streamflow and Water-Quality Characteristics for Wind Cave National Park, South Dakota, 2002-03

USGS Publications Warehouse

Heakin, Allen J.

2004-01-01

A 2-year study of streamflow and water-quality characteristics in Wind Cave National Park was performed by the U.S. Geological Survey in cooperation with the National Park Service. During this study, streamflow and water-quality data were collected for three of the park's perennial streams (Cold Spring, Beaver, and Highland Creeks) from January 2002 through November 2003. The potential influence of parking lot runoff on cave drip within Wind Cave also was investigated by collecting and analyzing several time-dependent samples from a drainage culvert downstream from the parking lot and from Upper Minnehaha Falls inside the cave following a series of simulated runoff events. The primary focus of the report is on data collected during the 2-year study from January 2002 to November 2003; however, data collected previously also are summarized. Losing reaches occur on both Beaver and Highland Creeks as these streams flow across outcrops of bedrock aquifers within the park. No streamflow losses occur along Cold Spring Creek because its confluence with Beaver Creek is located upstream from the outcrop of the Madison aquifer, where most streamflow losses occur. Physical properties, major ions, trace elements, nutrients, bacteria, benthic macroinvertebrates, organic (wastewater) compounds, bottom sediment, and suspended sediment are summarized for samples collected from 2 sites on Cold Spring Creek, 2 sites on Beaver Creek, and 1 site on Highland Creek. None of the constituent concentrations for any of the samples collected during 2002-03 exceeded any of the U.S. Environmental Protection Agency drinking-water standards, with the exception of the Secondary Maximum Contaminant Level for pH, which was exceeded in numerous samples from Beaver Creek and Highland Creek. Additionally, the pH values in several of these same samples also exceeded beneficial-use criteria for coldwater permanent fisheries and coldwater marginal fisheries. Water temperature exceeded the coldwater permanent fisheries criterion in numerous samples from all three streams. Two samples from Highland Creek also exceeded the coldwater marginal fisheries criterion for water temperature. Mean concentrations of ammonia, orthophosphate, and phosphorous were higher for the upstream site on Beaver Creek than for other water-quality sampling sites. Concentrations of E. coli, fecal coliform, and total coliform bacteria also were higher at the upstream site on Beaver Creek than for any other site. Samples for the analysis of benthic macroinvertebrates were collected from one site on each of the three streams during July 2002 and May 2003. The benthic macroinvertebrate data showed that Beaver Creek had lower species diversity and a higher percentage of tolerant species than the other two streams during 2002, but just the opposite was found during 2003. However, examination of the complete data set indicates that the quality of water at the upstream site was generally poorer than the quality of water at the downstream site. Furthermore, the quality of water at the upstream site on Beaver Creek is somewhat degraded when compared to the quality of water from Highland and Cold Spring Creeks, indicating that anthropogenic activities outside the park probably are affecting the quality of water in Beaver Creek. Samples for the analysis of wastewater compounds were collected at least twice from four of the five water-quality sampling sites. Bromoform, phenol, caffeine, and cholesterol were detected in samples from Cold Spring Creek, but only phenol was detected at concentrations greater than the minimum reporting level. Concentrations of several wastewater compounds were estimated in samples collected from sites on Beaver Creek, including phenol, para-cresol, and para-nonylphenol-total. Phenol was detected at both sites on Beaver Creek at concentrations greater than the minimum reporting level. Bromoform; para-cresol; ethanol,2-butoxy-phosphate; and cholesterol were detected

Elevated levels of numerous cytokines in drainage fluid after primary total hip arthroplasty.

PubMed

van der Heide, Huub J L; van der Kraan, Peter M; Rijnberg, Willard J; Buma, Pieter; Schreurs, B Willem

2010-12-01

As cytokines are involved in wound healing and other inflammatory processes, it could be valuable to measure their levels at the operative site. This study was conducted to investigate whether different cytokines are measurable in drainage fluid and, when measurable, whether we can find a difference in cytokine levels between one and six hours postoperatively. Samples from the drainage system in 30 consecutive patients undergoing primary total hip replacement were collected at one and six hours after closure of the wound. Levels of several cytokines were measured in the drainage fluids. A significant elevation of almost all cytokines was observed between the sample after one hour and six hours postoperatively. We found a strong correlation between the different pro-inflammatory cytokines. The IL-6 to IL-10 ratio were also raised, showing a pro-inflammatory predominance. Levels were much higher than those previously shown in serum.

Characterization of the Kootenai River Algae Community and Primary Productivity Before and After Experimental Nutrient Addition, 2004–2007 [Chapter 2, Kootenai River Algal Community Characterization, 2009 KTOI REPORT].

DOE Office of Scientific and Technical Information (OSTI.GOV)

Holderman, Charlie; Bonners Ferry, ID; Anders, Paul

2009-07-01

The Kootenai River ecosystem (spelled Kootenay in Canada) has experienced numerous ecological changes since the early 1900s. Some of the largest impacts to habitat, biological communities, and ecological function resulted from levee construction along the 120 km of river upstream from Kootenay Lake, completed by the 1950s, and the construction and operation of Libby Dam on the river near Libby Montana, completed in 1972. Levee construction isolated tens of thousands of hectares of historic functioning floodplain habitat from the river channel downstream in Idaho and British Columbia (B.C.) severely reducing natural biological productivity and habitat diversity crucial to large river-floodplainmore » ecosystem function. Libby Dam greatly reduces sediment and nutrient transport to downstream river reaches, and dam operations cause large changes in the timing, duration, and magnitude of river flows. These and other changes have contributed to the ecological collapse of the post-development Kootenai River ecosystem and its native biological communities. In response to large scale loss of nutrients, experimental nutrient addition was initiated in the North Arm of Kootenay Lake in 1992, in the South Arm of Kootenay Lake in 2004, and in the Kootenai River at the Idaho-Montana border during 2005. This report characterizes baseline chlorophyll concentration and accrual (primary productivity) rates and diatom and algal community composition and ecological metrics in the Kootenai River for four years, one (2004) before, and three (2005 through 2007) after nutrient addition. The study area encompassed a 325 km river reach from the upper Kootenay River at Wardner, B.C. (river kilometer (rkm) 445) downstream through Montana and Idaho to Kootenay Lake in B.C. (rkm 120). Sampling reaches included an unimpounded reach furthest upstream and four reaches downstream from Libby Dam affected by impoundment: two in the canyon reach (one with and one without nutrient addition), a braided reach, and a meandering reach. The study design included 14 sampling sites: an upstream, unimpounded reference site (KR-14), four control (non-fertilized) canyon sites downstream from Libby Dam, but upstream from nutrient addition (KR-10 through KR-13), two treatment sites referred to collectively as the nutrient addition zone (KR-9 and KR-9.1, located at and 5 km downstream from the nutrient addition site), two braided reach sites (KR-6 and KR-7), and four meander reach sites (KR-1 through KR-4). A series of qualitative evaluations and quantitative analyses were used to assess baseline conditions and effects of experimental nutrient addition treatments on chlorophyll, primary productivity, and taxonomic composition and metric arrays for the diatom and green algae communities. Insufficient density in the samples precluded analyses of bluegreen algae taxa and metrics for pre- and post-nutrient addition periods. Chlorophyll a concentration (mg/m{sup 2}), chlorophyll accrual rate (mg/m{sup 2}/30d), total chlorophyll concentration (chlorophyll a and b) (mg/m{sup 2}), and total chlorophyll accrual rate (mg/m{sup 2}/30d) were calculated. Algal taxa were identified and grouped by taxonomic order as Cyanophyta (blue-greens), Chlorophyta (greens), Bacillariophyta (diatoms), Chrysophyta (goldens), and dominant species from each sample site were identified. Algal densities (number/ml) in periphyton samples were calculated for each sample site and sampling date. Principal Component Analysis (PCA) was performed to reduce the dimension of diatom and algae data and to determine which taxonomic groups and metrics were contributing significantly to the observed variation. PCA analyses were tabulated to indicate eigenvalues, proportion, and cumulative percent variation, as well as eigenvectors (loadings) for each of the components. Biplot graphic displays of PCA axes were also generated to characterize the pattern and structure of the underlying variation. Taxonomic data and a series of biological and ecological metrics were used with PCA for diatoms and algae. Algal metrics included a suite of abundance, diversity, richness, dominance, and other measures, whereas additional trophic status and chemical limnology metrics, Van Dam indices and morphological groupings were employed in diatom PCAs. Analysis of Variance (ANOVA) was carried out using chlorophyll metrics and taxa and metric arrays for the diatom and green algae community data for comparing site differences from 2004 through 2007. Clear, statistically significant, biological responses from chlorophyll metrics, and taxa and metrics of the diatom and algal communities were revealed following experimental nutrient addition in the Kootenai River. Chlorophyll metric responses were more often significant and generally greater in magnitude than diatom and green algae taxa and metric responses.« less

[Evaluation study on integration effect of taohong siwu tang in treating primary dysmenorrhea].

PubMed

Liu, Li; Duan, Jin-Ao; Hua, Yong-Qing; Liu, Pei; Shang, Er-Xin; Tang, Yu-Ping; Su, Shu-Lan

2012-11-01

To evaluate the effect of Taohong Siwu Tang and its fractions on hotplate-induced pain in mice, acetic acid-induced writhing response, dysmenorrheal model and isolated uterine contraction in vitro in mice, and discuss material basis of effect sites. The samples of fractions were prepared by macroporous adsorptive resins (TH-1-TH-15). In the whole animal experiment, the hotplate-induced pain mice model was established to observe the effect of the samples on pain threshold in mice; the acetic acid-induced writhing response mice model was built to observe the effect of the samples on the writhing response in mice; the mice dysmenorrheal model was established to observe the effect of the samples on the writhing response, and calcium ion (Ca2+) and nitric oxide (NO) levels in uterine tissue of mice. In the isolated uterus contraction experiment, the oxytocin-induced isolated uterus contraction mice model was established to observe the effect of the samples on the isolated uterus contraction index. HPLC-DAD method was adopted for the content determination of effect sites. According to the evaluation of the integration geological effect, beside TH-2 and TH-4, other three active fractions (TH-9, TH-10 and TH-11) extracted from Taohong Siwu Tang are the main effect sites. Their chemical components were analyzed and identified as monoterpene glycosides, phthalides, organic acids, etc. The effect sites of Taohong Siwu Tang on dysmenorrhea are TH-9, TH-10 and TH-11, which are 30% - 50% active fractions obtained from water-soluble small-molecular fractions by gradient elution using ethanol through macroporous absorption resin. Compared with TH-10 and TH-11, TH-9 shows stronger effect, which may be related to the type and content of chemical components it contains.

Barrier screens: a method to sample blood-fed and host-seeking exophilic mosquitoes

PubMed Central

2013-01-01

Background Determining the proportion of blood meals on humans by outdoor-feeding and resting mosquitoes is challenging. This is largely due to the difficulty of finding an adequate and unbiased sample of resting, engorged mosquitoes to enable the identification of host blood meal sources. This is particularly difficult in the south-west Pacific countries of Indonesia, the Solomon Islands and Papua New Guinea where thick vegetation constitutes the primary resting sites for the exophilic mosquitoes that are the primary malaria and filariasis vectors. Methods Barrier screens of shade-cloth netting attached to bamboo poles were constructed between villages and likely areas where mosquitoes might seek blood meals or rest. Flying mosquitoes, obstructed by the barrier screens, would temporarily stop and could then be captured by aspiration at hourly intervals throughout the night. Results In the three countries where this method was evaluated, blood-fed females of Anopheles farauti, Anopheles bancroftii, Anopheles longirostris, Anopheles sundaicus, Anopheles vagus, Anopheles kochi, Anopheles annularis, Anopheles tessellatus, Culex vishnui, Culex quinquefasciatus and Mansonia spp were collected while resting on the barrier screens. In addition, female Anopheles punctulatus and Armigeres spp as well as male An. farauti, Cx. vishnui, Cx. quinquefasciatus and Aedes species were similarly captured. Conclusions Building barrier screens as temporary resting sites in areas where mosquitoes were likely to fly was an extremely time-effective method for collecting an unbiased representative sample of engorged mosquitoes for determining the human blood index. PMID:23379959

Identification of Crystalline Minerals in Volcanic Alteration Products and Applications to the Surface of Mars

NASA Technical Reports Server (NTRS)

Bishop, J. L.; Madsen, M. B.; Murad, E.; Wagner, P. A.

2000-01-01

Visible, infrared and Mossbauer spectra have been measured for fine-grained alteration products of volcanic tephra and ash. Comparison of the spectral and chemical properties for different size separates and related samples provides information about the crystalline materials in these samples and how they may have formed. Hydrothermal processes can increase the alteration rates of the primary minerals and glass and provide S, Fe and/or water for formation of sulfates and hydrated minerals. Identification of crystalline alteration minerals on Mars may indicate hydrothermal alteration and sites of interesting geologic processes.

DOE Office of Scientific and Technical Information (OSTI.GOV)

Brook, I.M.

Five Thalassia communities with high blade density (greater than 3,000 blades/m/sup 2/) were sampled by suction dredge in April 1973. Four sites were in south Biscayne Bay, and one was at Murray Key in the Everglades National Park on the southwest coast of Florida. Macrofaunal abundance ranged from 292 to 10,728 individuals/m/sup 2/. It is postulated that a high standing crop of seagrass may not be the primary determining factor in faunal abundance.

DOE Office of Scientific and Technical Information (OSTI.GOV)

Kzonski, J.; Lacombe, P.J.; Hochreiter, J.J.

Five former or active industrial or waste disposal sites in Logan Township were identified by the Federal government and by the State of New Jersey as potential threats to the quality of groundwater there. The sites are: (1) Air Products and Chemicals, Inc. waste disposal site; (2) Bridgeport Rental and Oil Services, Inc.; (3) Chemical Leaman Tank Lines, Inc.; (4) Monsanto Company; and (5) Rollins Environmental Services, Inc. Quality of groundwater was determined by chemical analysis of samples from wells at four of the five sites and elsewhere in the township. Groundwater in the lower aquifer of the Potomac-Raritan-magothy aquifermore » system in Logan Township and surrounding areas is dominated by sodium and chloride ions and is slightly saline. Calcium, sodium, and bicarbonate are the predominant ions in the upper and middle aquifers; the concentration of dissolved solids is low. Concentrations of iron and manganese in the groundwater range from 6 to 73,000 microgm/L, and from 33 to 1,100 microgm/L. Concentrations of organic carbon range from 0.60 to 4.2 mg/L. Areas of high apparent conductivity were detected east of the waste oil lagoon at the Bridgeport Rental and Oil Services, Inc. site. Inorganic groundwater contamination at the site is characterized by concentrations of cadmium and lead that exceed Federal and State primary drinking water regulations. Groundwater at the Chemical Leaman site also is characterized by elevated concentrations of organic nitrogen, and concentrations of As, Cr, Pb, and Hg that exceed Federal primary drinking water regulations. Concentrations of dissolved solids ranged from 339 to 3,530 mg/L at the Monsanto Site and typically are much higher than background levels, but the cause is unclear. 86 refs., 14 figs., 9 tabs.« less

DOE Office of Scientific and Technical Information (OSTI.GOV)

Miller, D. H.; Reigel, M. M.

A full-scale formed core sampler was designed and functionally tested for use in the Saltstone Disposal Facility (SDF). Savannah River National Laboratory (SRNL) was requested to compare properties of the formed core samples and core drilled samples taken from adjacent areas in the full-scale sampler. While several physical properties were evaluated, the primary property of interest was hydraulic conductivity. Differences in hydraulic conductivity between the samples from the formed core sampler and those representing the bulk material were noted with respect to the initial handling and storage of the samples. Due to testing conditions, the site port samples were exposedmore » to uncontrolled temperature and humidity conditions prior to testing whereas the formed core samples were kept in sealed containers with minimal exposure to an uncontrolled environment prior to testing. Based on the results of the testing, no significant differences in porosity or density were found between the formed core samples and those representing the bulk material in the test stand.« less

Evaluation of lipid-containing semipermeable membrane devices for monitoring organochlorine contaminants in the Upper Mississippi river

USGS Publications Warehouse

Ellis, Geoffrey S.; Rostad, Colleen E.; Huckins, James N.; Schmitt, Christopher J.; MacCarthy, Patrick

1995-01-01

Organochlorine contaminants sequestered in lipid-containing semipermeable membrane devices (SPMDs) were compared to those found in tangential-flow ultrafilter permeates as part of a pilot study at 10 sites in the Upper Mississippi River system. Caged and feral fish from three primary sites were also analyzed for comparison. Concentrated organochlorine (OC) compounds were readily extracted from the SPMDs by dialysis into hexane, and samples were analyzed by gas chromatography-negative chemical ionization-mass spectrometry. Fish and water samples were processed by conventional methods. Reasonable agreement was found between analyte SPMD-derived water concentrations and measured values of ultrafilter permeates; however, concentrations of the same analytes in caged fish did not appear to be proportional to water concentrations derived from SPMDs and ultrafilter permeates. The greatest number of OC compounds was detected in SPMDs; fewer were detected in caged fish and feral fish.

Constituent loads and flow-weighted average concentrations for major subbasins of the upper Red River of the North Basin, 1997-99

USGS Publications Warehouse

Sether, Bradley A.; Berkas, Wayne R.; Vecchia, Aldo V.

2004-01-01

Data were collected at 11 water-quality sampling sites in the upper Red River of the North (Red River) Basin from May 1997 through September 1999 to describe the water-quality characteristics of the upper Red River and to estimate constituent loads and flow-weighted average concentrations for major tributaries of the Red River upstream from the bridge crossing the Red River at Perley, Minn. Samples collected from the sites were analyzed for 5-day biochemical oxygen demand, bacteria, dissolved solids, nutrients, and suspended sediment.Concentration data indicated the median concentrations for most constituents and sampling sites during the study period were less than existing North Dakota and Minnesota standards or guidelines. However, more than 25 percent of the samples for the Red River at Perley, Minn., site had fecal coliform concentrations that were greater than 200 colonies per 100 milliliters, indicating an abundance of pathogens in the upper Red River Basin. Although total nitrite plus nitrate concentrations generally increased in a downstream direction, the median concentrations for all sites were less than the North Dakota suggested guideline of 1.0 milligram per liter. Total and dissolved phosphorus concentrations also generally increased in a downstream direction, but, for those constituents, the median concentrations for most sampling sites exceeded the North Dakota suggested guideline of 0.1 milligram per liter.For dissolved solids, nutrients, and suspended sediments, a relation between constituent concentration and streamflow was determined using the data collected during the study period. The relation was determined by a multiple regression model in which concentration was the dependent variable and streamflow was the primary explanatory variable. The regression model was used to compute unbiased estimates of annual loads for each constituent and for each of eight primary water-quality sampling sites and to compute the degree of uncertainty associated with each estimated annual load. The estimated annual loads for the eight primary sites then were used to estimate annual loads for five intervening reaches in the study area.  Results were used as a screening tool to identify which subbasins contributed a disproportionate amount of pollutants to the Red River. To compare the relative water quality of the different subbasins, an estimated flow-weighted average (FWA) concentration was computed from the estimated average annual load and the average annual streamflow for each subbasin.The 5-day biochemical oxygen demands in the upper Red River Basin were fairly small, and medians ranged from 1 to 3 milligrams per liter. The largest estimated FWA concentration for dissolved solids (about 630 milligrams per liter) was for the Bois de Sioux River near Doran, Minn., site. The Otter Tail River above Breckenridge, Minn., site had the smallest estimated FWA concentration (about 240 milligrams per liter). The estimated FWA concentrations for dissolved solids for the main-stem sites ranged from about 300 to 500 milligrams per liter and generally increased in a downstream direction.The estimated FWA concentrations for total nitrite plus nitrate for the main-stem sites increased from about 0.2 milligram per liter for the Red River below Wahpeton, N. Dak., site to about 0.9 milligram per liter for the Red River at Perley, Minn., site. Much of the increase probably resulted from flows from the tributary sites and intervening reaches, excluding the Otter Tail River above Breckenridge, Minn., site. However, uncertainty in the estimated concentrations prevented any reliable conclusions regarding which sites or reaches contributed most to the increase.The estimated FWA concentrations for total ammonia for the main-stem sites increased from about 0.05 milligram per liter for the Red River above Fargo, N. Dak., site to about 0.15 milligram per liter for the Red River near Harwood, N. Dak., site. The increase resulted from a decrease in flows in the Red River above Fargo, N. Dak., to the Red River near Harwood, N. Dak., intervening reach and the large load for that reach.The estimated FWA concentrations for total organic nitrogen for the main-stem sites were relatively constant and ranged from about 0.5 to 0.7 milligram per liter. The relatively constant concentrations were in sharp contrast to the total nitrite plus nitrate concentrations, which increased about fivefold between the Red River below Wahpeton, N. Dak., site and the Red River at Perley, Minn., site.The Red River near Harwood, N. Dak., to the Red River at Perley, Minn., intervening reach had the largest estimated FWA concentration for total nitrogen (about 2.9 milligrams per liter), but the estimate was highly uncertain. The Otter Tail River above Breckenridge, Minn., site had the smallest concentration (about 0.6 milligram per liter). The estimated FWA concentrations for total nitrogen for the main-stem sites increased from about 0.9 milligram per liter for the Red River at Hickson, N. Dak., site to about 1.6 milligrams per liter for the Red River at Perley, Minn., site.The Sheyenne River at Harwood, N. Dak., site had the largest estimated FWA concentration for total phosphorus (about 0.5 milligram per liter). The Otter Tail River above Breckenridge, Minn., site had the smallest concentration (about 0.1 milligram per liter). The estimated FWA concentrations for total phosphorus for the main-stem sites increased from about 0.15 milligram per liter for the Red River below Wahpeton, N. Dak., site to about 0.35 milligram per liter for the Red River at Perley, Minn., site.The estimated FWA concentrations for suspended sediment for the main-stem sites increased from about 50 milligrams per liter for the Red River below Wahpeton, N. Dak., site to about 300 milligrams per liter for the Red River at Perley, Minn., site. Much of the increase occurred as a result of the large yield of suspended sediment from the Red River below Wahpeton, N. Dak., to the Red River at Hickson, N. Dak., intervening reach.

The Autism Simplex Collection: an international, expertly phenotyped autism sample for genetic and phenotypic analyses.

PubMed

Buxbaum, Joseph D; Bolshakova, Nadia; Brownfeld, Jessica M; Anney, Richard Jl; Bender, Patrick; Bernier, Raphael; Cook, Edwin H; Coon, Hilary; Cuccaro, Michael; Freitag, Christine M; Hallmayer, Joachim; Geschwind, Daniel; Klauck, Sabine M; Nurnberger, John I; Oliveira, Guiomar; Pinto, Dalila; Poustka, Fritz; Scherer, Stephen W; Shih, Andy; Sutcliffe, James S; Szatmari, Peter; Vicente, Astrid M; Vieland, Veronica; Gallagher, Louise

2014-01-01

There is an urgent need for expanding and enhancing autism spectrum disorder (ASD) samples, in order to better understand causes of ASD. In a unique public-private partnership, 13 sites with extensive experience in both the assessment and diagnosis of ASD embarked on an ambitious, 2-year program to collect samples for genetic and phenotypic research and begin analyses on these samples. The program was called The Autism Simplex Collection (TASC). TASC sample collection began in 2008 and was completed in 2010, and included nine sites from North America and four sites from Western Europe, as well as a centralized Data Coordinating Center. Over 1,700 trios are part of this collection, with DNA from transformed cells now available through the National Institute of Mental Health (NIMH). Autism Diagnostic Interview-Revised (ADI-R) and Autism Diagnostic Observation Schedule-Generic (ADOS-G) measures are available for all probands, as are standardized IQ measures, Vineland Adaptive Behavioral Scales (VABS), the Social Responsiveness Scale (SRS), Peabody Picture Vocabulary Test (PPVT), and physical measures (height, weight, and head circumference). At almost every site, additional phenotypic measures were collected, including the Broad Autism Phenotype Questionnaire (BAPQ) and Repetitive Behavior Scale-Revised (RBS-R), as well as the non-word repetition scale, Communication Checklist (Children's or Adult), and Aberrant Behavior Checklist (ABC). Moreover, for nearly 1,000 trios, the Autism Genome Project Consortium (AGP) has carried out Illumina 1 M SNP genotyping and called copy number variation (CNV) in the samples, with data being made available through the National Institutes of Health (NIH). Whole exome sequencing (WES) has been carried out in over 500 probands, together with ancestry matched controls, and this data is also available through the NIH. Additional WES is being carried out by the Autism Sequencing Consortium (ASC), where the focus is on sequencing complete trios. ASC sequencing for the first 1,000 samples (all from whole-blood DNA) is complete and data will be released in 2014. Data is being made available through NIH databases (database of Genotypes and Phenotypes (dbGaP) and National Database for Autism Research (NDAR)) with DNA released in Dist 11.0. Primary funding for the collection, genotyping, sequencing and distribution of TASC samples was provided by Autism Speaks and the NIH, including the National Institute of Mental Health (NIMH) and the National Human Genetics Research Institute (NHGRI). TASC represents an important sample set that leverages expert sites. Similar approaches, leveraging expert sites and ongoing studies, represent an important path towards further enhancing available ASD samples.

New Roles for Medical Assistants in Innovative Primary Care Practices.

PubMed

Chapman, Susan A; Blash, Lisel K

2017-02-01

To identify and describe new roles for medical assistants (MAs) in innovative care models that improve care while providing training and career advancement opportunities for MAs. Primary data collected at 15 case study sites; 173 key informant interviews and de-identified secondary data on staffing, wages, patient satisfaction, and health outcomes. Researchers used snowball sampling and screening calls to identify 15 organizations using MAs in new roles. Conducted site visits from 2010 to 2012 and updated information in 2014. Thematic analysis explored key topics: factors driving MA role innovation, role description, training required, and wage gains. Categorized outcome data in patient and staff satisfaction, quality of care, and efficiency. New MA roles included health coach, medical scribe, dual role translator, health navigator, panel manager, cross-trained flexible role, and supervisor. Implementation of new roles required extensive training. MA incentives and enhanced compensation varied by role type. New MA roles are part of a larger attempt to reform workflow and relieve primary care providers. Despite some evidence of success, spread has been limited. Key challenges to adoption included leadership and provider resistance to change, cost of additional MA training, and lack of reimbursement for nonbillable services. © Health Research and Educational Trust.

Operational Processing of Ground Validation Data for the Tropical Rainfall Measuring Mission

NASA Technical Reports Server (NTRS)

Kulie, Mark S.; Robinson, Mike; Marks, David A.; Ferrier, Brad S.; Rosenfeld, Danny; Wolff, David B.

1999-01-01

The Tropical Rainfall Measuring Mission (TRMM) satellite was successfully launched in November 1997. A primary goal of TRMM is to sample tropical rainfall using the first active spaceborne precipitation radar. To validate TRMM satellite observations, a comprehensive Ground Validation (GV) Program has been implemented for this mission. A key component of GV is the analysis and quality control of meteorological ground-based radar data from four primary sites: Melbourne, FL; Houston, TX; Darwin, Australia; and Kwajalein Atoll, RMI. As part of the TRMM GV effort, the Joint Center for Earth Systems Technology (JCET) at the University of Maryland, Baltimore County, has been tasked with developing and implementing an operational system to quality control (QC), archive, and provide data for subsequent rainfall product generation from the four primary GV sites. This paper provides an overview of the JCET operational environment. A description of the QC algorithm and performance, in addition to the data flow procedure between JCET and the TRNM science and Data Information System (TSDIS), are presented. The impact of quality-controlled data on higher level rainfall and reflectivity products will also be addressed, Finally, a brief description of JCET's expanded role into producing reference rainfall products will be discussed.

Divergent and convergent evolution in metastases suggest treatment strategies based on specific metastatic sites

PubMed Central

Cunningham, Jessica J.; Brown, Joel S.; Vincent, Thomas L.

2015-01-01

Background and objective: Systemic therapy for metastatic cancer is currently determined exclusively by the site of tumor origin. Yet, there is increasing evidence that the molecular characteristics of metastases significantly differ from the primary tumor. We define the evolutionary dynamics of metastases that govern this molecular divergence and examine their potential contribution to variations in response to targeted therapies. Methodology: Darwinian interactions of transformed cells with the tissue microenvironments at primary and metastatic sites are analyzed using evolutionary game theory. Computational models simulate responses to targeted therapies in different organs within the same patient. Results: Tumor cells, although maximally fit at their primary site, typically have lower fitness on the adaptive landscapes offered by the metastatic sites due to organ-specific variations in mesenchymal properties and signaling pathways. Clinically evident metastases usually exhibit time-dependent divergence from the phenotypic mean of the primary population as the tumor cells evolve and adapt to their new circumstances. In contrast, tumors from different primary sites evolving on identical metastatic adaptive landscapes exhibit phenotypic convergence. Thus, metastases in the liver from different primary tumors and even in different hosts will evolve toward similar adaptive phenotypes. The combination of evolutionary divergence from the primary cancer phenotype and convergence towards similar adaptive strategies in the same tissue cause significant variations in treatment responses particularly for highly targeted therapies. Conclusion and implications: The results suggest that optimal therapies for disseminated cancer must take into account the site(s) of metastatic growth as well as the primary organ. PMID:25794501

Water quality of the Mississippian carbonate aquifer in parts of middle Tennessee and northern Alabama, 1999

USGS Publications Warehouse

Kingsbury, James A.; Shelton, John M.

2002-01-01

Water-quality data for nitrate, fecal-indicator bacteria, pesticides, and volatile organic compounds collected in parts of Middle Tennessee and northern Alabama indicate that the Mississippian carbonate aquifer in these areas is susceptible to contamination from point and nonpoint sources. Thirty randomly located wells (predominantly domestic), two springs, and two additional public-supply wells were sampled in the summer of 1999 as part of the U.S. Geological Survey?s National Water-Quality Assessment (NAWQA) Program. These wells and springs were sampled to characterize the occurrence and distribution of the above constituents in this karst aquifer of Mississippian age and to determine the principal environmental factors related to their occurrence.Nitrate and fecal indicator bacteria were frequently detected at the sampled sites. Nitrate exceeded the drinking-water maximum contaminant level of 10 milligrams per liter in two samples; the median concentration for all samples was about 1.5 milligrams per liter. Correlation of nitrate concentrations to the amount of cropland near a site and to pesticide detections indicates that fertilizer application is the predominant source of nitrogen to the aquifer. Fecal-indicator bacteria were present in samples from about 40 percent of the sites. The presence of fecal-indicator bacteria is weakly correlated to the depth to ground water but is not correlated to a specific land use near the sites.Pesticides and pesticide breakdown products (metabolites) were detected at 74 percent of the sites sampled. Concentrations generally were less than 1 microgram per liter and no pesticide detections exceeded drinking-water maximum contaminant levels. The maximum total pesticide concentration measured was about 4 micrograms per liter. Intensity of pesticide use, proximity of sites to areas of pesticide application, and soil hydrologic group were the primary factors affecting the occurrence of pesticides.Volatile organic compounds were detected at generally low concentrations at about 81 percent of the sites sampled. Concentrations of trichloroethylene, tetrachloroethylene, and 1,2-dichloropropane at three sites equalled or exceeded drinking-water maximum contaminant levels. The maximum concentration measured was 7.5 micrograms per liter of trichloroethylene. The presence of volatile organic compounds in the Mississippian carbonate aquifer was not related to hydrogeology, soil properties, or land use near the sites; although higher total volatile organic compound concentrations and greater numbers of compounds in samples generally were associated with a higher percentage of urban land use near a site. Chloroform was the most frequently detected compound, and correlation of low-level detections to the amount of wetlands near sites having these detections may indicate biogenic formation of chloroform.The relation between land use and water quality was stronger for constituents that are contributed to the environment systematically (fertilizer and pesticide applications), than those contributed inadvertently (leaking septic tanks or chemical spills or leaks). Land use and soils characterized in circular buffer areas near sites sampled in this karst aquifer explained some of the variation in nitrate concentration and presence of pesticides. Use of land use and soil data with greater detail than the large scale data used in this analysis and buffer areas based on well capacities and ground-water withdrawals might strengthen this type of analysis.

Air monitoring of volatile organic compounds at relevant receptors during hydraulic fracturing operations in Washington County, Pennsylvania.

PubMed

Maskrey, Joshua R; Insley, Allison L; Hynds, Erin S; Panko, Julie M

2016-07-01

A 3-month air monitoring study was conducted in Washington County, Pennsylvania, at the request of local community members regarding the potential risks resulting from air emissions of pollutants related to hydraulic fracturing operations. Continuous air monitoring for total volatile organic compounds was performed at two sampling sites, including a school and a residence, located within 900 m of a hydraulic fracturing well pad that had been drilled prior to the study. Intermittent 24-hour air samples for 62 individual volatile organic compounds were also collected. The ambient air at both sites was monitored during four distinct periods of unconventional natural gas extraction activity: an inactive period prior to fracturing operations, during fracturing operations, during flaring operations, and during another inactive period after operations. The results of the continuous monitoring during fracturing and flaring sampling periods for total volatile organic compounds were similar to the results obtained during inactive periods. Total volatile organic compound 24-hour average concentrations ranged between 0.16 and 80 ppb during all sampling periods. Several individual volatile compounds were detected in the 24-hour samples, but they were consistent with background atmospheric levels measured previously at nearby sampling sites and in other areas in Washington County. Furthermore, a basic yet conservative screening level evaluation demonstrated that the detected volatile organic compounds were well below health-protective levels. The primary finding of this study was that the operation of a hydraulic fracturing well pad in Washington County did not substantially affect local air concentrations of total and individual volatile organic compounds.

Effects of common seagrass restoration methods on ecosystem structure in subtropical seagrass meadows.

PubMed

Bourque, Amanda S; Fourqurean, James W

2014-06-01

Seagrass meadows near population centers are subject to frequent disturbance from vessel groundings. Common seagrass restoration methods include filling excavations and applying fertilizer to encourage seagrass recruitment. We sampled macrophytes, soil structure, and macroinvertebrate infauna at unrestored and recently restored vessel grounding disturbances to evaluate the effects of these restoration methods on seagrass ecosystem structure. After a year of observations comparing filled sites to both undisturbed reference and unrestored disturbed sites, filled sites had low organic matter content, nutrient pools, and primary producer abundance. Adding a nutrient source increased porewater nutrient pools at disturbed sites and in undisturbed meadows, but not at filled sites. Environmental predictors of infaunal community structure across treatments included soil texture and nutrient pools. At the one year time scale, the restoration methods studied did not result in convergence between restored and unrestored sites. Particularly in filled sites, soil conditions may combine to constrain rapid development of the seagrass community and associated infauna. Our study is important for understanding early recovery trajectories following restoration using these methods. Published by Elsevier Ltd.

Odor analysis of decomposing buried human remains

DOE Office of Scientific and Technical Information (OSTI.GOV)

Vass, Arpad Alexander; Smith, Rob R; Thompson, Cyril V

2008-01-01

This study, conducted at the University of Tennessee's Anthropological Research Facility (ARF), lists and ranks the primary chemical constituents which define the odor of decomposition of human remains as detected at the soil surface of shallow burial sites. Triple sorbent traps were used to collect air samples in the field and revealed eight major classes of chemicals which now contain 478 specific volatile compounds associated with burial decomposition. Samples were analyzed using gas chromatography-mass spectrometry (GC-MS) and were collected below and above the body, and at the soil surface of 1.5-3.5 ft. (0.46-1.07 m) deep burial sites of four individualsmore » over a 4-year time span. New data were incorporated into the previously established Decompositional Odor Analysis (DOA) Database providing identification, chemical trends, and semi-quantitation of chemicals for evaluation. This research identifies the 'odor signatures' unique to the decomposition of buried human remains with projected ramifications on human remains detection canine training procedures and in the development of field portable analytical instruments which can be used to locate human remains in shallow burial sites.« less

Fine particulate matter (PM2.5) in a compost facility: heavy metal contaminations and health risk assessment, Tehran, Iran.

PubMed

Kermani, Majid; Farzadkia, Mahdi; Kalantari, Roshanak Rezaei; Bahmani, Zohreh

2018-06-01

The aim of this study was to evaluate the concentration of PM 2.5 particles, potential sources, and determination of health risk assessment of heavy metals in various parts of composting facilities of Tehran's Kahrizak. A total of 60 PM 2.5 particle samples were collected every 3 days from January to March 2016. To analyze the heavy metals, inductively coupled plasma atomic emission spectroscopy (ICP-AES) was applied. SEM-EDX analysis indicated that metals of Al, Si, Mg, Na, Au, S, Ca, K, and Co were dominant in the structure of particles. The concentration of PM 2.5 was found to be the highest in the final processing site (c), followed by primary processing site (a) and the aerated site (b). The mean concentrations of Al and Fe in all sampling sites of a, b, and c were 7.46 ± 2.73, 1.48 ± 0.59, 24.30 ± 8.23 μg/m 3 and 4.97 ± 2.83, 1.33 ± 0.48, 16.48 ± 7.36, respectively. The enrichment factor order of the trace elements was as follows: Cd > As > Pb > Zn > Cu > V > Cr > Ni > Mn > Fe > Al, with the highest EF value exceeding 10,000 for Cd at the a site. For all sampling sites in composting facilities, the cancer risk was more than > 1 × 10 -4 as posed by the total of five carcinogenic metals (Pb, Cr, As, Ni, and Cd), indicating that risk factors were not negligible.

Evaluation of free to grow: head start partnerships to promote substance-free communities.

PubMed

Wolfson, Mark; Champion, Heather; Rogers, Todd; Neiberg, Rebecca H; Barker, Dianne C; Talton, Jennifer W; Ip, Edward H; D'Agostino, Ralph B; Parries, Maria T; Easterling, Doug

2011-04-01

Free to Grow: Head Start Partnerships to Promote Substance-free Communities (FTG) was a national initiative in which local Head Start (HS) agencies, in partnership with other community organizations, implemented a mix of evidence-based family-strengthening and community-strengthening strategies. The evaluation of FTG used a quasi-experimental design to compare 14 communities that participated in the FTG intervention with 14 matched comparison communities. Telephone surveys were conducted with two cohorts of the primary caregivers of children in HS at baseline and then annually for 2 years. The survey was also administered to repeated cross-sectional samples of primary caregivers of young children who were not enrolled in HS. No consistent evidence was found in changes in family functioning or neighborhood conditions when the 14 FTG sites were compared to 14 matched sites. However, caregivers of young children who were not in HS in three high-implementing FTG sites showed evidence of improvements in neighborhood organization, neighborhood norms against substance abuse, and child disciplinary practices. Results provide highly limited support for the concept that family and neighborhood conditions that are likely to affect child development and well-being can be changed through organized efforts implemented by local HS programs.

Agreement in reporting between trial publications and current clinical trial registry in high impact journals: A methodological review.

PubMed

Kosa, Sarah Daisy; Mbuagbaw, Lawrence; Borg Debono, Victoria; Bhandari, Mohit; Dennis, Brittany B; Ene, Gabrielle; Leenus, Alvin; Shi, Daniel; Thabane, Michael; Valvasori, Sara; Vanniyasingam, Thuva; Ye, Chenglin; Yranon, Elgene; Zhang, Shiyuan; Thabane, Lehana

2018-02-01

The primary objective of this systematic survey was to examine the percentage of studies in which there was agreement in the reporting of the primary outcome between the currently updated version of the clinical trial registry and the published paper. We also investigated the factors associated with agreement in reporting of the primary outcome. We searched PubMed for all randomized control trials (RCT)s published in 2012-2015 in the top five general medicine journals (based on the 2014 impact factor). Two hundred abstracts (50 from each year) were randomly selected for data extraction. Agreement in reporting of 11 key study conduct items (e.g., sample size) and study characteristics (e.g., funding, number of sites) were extracted by two independent reviewers. Descriptive analyses were conducted to determine the proportion of studies on which there was agreement in reporting of key study conduct items. Generalized estimating equations were used to explore factors associated with agreement in reporting of the primary outcome. Of the 200 included studies, 87% had agreement in reporting of the primary outcome. After adjusting for other covariates, having greater than 50 sites was associated with an increased likelihood of agreement in reporting of the primary outcome (odds ratio=7.1, 95% confidence interval=1.39, 36.27, p=0.018). We identified substantive disagreement in reporting between publications and current clinical trial registry, which were associated with several study characteristics. Further measures are needed to improve reporting given the potential threats to the quality and integrity of scientific research. Copyright © 2017 Elsevier Inc. All rights reserved.

Tobacco use disorder treatment in primary care

PubMed Central

Kunyk, Diane; Els, Charl; Papadakis, Sophia; Selby, Peter

2014-01-01

Abstract Objective To test a team-based, site-specific, multicomponent clinical system pathway designed for enhancing tobacco use disorder treatment by primary care physicians. Design A prospective cohort study. Setting Sixty primary care sites in Alberta. Participants A convenience sample of 198 primary care physicians from the population of 2857. Main outcome measures Data collection occurred between September 2010 and February 2012 on 3 distinct measures. Twenty-four weeks after the intervention, audits of the primary care practices assessed the adoption and sustainability of 10 tobacco clinical system pathway components, a survey measured changes in physicians’ treatment intentions, and patient chart reviews examined changes in physicians’ consistency with the treatment algorithm. Results The completion rate by physicians was 89.4%. An intention-to-treat approach was undertaken for statistical analysis. Intervention uptake was demonstrated by positive changes at 4 weeks in how many of the 10 clinical system measures were performed (mean [SD] = 4.22 [1.60] vs 8.57 [1.46]; P < .001). Physicians demonstrated significant favourable changes in 9 of the 12 measures of treatment intention (P < .05). The 18 282 chart reviews documented significant increases in 6 of the 8 algorithm components. Conclusion Our findings suggest that the provision of a tobacco clinical system pathway that incorporates other members of the health care team and builds on existing office infrastructures will support positive and sustainable changes in tobacco use disorder treatment by physicians in primary care. This study reaffirms the substantive and important role of supporting how treatment is delivered in physicians’ practices. PMID:25022640

Phytoremediation of trichloroethene (TCE) using cottonwood trees

USGS Publications Warehouse

Jones, S.A.; Lee, R.W.; Kuniansky, E.L.; Leeson, Andrea; Alleman, Bruce C.

1999-01-01

Phytoremediation uses the natural ability of plants to degrade contaminants in ground water. A field demonstration designed to remediate aerobic shallow ground water that contains trichloroethene began in April 1996 with the planting of cottonwood trees over an approximately 0.2-hectare area at the Naval Air Station, Fort Worth, Tx. Ground water was sampled in July 1997, November 1997, February 1998, and June 1998. Analyses from samples indicate that tree roots have the potential to create anaerobic conditions in the ground water that will facilitate degradation of trichloroethene by microbially mediated reductive dichlorination. Dissolved oxygen concentrations, which varied across the site, were smallest near a mature cottonwood tree (about-20 years old) 60 meters southwest of the cottonwood plantings. Reduction of dissolved oxygen is the primary microbially mediated reaction occurring in the ground water beneath the planted trees, whereas near the mature cottonwood tree, data indicate that methanogenesis is the most probable reaction occurring. Reductive dichlorination either is not occurring or is not a primary process away from the mature tree. On the basis of isotopic analyses of carbon-13 at locations away from the mature tree, trichloroethene concentration is controlled by volatilization.Phytoremediation uses the natural ability of plants to degrade contaminants in ground water. A field demonstration designed to remediate aerobic shallow ground water that contains trichloroethene began in April 1996 with the planting of cottonwood trees over an approximately 0.2-hectare area at the Naval Air Station, Fort Worth, Tx. Ground water was sampled in July 1997, November 1997, February 1998, and June 1998. Analyses from samples indicate that tree roots have the potential to create anaerobic conditions in the ground water that will facilitate degradation of trichloroethene by microbially mediated reductive dichlorination. Dissolved oxygen concentrations, which varied across the site, were smallest near a mature cottonwood tree (about-20 years old) 60 meters southwest of the cottonwood plantings. Reduction of dissolved oxygen is the primary microbially mediated reaction occurring in the ground water beneath the planted trees, whereas near the mature cottonwood tree, data indicate that methanogenesis is the most probable reaction occurring. Reductive dichlorination either is not occurring or is not a primary process away from the mature tree. On the basis of isotopic analyses of carbon-13 at locations away from the mature tree, trichloroethene concentration is controlled by volatilization.

PM2.5 source apportionment in the southeastern U.S.: Spatial and seasonal variations during 2001-2005

NASA Astrophysics Data System (ADS)

Chen, Yingjun; Zheng, Mei; Edgerton, Eric S.; Ke, Lin; Sheng, Guoying; Fu, Jiamo

2012-04-01

The seasonal and spatial variations of source contributions of 112 composite fine particulate matter (PM2.5) samples collected in the Southeastern Aerosol Research and Characterization Study (SEARCH) monitoring network during 2001-2005 using molecular marker-based chemical mass balance (CMB-MM) model were determined. The lowest PM2.5 concentration occurs in January with higher values in warm months (maxima in July at four inland sites versus October at the coastal sites). Sulfate shows a similar pattern and plays a primary role in PM2.5 seasonality. Carbonaceous material (organic matter plus EC) exhibits less seasonality, but more spatial variations between the inland and coastal sites. Compared with the data at coastal sites, source attributions of diesel exhaust, gasoline exhaust, other organic matter (other OM), secondary sulfate, nitrate, and ammonium in PM2.5 mass at inland sites are higher. The difference in source attributions of wood combustion, meat cooking, vegetative detritus, and road dust among the eight sites is not significant. Contributions of eight primary sources to fine OC are wood burning (17 ± 19%), diesel exhaust (9 ± 4%), gasoline exhaust (5 ± 7%), meat cooking (5 ± 5%), road dust (2 ± 3%), vegetative detritus (2 ± 2%), cigarette smoke (2 ± 2% at four urban sites), and coke production (2 ± 1% only at BHM). Primary and secondary sources explain 82-100% of measured PM2.5 mass at the eight sites, including secondary ionic species (SO42-, NH4+, and NO3-; 41.4 ± 5.7%), identified OM (24.9 ± 11.3%), "other OM" (unexplained OM, 23.3 ± 10.3%), and "other mass" (11.4 ± 9.6%). Vehicle exhaust from both diesel and gasoline contributes the lowest fraction to PM2.5 mass in July and higher fractions at BHM and JST than other sites. Wood combustion, in contrast, contributes significantly to a larger fraction in winter than in summer. Road dust shows relatively high levels in July and April across the eight sites, while minor sources such as meat cooking and other sources (e.g., vegetative detritus, coke production, and cigarette smoke) show relatively small seasonal and spatial variations in the SEARCH monitoring network.

Ecosystem carbon partitioning: aboveground net primary productivity correlates with the root carbon input in different land use types of Southern Alps

NASA Astrophysics Data System (ADS)

Rodeghiero, Mirco; Martinez, Cristina; Gianelle, Damiano; Camin, Federica; Zanotelli, Damiano; Magnani, Federico

2013-04-01

Terrestrial plant carbon partitioning to above- and below-ground compartments can be better understood by integrating studies on biomass allocation and estimates of root carbon input based on the use of stable isotopes. These experiments are essential to model ecosystem's metabolism and predict the effects of global change on carbon cycling. Using in-growth soil cores in conjunction with the 13C natural abundance method we quantified net plant-derived root carbon input into the soil, which has been pointed out as the main unaccounted NPP (net primary productivity) component. Four land use types located in the Trentino Region (northern Italy) and representing a range of aboveground net primary productivity (ANPP) values (155-868 gC m-2 y-1) were investigated: conifer forest, apple orchard, vineyard and grassland. Cores, filled with soil of a known C4 isotopic signature were inserted at 18 sampling points for each site and left in place for twelve months. After extraction, cores were analysed for %C and d13C, which were used to calculate the proportion of new plant-derived root C input by applying a mass balance equation. The GPP (gross primary productivity) of each ecosystem was determined by the eddy covariance technique whereas ANPP was quantified with a repeated inventory approach. We found a strong and significant relationship (R2 = 0.93; p=0.03) between ANPP and the fraction of GPP transferred to the soil as root C input across the investigated sites. This percentage varied between 10 and 25% of GPP with the grassland having the lowest value and the apple orchard the highest. Mechanistic ecosystem carbon balance models could benefit from this general relationship since ANPP is routinely and easily measured at many sites. This result also suggests that by quantifying site-specific ANPP, root carbon input can be reliably estimated, as opposed to using arbitrary root/shoot ratios which may under- or over-estimate C partitioning.

Cervical lymph node metastases from remote primary tumor sites

PubMed Central

López, Fernando; Rodrigo, Juan P.; Silver, Carl E.; Haigentz, Missak; Bishop, Justin A.; Strojan, Primož; Hartl, Dana M.; Bradley, Patrick J.; Mendenhall, William M.; Suárez, Carlos; Takes, Robert P.; Hamoir, Marc; Robbins, K. Thomas; Shaha, Ashok R.; Werner, Jochen A.; Rinaldo, Alessandra; Ferlito, Alfio

2016-01-01

Although most malignant lymphadenopathy in the neck represent lymphomas or metastases from head and neck primary tumors, occasionally, metastatic disease from remote, usually infraclavicular, sites presents as cervical lymphadenopathy with or without an obvious primary tumor. In general, these tumors metastasize to supraclavicular lymph nodes, but occasionally may present at an isolated higher neck level. A search for the primary tumor includes information gained by histology, immunohistochemistry, and evaluation of molecular markers that may be unique to the primary tumor site. In addition, 18F-fluoro-2-deoxyglocose positron emission tomography combined with CT (FDG-PET/CT) has greatly improved the ability to detect the location of an unknown primary tumor, particularly when in a remote location. Although cervical metastatic disease from a remote primary site is often incurable, there are situations in which meaningful survival can be achieved with appropriate local treatment. Management is quite complex and requires a truly multidisciplinary approach. PMID:26713674

Overview of SnowEx Year 1 Activities

NASA Technical Reports Server (NTRS)

Kim, Edward; Gatebe, Charles; Hall, Dorothy; Newlin, Jerry; Misakonis, Amy; Elder, Kelly; Marshall, Hans Peter; Heimstra, Chris; Brucker, Ludovic; De Marco, Eugenia;

Radiation Therapy to the Primary and Postinduction Chemotherapy MIBG-Avid Sites in High-Risk Neuroblastoma

DOE Office of Scientific and Technical Information (OSTI.GOV)

Mazloom, Ali; Louis, Chrystal U.; Nuchtern, Jed

2014-11-15

Purpose: Although it is generally accepted that consolidation therapy for neuroblastoma includes irradiation of the primary site and any remaining metaiodobenzylguanidine (MIBG)-avid metastatic sites, limited information has been published regarding the efficacy of this approach. Methods and Materials: Thirty patients with high-risk neuroblastoma were treated at 1 radiation therapy (RT) department after receiving 5 cycles of induction chemotherapy and resection. All patients had at least a partial response after induction therapy, based upon international neuroblastoma response criteria. The primary sites were treated with 24 to 30 Gy whereas the MIBG-avid metastatic sites were treated with 24 Gy. RT was followed by high-dosemore » chemotherapy with autologous stem cell rescue and 6 months of cis-retinoic acid. Results: The 5-year progression-free survival (PFS) and overall survival (OS) rates were 48% and 59%, respectively. The 5-year locoregional control at the primary site was 84%. There were no differences in locoregional control according to degree of primary surgical resection. The 5-year local control rate for metastatic sites was 74%. The 5-year PFS rates for patients with 0, 1, 2, and >3 postinduction MIBG sites were 66%, 57%, 20%, and 0% (P<.0001), respectively, whereas 5-year OS rates were 80%, 57%, 50%, and 0%, respectively (P<.0001). Conclusions: RT to the primary site and postinduction MIBG-positive metastatic sites was associated with 84% and 74% local control, respectively. The number of MIBG-avid sites present after induction chemotherapy and surgery was predictive of progression-free and overall survival.« less

Factors associated with success of image-guided tumour biopsies: Results from a prospective molecular triage study (MOSCATO-01).

PubMed

Tacher, Vania; Le Deley, Marie-Cécile; Hollebecque, Antoine; Deschamps, Frederic; Vielh, Philippe; Hakime, Antoine; Ileana, Ecaterina; Abedi-Ardekani, Behnoush; Charpy, Cécile; Massard, Christophe; Rosellini, Silvia; Gajda, Dorota; Celebic, Aljosa; Ferté, Charles; Ngo-Camus, Maud; Gouissem, Siham; Koubi-Pick, Valérie; Andre, Fabrice; Vassal, Gilles; Deandreis, Désirée; Lacroix, Ludovic; Soria, Jean-Charles; De Baère, Thierry

2016-05-01

MOSCATO-01 is a molecular triage trial based on on-purpose tumour biopsies to perform molecular portraits. We aimed at identifying factors associated with high tumour cellularity. Tumour cellularity (percentage of tumour cells in samples defined at pathology) was evaluated according to patient characteristics, target lesion characteristics, operators' experience and biopsy approach. Among 460 patients enrolled between November, 2011 and March, 2014, 334 patients (73%) had an image-guided needle biopsy of the primary tumour (N = 38) or a metastatic lesion (N = 296). Biopsies were performed on liver (N = 127), lung (N = 72), lymph nodes (N = 71), bone (N = 11), or another tumour site (N = 53). Eighteen patients (5%) experienced a complication: pneumothorax in 10 patients treated medically, and haemorrhage in 8, requiring embolisation in 3 cases. Median tumour cellularity was 50% (interquartile range, 30-70%). The molecular analysis was successful in 291/334 cases (87%). On-going chemotherapy, tumour origin (primary versus metastatic), lesion size, tumour growth rate, presence of necrosis on imaging, standardised uptake value, and needle size were not statistically associated with cellularity. Compared to liver or lung biopsies, cellularity was significantly lower in bone and higher in other sites (P < 0.0001). Cellularity significantly increased with the number of collected samples (P < 0.0001) and was higher in contrast-enhanced ultrasound-guided biopsies (P < 0.02). In paired samples, cellularity in central samples was lower than in peripheral samples in 85, equal in 68 and higher in 89 of the cases. Image-guided biopsy is feasible and safe in cancer patients for molecular screening. Imaging modality, multiple sampling of the lesion, and the organ chosen for biopsy were associated with higher tumour cellularity. Copyright © 2016 Elsevier Ltd. All rights reserved.

Mineralogical and isotopic characterization of graphite deposits from the Anatectic Complex of Toledo, central Spain

NASA Astrophysics Data System (ADS)

Martín-Méndez, Iván; Boixereu, Ester; Villaseca, Carlos

2016-06-01

Graphite is found dispersed in high-grade metapelitic rocks of the Anatectic Complex of Toledo (ACT) and was mined during the mid twentieth century in places where it has been concentrated (Guadamur and la Puebla de Montalbán mines). Some samples from these mines show variable but significant alteration intensity, reaching very low-T hydrothermal (supergene) conditions for some samples from the waste heap of the Guadamur site (<100 °C and 1 kbar). Micro-Raman and XRD data indicate that all the studied ACT graphite is of high crystallinity irrespective of the degree of hydrothermal alteration. Chemical differences were obtained for graphite δ13C composition. ACT granulitic graphite shows δ13CPDB values in the range of -20.5 to -27.8 ‰, indicating a biogenic origin. Interaction of graphite with hydrothermal fluids does not modify isotopic compositions even in the most transformed samples from mining sites. The different isotopic signatures of graphite from the mining sites reflect its contrasted primary carbon source. The high crystallinity of studied graphite makes this area of central Spain suitable for graphitic exploration and its potential exploitation, due to the low carbon content required for its viability and its strategic applications in advanced technologies, such as graphene synthesis.

Comprehensive mapping of the human papillomavirus (HPV) DNA integration sites in cervical carcinomas by HPV capture technology.

PubMed

Liu, Ying; Lu, Zheming; Xu, Ruiping; Ke, Yang

2016-02-02

Integration of human papillomavirus (HPV) DNA into the host genome can be a driver mutation in cervical carcinoma. Identification of HPV integration at base resolution has been a longstanding technical challenge, largely due to sensitivity masking by HPV in episomes or concatenated forms. The aim was to enhance the understanding of the precise localization of HPV integration sites using an innovative strategy. Using HPV capture technology combined with next generation sequencing, HPV prevalence and the exact integration sites of the HPV DNA in 47 primary cervical cancer samples and 2 cell lines were investigated. A total of 117 unique HPV integration sites were identified, including HPV16 (n = 101), HPV18 (n = 7), and HPV58 (n = 9). We observed that the HPV16 integration sites were broadly located across the whole viral genome. In addition, either single or multiple integration events could occur frequently for HPV16, ranging from 1 to 19 per sample. The viral integration sites were distributed across almost all the chromosomes, except chromosome 22. All the cervical cancer cases harboring more than four HPV16 integration sites showed clinical diagnosis of stage III carcinoma. A significant enrichment of overlapping nucleotides shared between the human genome and HPV genome at integration breakpoints was observed, indicating that it may play an important role in the HPV integration process. The results expand on knowledge from previous findings on HPV16 and HPV18 integration sites and allow a better understanding of the molecular basis of the pathogenesis of cervical carcinoma.

Distribution of Diatoms in Relation to Land Use and pH in Blackwater Coastal Plain Streams

NASA Astrophysics Data System (ADS)

Zampella, Robert A.; Laidig, Kim J.; Lowe, Rex L.

2007-03-01

We compared the composition of diatom assemblages collected from New Jersey Pinelands blackwater streams draining four different land uses, including forest land, abandoned-cranberry bogs, active-cranberry bogs, and developed and upland-agricultural land. Over a 2-year period (2002-2003), we collected 132 diatom taxa at 14 stream sites. Between-year variability in the composition of stream samples was high. Most diatom species were rarely encountered and were found in low abundance. Specific conductance and pH were higher at developed/agricultural sites compared with all other site types. Neither species richness nor genus richness was significantly different between stream types. However, clear community patterns were evident, and a significant difference in species composition existed between the developed/agricultural sites and both cranberry and forest sites. The primary community gradient, represented by the first axis of a DCA ordination, was associated with variations in pH and specific conductance. Although community patterns revealed by ordinating the data collected in 2002 differed from those obtained using the 2003 data, both ordinations contrasted the developed/agricultural sites and the other sites. Acidobiontic and acidophilous diatoms characterized the dominant species at forest, abandoned-bog, and cranberry sites, whereas indifferent species dominated the developed/agricultural samples. Although our study demonstrated a relationship between the composition of diatom assemblages and watershed conditions, several factors, including taxonomic problems, the large number of diatom species, incomplete pH classifications, and year-to-year variability may limit the utility of diatom species as indicators of watershed conditions in the New Jersey Pinelands.

ICESat Calibration and Validation Experiments at White Sands, New Mexico, 2003-2010

NASA Astrophysics Data System (ADS)

Schutz, B. E.; Urban, T. J.

2010-12-01

The Center for Space Research (CSR) at the University of Texas at Austin has operated a primary site for ICESat cal/val activities near the White Sands Space Harbor (WSSH) area of the White Sands Missile Range, NM. This site was chosen for both geophysical (flat, reflective) and logistical (domestic, secure site) reasons. Before launch in 2003, a several-hundred-meter-scale grid comprised of hundreds of numbered PVC base-plates was installed at the chosen site to permanently mark the locations of various pieces of experiment hardware. In summary, CSR has supported four primary types of experiments at the cal/val site: (1) a permanent grid of laser retro-reflectors (corner cube reflectors) placed on top of poles of various known heights and collocated with 25 of the base plates, in use for the duration of the mission, (2) a set of computer-monitored position and timing detectors utilized for cal/val during the first three years of the project, (3) several camera-equipped aircraft flyovers of the area designed to capture images of the green and infrared footprints on the surface at the precise time of ICESat overflights, (4) elevation comparisons between the ICESat data and a high-resolution (1 m) DEM derived via small-footprint airborne lidar collections in 2003 and 2007. The experiments at WSSH were targeted by the ICESat spacecraft approximately four times per campaign, making this cal/val site one of the most sampled locations in the world. This presentation will chronicle the extensive collection of ICESat and experimental data collected at WSSH from 2003 to 2010.

Effects of low-level radioactive-waste disposal on water chemistry in the unsaturated zone at a site near Sheffield, Illinois, 1982-84

USGS Publications Warehouse

Peters, C.A.; Striegl, Robert G.; Mills, P.C.; Healy, R.W.

1992-01-01

A 1982-84 field study defined the chemistry of water collected from the unsaturated zone at a low-level radioactive-waste disposal site near Sheffield, Bureau County, Ill. Chemical data were evaluated to determine the principal, naturally occurring geochemical reactions in the unsaturated zone and to evaluate waste-induced effects on pore-water chemistry. Samples of precipitation, unsaturated-zone pore water, and saturated-zone water were analyzed for specific conductance, pH, alkalinity, major cations and anions, dissolved organic carbon, gross alpha and beta radiation, and tritium. Little change in concentration of most major constituents in the unsaturated-zone water was observed with respect to depth or distance from disposal trenches. Tritium and dissolved organic carbon concentrations were, however, dependent on proximity to trenches. The primary reactions, both on-site and off-site, were carbonate and clay dissolution, cation exchange, and the oxidation of pyrite. The major difference between on-site and off-site inorganic water chemistry resulted from the removal of the Roxana Silt and the Radnor Till Member of the Glasford Formation from on-site. Off-site, the Roxana Silt contributed substantial quantities of sodium to solution from montmorillonite dissolution and associated cation-exchange reactions. The Radnor Till Member provided exchange surfaces for magnesium. Precipitation at the site had an ionic composition of calcium zinc sulfate and an average pH of 4.6. Within 0.3 meter of the land surface, infiltrating rainwater or snowmelt changed to an ionic composition of calcium sulfate off-site and calcium bicarbonate on-site and had an average pH of 7.9; below that depth, pH averaged 7.5 and the ionic composition generally was calcium magnesium bicarbonate. Alkalinity and specific conductance differed primarily according to composition of geologic materials. Tritium concentrations ranged from 0.2 (detection limit) to 1,380 nanocuries per liter. The methods of constructing, installing, and sampling with lysimeters were evaluated to ensure data reliability. These evaluations indicate that, with respect to most constituents, the samples retrieved from the lysimeters accurately represented pore-water chemistry.

Effects of low-level radioactive-waste disposal on water chemistry in the unsaturated zone at a site near Sheffield, Illinois, 1982-84

USGS Publications Warehouse

Peters, C.A.; Striegl, Robert G.; Mills, P.C.; Healy, R.W.

1992-01-01

A 1982-84 field study defined the chemistry of water collected from the unsaturated zone at a low-level radioactive-waste disposal site near Sheffield, Bureau County, Illinois. Chemical data were evaluated to determine the principal naturally occurring geochemical reactions in the unsaturated zone and to evaluate waste-induced effects on pore-water chemistry. Samples of precipitation, unsaturated-zone pore water, and saturated-zone water were analyzed for specific conductance, pH, alkalinity, major cations and anions, dissolved organic carbon, gross alpha and beta radiation, and tritium. Little change in concentration of most major constituents in the unsaturated-zone water was observed with respect to depth or distance from disposal trenches. Tritium and dissolved organic carbon concentrations were, however, dependent on proximity to trenches. The primary reactions, both on- site and off-site, were carbonate and clay dissolution, cation exchange, and the oxidation of pyrite. The major difference between on-site and off-site inorganic water chemistry resulted from the removal of the Roxana Silt and the Radnor Till Member of the Glasford Formation from on-site. Off-site, the Roxana Silt contributed substantial quantities of sodium to solution from montmorillonite dissolution and associated cation-exchange reactions. The Radnor Till Member provided exchange surfaces for magnesium. Precipitation at the site had an ionic composition of calcium zinc sulfate and an average pH of 4.6. Within 0.3 meter of the land surface, infiltrating rain water or snowmelt changed to an ionic canposition of calcium sulfate off-site and calcium bicarbonate on-site and had an average pH of 7.9; below that depth, pH averaged 7.5 and the ionic composition generally was calcium magnesium bicarbonate. Alkalinity and specific conductance differed primarily according to composition of geologic materials. Tritium concentrations ranged from 0.2 (detection limit) to 1,380 nanocuries per liter. The methods of constructing, installing, and sampling with lysimeters were evaluated to ensure data reliability. These evaluations indicate that, with respect to most constituents, the samples retrieved from the lysimeters accurately represented pore-water chemistry.

Water-Quality and Biological Assessment of the Iowa River and Tributaries Within and Contiguous to the Meskwaki Settlement of the Sac and Fox Tribe of the Mississippi in Iowa, 2006-07

USGS Publications Warehouse

Littin, Gregory R.; McVay, Jason C.

2009-01-01

In cooperation with the Sac and Fox Tribe of the Mississippi in Iowa (Meskwaki Nation), the U.S. Geological Survey conducted a 2-year baseline assessment of the chemical and biological quality of streams within the Meskwaki Settlement in central Iowa. The Meskwaki Nation is a federally recognized tribe that wishes to establish water-quality standards to safeguard the integrity of surface waters and aquatic biota within the settlement for the health and welfare of the tribal community. The settlement is drained by the Iowa River and four tributaries (Onion, Cattail, Raven, and Bennett Creeks). Water-quality samples were collected at three sites on the Iowa River, two sites on Onion Creek, and one site each on Cattail, Raven, and Bennett Creeks from April 2006 through July 2007. Biological and habitat assessments were conducted at all three sites on the Iowa River and the downstream-most site on Onion Creek from June through August 2007. Analysis of physical properties, major ions, nutrients, trace compounds, bacteria, and total suspended solids in water, and trace metals and organic compounds in streambed sediment provided information about the effects of anthropogenic (human related) activities on the water quality of settlement streams. Analysis of biological samples collected during the summer of 2007, including fish community, benthic macroinvertebrates, and periphyton samples, as well as physical habitat characteristics, provided information on the effects of water quality on the condition of the aquatic environment. The majority of surface water sampled within the settlement was predominately a calcium bicarbonate type. Nitrates (nitrate plus nitrite as nitrogen) exceeded the U.S. Environmental Protection Agency's (USEPA) primary drinking-water Maximum Contaminant Level of 10 ug/L in 19 of 36 samples from sites on the Iowa River and Raven and Bennett Creeks but not in samples from Onion and Cattail Creeks. None of the samples analyzed for pesticides, trace metals, wastewater, or fuel contaminants were found to exceed drinking-water regulations for the USEPA or State of Iowa targeted constituents. Bacteria densities for Escherichia coli (E. coli) ranged from less than 10 to more than 600,000 colony-forming units per 100 milliliters of water and were largest following intense rainfall runoff. The largest densities were recorded in samples collected from the tributaries, most notably from Cattail Creek downstream from the tribal headquarters area and Onion Creek downstream from the sewage lagoons. Arsenic and nickel concentrations in bottom sediment from Onion Creek exceeded the USEPA threshold effects level in a composite sample collected during the habitat assessment in July 2007. Suspended-sediment concentration was estimated in terms of total suspended solids. Overall, Onion and Bennett Creeks were the least turbid, whereas the ephemeral Cattail Creek had the most turbid samples. Aquatic-community data were collected at four sites on the Meskwaki Settlement during the summer of 2007 to provide a baseline biological assessment of stream conditions. This assessment was based on sampling of the fish, benthic macroinvertebrate, and periphyton communities along with physical habitat characteristics. Individual biological metrics were derived from the data collected during the community surveys. These metrics were used to calculate Indexes of Biological Integrity (IBIs). The calculated values from the IBIs provided a numerical value that was used to provide an assessment of the biological condition at each biological sampling site. The fish community samples indicated that all of the sampling sites would be considered in fair condition, with one exception being a collection site on the Iowa River at Highway 49 near Tama, Iowa, which was classified in poor condition. The benthic macroinvertebrate IBI indicated a classification of good for three of the four biological sampling sites, with the Iowa River near Montour, Iowa,

Water-quality and bottom-material characteristics of Cross Lake, Caddo Parish, Louisiana, 1997-99

USGS Publications Warehouse

McGee, Benton D.

2004-01-01

Cross Lake is a shallow, monomictic lake that was formed in 1926 by the impoundment of Cross Bayou. The lake is the primary drinking-water supply for the City of Shreveport, Louisiana. In recent years, the lakeshore has become increasinginly urbanized. In addition, the land use of the watershed contributing runoff to Cross Lake has changed. Changes in land use and urbanization could affect the water chemistry and biology of the Lake. Water-quality data were collected at 10 sites on Cross Lake from February 1997 to February 1999. Water-column and bottom-material samples were collected. The water-column samples were collected at least four times per year. These samples included physical and chemical-related properties such as water temperature, dissolved oxygen, pH, and specific conductance; selected major inorganic ions; nutrients; minor elements; organic chemical constituents; and bacteria. Suspended-sediment samples were collected seven times during the sampling period. The bottom-material samples, which were collected once during the sampling period, were analyzed for selected minor elements and inorganic carbon. Aside from the nutrient-enriched condition of Cross Lake, the overall water-quality of Cross Lake is good. No primary Federal or State water-quality criteria were exceeded by any of the water-quality constituents analyzed for this report. Concentrations of major inorganic constituents, except iron and manganese, were low. Water from the lake is a sodium-bicarbonate type and is soft. Minor elements and organic compounds were present in low concentrations, many below detection limits. Nitrogen and phosphorus were the nutrients occurring in the highest concentrations. Nutrients were evenly distributed across the lake with no particular water-quality site indicating consistently higher or lower nutrient concentrations. No water samples analyzed for nitrate exceeded the U.S. Environmental Protection Agency's Maximum Contaminant Level of 10 milligrams per liter. Based on nitrogen to phosphorus ratios calculated for Cross Lake, median values for all water-quality sites were within the nitrogen-limited range (less than or equal to 5). Historical Trophic State Indexes for Cross Lake classified the lake as eutrophic. Recent (1998-99) Trophic State Indexes classify Cross Lake as mesotrophic-eutrophic, which might indicate a recution in eutrophication. Sedimentation traps indicate that Cross Lake is filling at an average rate of 0.41 inches per year. Concentrations of fecal-coliform and streptococci bacteria generally were low. Fecal coliform was detected in higher concentrations than fecal streptococci. High bacterial concentrations were measured shortly after rainfall-runoff events, possibly washing bacteria from surrounding areas into the lake.

Using high resolution measurements of gas tracers to determine metabolic rates in streams

NASA Astrophysics Data System (ADS)

Knapp, J. L.; Osenbrück, K.; Brennwald, M. S.; Cirpka, O. A.

2017-12-01

Hyporheic exchange and other hyporheic processes are strongly linked to stream respiration, as the majority of a streams' microorganisms are located within the streambed. Directly estimating these respiration rates on the reach scale is usually not possible, but they can indirectly be inferred from measurements of dissolved oxygen. This, however, requires determining stream reaeration rates with high precision. Conducting gas-tracer tests has been found to be the most reliable method to estimate stream reaeration, but the majority of field-based sampling techniques for tracer gases are either costly in time and materials, or imprecise. By contrast, on-site gas analysis using gas-equilibrium membrane-inlet mass spectrometers (miniRUEDI, Gasometrix GmbH [1]) avoid the errors caused by sampling, storage, and analysis in the standard sampling techniques. Furthermore, the high analytical frequency of the on-site mass-spectrometer provides concentration data exhibiting a low uncertainty. We present results from gas-tracer tests with a continuous injection of propane and noble gases as tracers in a number of small streams. The concentrations of the tracer gases are recorded continuously over time at the first measurement station to account for fluctuations of the input signal, whereas shorter sample sets are collected at all further measurement stations. Reaeration rate constants are calculated from gas measurements for individual stream sections. These rates are then used to estimate metabolic rates of respiration and primary production based on time series of oxygen measurements. To demonstrate the advancement of the method provided by the on-site analysis, results from measurements performed by on-site mass spectroscopy are compared to those from traditional headspace sampling with gas chromatography analysis. Additionally, differences in magnitude and uncertainty of the obtained reaeration rates of oxygen and calculated metabolic rates from both methods highlight the usefulness of the high-frequency on-site analysis. [1] Brennwald, M. S., Schmidt, M., Oser, J., and Kipfer, R. (2016). A portable and autonomous mass spectrometric system for on-site environmental gas analysis. Environ. Sci. Technol., 50(24):13455-13463. Doi: 10.1021/acs.est.6b03669

Strongyloides stercoralis-infected dogs as a model for human disseminated strongyloidiasis

DOE Office of Scientific and Technical Information (OSTI.GOV)

Aikens, L.M.

1989-01-01

The route of migration of Strongyloides stercoralis third-stage infective larvae was explored in primary and autogenous infections in the dog. Larvae was radiolabeled by one of two means: (1) by culture of the free-living L3 stage in a nutrient medium, deficient in methionine, supplemented with ({sup 75}Se)Selenomethionine, and (2) by feeding of ({sup 75}Se)Selenomethionine-labeled bacteria to microbiverous L1 and L2 stages. Third-stage labeled larvae were then injected into 10-day-old pups either subcutaneously, to study primary migration, or into the distal ileum, to study autogenous migration. At intervals after infection pups were killed and whole body compressed organ autoradiography done onmore » individual tissues to determine organ-specific larval transit sites. Autoradiographic recoveries were analyzed in the context of a series of mathematical models designed to test migratory route hypotheses. Postulated routes of migration for primary infections included (1) the Null Hypothesis or Scramble Route in which larvae migrate to the intestines by any available route, (2) the Classical Pulmonary Route in which larvae migrate sequentially from skin, to blood, to lungs, to the trachea, esophagus and intestines, and (3) the Head Migration Route in which larvae move from caudal to cranial sites within the skin and muscle before entering the intestines. Postulated routes for autoinfective migration reiterated 1 and 2 above. Least squares comparisons, of calculated models to observed autoradiographic distributions, led us to conclude that there was no reason to reject the simplest assumption that larvae move by any available route to the definitive site in both forms of migration. Sampling through tracheostomy sites in 14 pups for larval migrants confirmed this conclusion.« less

Evaluating best practices for Campylobacter and Salmonella reduction in poultry processing plants.

PubMed

Wideman, N; Bailey, M; Bilgili, S F; Thippareddi, H; Wang, L; Bratcher, C; Sanchez-Plata, M; Singh, M

2016-02-01

Poultry processing plants in the United States were surveyed on their current Campylobacter and Salmonella control practices. Following surveys, data were collected to develop a baseline for prevalence rates of Salmonella and Campylobacter; then changes in practices were implemented and evaluated for improvements in pathogen control. Surveys were sent to the plant Quality Assurance managers to determine production levels, antimicrobial interventions, and current pathogen testing practices. Initial sampling was performed at 6 plants with similar production volumes, at sites that included carcass samples before any pre-evisceration intervention, after exiting the inside-outside bird washer (IOBW), after exiting the pre-chiller, after exiting the primary chiller, and after exiting any post-chill intervention, as well as a water sample from each scalder, pre-chiller, primary chiller, and post-chill dip tank or finishing chiller. Enumerations and enrichments were performed for Campylobacter and Salmonella. Following the baseline sampling, changes in practices were suggested for each plant and a second sampling was conducted to determine their effectiveness. Results demonstrated that peracetic acid (PAA) was the most effective (P < 0.05) antimicrobial currently in use. The use of a post-chill antimicrobial immersion tank and/or use of a cetylpyridinium chloride (CPC) spray cabinet also displayed a further reduction in microbial levels (P < 0.05) when the primary chiller was not sufficient (P > 0.05). Microbial buildup in the immersion tanks demonstrates the need for effective cleaning, sanitation practices, and chiller maintenance to reduce contamination of poultry with Campylobacter and Salmonella. © 2015 Poultry Science Association Inc.

Learning primary care in medical school: does specialty or geographic location of the teaching site make a difference?

PubMed

Irigoyen, M M; Kurth, R J; Schmidt, H J

1999-05-01

The Liaison Committee on Medical Education mandates a core curriculum in primary care but does not specify its content or structure. In this study, we explored the question of whether primary care specialty or geographic location affects student learning and satisfaction. From 1994 to 1996, 294 third-year medical students at one medical school in New York state were randomly assigned to multiple teaching sites for a required 5-week primary care clerkship. Independent predictor variables were primary care specialty of the preceptor (family medicine, medicine, pediatrics, or joint medicine and pediatrics) and geographic location of the site (urban, suburban, rural). Outcome measures included four areas of student satisfaction, one of patient volume, and two of student performance. Primary care specialty had no detectable association with the outcome measures, except for a lower rating of patient diversity in pediatric experiences (P <0.001). Geographic location of the site had a significant association with all measures of student satisfaction and patient volume (all P values <0.001). Students at rural sites rated the experience more highly and saw on average 15 more patients per rotation. Ratings of student satisfaction remained high after adjusting for patient volume. Primary care specialty and geographic location did not influence student performance in the clerkship or scores on standardized patient examination. Rural geographic location of teaching site, but not primary care specialty, was associated with higher student satisfaction. However, higher student satisfaction ratings did not correspond to better student performance. Provided that all sites meet the screening criteria for inclusion in a teaching program, these findings support the continued development of high-quality, heterogeneous, interdisciplinary, primary care experiences.

Fossil vs. non-fossil sources of fine carbonaceous aerosols in four Chinese cities during the extreme winter haze episode in 2013

NASA Astrophysics Data System (ADS)

Zhang, Y.-L.; Huang, R.-J.; El Haddad, I.; Ho, K.-F.; Cao, J.-J.; Han, Y.; Zotter, P.; Bozzetti, C.; Daellenbach, K. R.; Canonaco, F.; Slowik, J. G.; Salazar, G.; Schwikowski, M.; Schnelle-Kreis, J.; Abbaszade, G.; Zimmermann, R.; Baltensperger, U.; Prévôt, A. S. H.; Szidat, S.

2014-10-01

During winter 2013, extremely high concentrations (i.e. 4-20 times higher than the World Health Organization guideline) of PM2.5 (particulate matter with an aerodynamic diameter <2.5 μm) were reported in several large cities in China. In this work, source apportionment of fine carbonaceous aerosols during this haze episode was conducted at four major cities in China including Xian, Beijing, Shanghai and Guangzhou. An effective statistical analysis of a combined dataset from elemental carbon (EC) and organic carbon (OC), radiocarbon (14C) and biomass-burning marker measurements using Latin-hypercube sampling allowed a quantitative source apportionment of carbonaceous aerosols. We found that fossil emissions from coal combustion and vehicle exhaust dominated EC with a mean contribution of 75 ± 8% at all sites. The remaining 25 ± 8% was exclusively attributed to biomass combustion, consistent with the measurements of biomass-burning markers such as anhydrosugars (levoglucosan and mannosan) and water-soluble potassium (K+). With a combination of the levoglucosan-to-mannosan and levoglucosan-to-K+ ratios, the major source of biomass burning in winter in China is suggested to be combustion of crop residues. The contribution of fossil sources to OC was highest in Beijing (58 ± 5%) and decreased from Shanghai (49 ± 2%) to Xian (38 ± 3%) and Guangzhou (35 ± 7%). Generally, a larger fraction of fossil OC was rather from secondary origins than primary sources for all sites. Non-fossil sources accounted on average for 55 ± 10% and 48 ± 9% of OC and TC, respectively, which suggests that non-fossil emissions were very important contributors of urban carbonaceous aerosols in China. The primary biomass-burning emissions accounted for 40 ± 8%, 48 ± 18%, 53 ± 4% and 65 ± 26% of non-fossil OC for Xian, Beijing, Shanghai and Guangzhou, respectively. Other non-fossil sources excluding primary biomass-burning were mainly attributed to formation of secondary organic carbon (SOC) from non-fossil precursors such as biomass-burning emissions. For each site, we also compared samples from moderately with heavily polluted days according to particulate matter mass. Despite a significant increase of absolute mass concentrations of primary emissions from both, fossil and non-fossil sources, during the heavily polluted events, their relative contribution to TC was even decreased, whereas the portion of SOC was consistently increased at all sites. This observation indicates that SOC was an important fraction in the increment of carbonaceous aerosols during the haze episode in China.

Ga-68 DOTANOC PET/CT imaging in detection of primary site in patients with metastatic neuroendocrine tumours of unknown origin and its impact on clinical decision making: experience from a tertiary care centre in India

PubMed Central

Pankaj, Promila; Verma, Ritu; Jain, Anjali; Belho, Ethel S.; Mahajan, Harsh

2016-01-01

Background Neuroendocrine tumours (NETs) are rare, heterogeneous group of tumours which usually originate from small, occult primary sites and are characterized by over-expression of somatostatin receptors (SSTRs). Positron emission tomography/computed tomography (PET/CT) using Ga-68-labeled-somatostatin-analogues have shown superiority over other modalities for imaging of NETs. The objective of the study was to retrospectively evaluate the efficacy of Ga-68 DOTANOC PET/CT imaging in detecting the primary site in patients with metastatic NETs of unknown origin and its impact on clinical decision making in such patients. Methods Between December 2011 and September 2014, a total of 263 patients underwent Ga-68 DOTANOC PET/CT study in our department for various indications. Out of them, 68 patients (45 males, 23 females; mean age, 54.9±10.7 years; range, 31–78 years) with histopathologically proven metastatic NETs and unknown primary site (CUP-NET) on conventional imaging, who underwent Ga-68 DOTANOC PET/CT scan as part of their clinical work-up were included for analyses. Histopathology (wherever available) and/or follow-up imaging were taken as reference standard. Quantitative estimation of SSTR expression in the form of maximal standardized uptake value (SUVmax) of detected primary and metastatic sites was calculated. Follow-up data of individual patients was collected through careful survey of hospital medical records and telephonic interviews. Results Maximum patients presented to our department with hepatic metastasis (50 out of 68 patients) and grade I NETs (>50%). Ga-68 DOTANOC PET/CT scan identified primary sites in 40 out of these 68 patients i.e., in approximately 59% patients. Identified primary sites were: small intestine [19], rectum [8], pancreas [7], stomach [4], lung [1] and one each in rare sites in kidney and prostate. In one patient, 2 primary sites were identified (one each in stomach and duodenum). Mean SUVmax of the detected primary sites was 25.1±18.0 (median: 16.25; range, 2.1–150). Significant positive correlation was found between SUVmax of detected primary site and SUVmax of the histopathologically proven sites of metastasis (r=0.662; P<0.0001). Based on the findings of the Ga-68 DOTANOC PET/CT scan, 3 out of 40 patients underwent definitive treatment for their primary tumour (1 gastric, 1 ileal and 1 prostatic tumour). One patient was being planned for resection of primary rectal lesion at the time of data-collection. Thirty-six out of 68 patients were started on long-acting somatostatin analogues or chemotherapy or targeted therapy. Two patients underwent multiple cycles of peptide receptor radionuclide therapy (PRRNT) using 90Y and 177Lu labeled somatostatin analogues. Conclusions Our findings indicate that Ga-68 DOTANOC PET/CT is a promising imaging modality in patients with metastatic NETs of unknown origin for detection of the primary site and in guiding their therapeutic management. PMID:27284479

Multisensor sampling of pelagic ecosystem variables in a coastal environment to estimate zooplankton grazing impact

NASA Astrophysics Data System (ADS)

Sutton, Tracey; Hopkins, Thomas; Remsen, Andrew; Burghart, Scott

2001-01-01

Sampling was conducted on the west Florida continental shelf ecosystem modeling site to estimate zooplankton grazing impact on primary production. Samples were collected with the high-resolution sampler, a towed array bearing electronic and optical sensors operating in tandem with a paired net/bottle verification system. A close biological-physical coupling was observed, with three main plankton communities: 1. a high-density inshore community dominated by larvaceans coincident with a salinity gradient; 2. a low-density offshore community dominated by small calanoid copepods coincident with the warm mixed layer; and 3. a high-density offshore community dominated by small poecilostomatoid and cyclopoid copepods and ostracods coincident with cooler, sub-pycnocline oceanic water. Both high-density communities were associated with relatively turbid water. Applying available grazing rates from the literature to our abundance data, grazing pressure mirrored the above bio-physical pattern, with the offshore sub-pycnocline community contributing ˜65% of grazing pressure despite representing only 19% of the total volume of the transect. This suggests that grazing pressure is highly localized, emphasizing the importance of high-resolution sampling to better understand plankton dynamics. A comparison of our grazing rate estimates with primary production estimates suggests that mesozooplankton do not control the fate of phytoplankton over much of the area studied (<5% grazing of daily primary production), but "hot spots" (˜25-50% grazing) do occur which may have an effect on floral composition.

Improving the sampling strategy of the Joint Danube Survey 3 (2013) by means of multivariate statistical techniques applied on selected physico-chemical and biological data.

PubMed

Hamchevici, Carmen; Udrea, Ion

2013-11-01

The concept of basin-wide Joint Danube Survey (JDS) was launched by the International Commission for the Protection of the Danube River (ICPDR) as a tool for investigative monitoring under the Water Framework Directive (WFD), with a frequency of 6 years. The first JDS was carried out in 2001 and its success in providing key information for characterisation of the Danube River Basin District as required by WFD lead to the organisation of the second JDS in 2007, which was the world's biggest river research expedition in that year. The present paper presents an approach for improving the survey strategy for the next planned survey JDS3 (2013) by means of several multivariate statistical techniques. In order to design the optimum structure in terms of parameters and sampling sites, principal component analysis (PCA), factor analysis (FA) and cluster analysis were applied on JDS2 data for 13 selected physico-chemical and one biological element measured in 78 sampling sites located on the main course of the Danube. Results from PCA/FA showed that most of the dataset variance (above 75%) was explained by five varifactors loaded with 8 out of 14 variables: physical (transparency and total suspended solids), relevant nutrients (N-nitrates and P-orthophosphates), feedback effects of primary production (pH, alkalinity and dissolved oxygen) and algal biomass. Taking into account the representation of the factor scores given by FA versus sampling sites and the major groups generated by the clustering procedure, the spatial network of the next survey could be carefully tailored, leading to a decreasing of sampling sites by more than 30%. The approach of target oriented sampling strategy based on the selected multivariate statistics can provide a strong reduction in dimensionality of the original data and corresponding costs as well, without any loss of information.

Switching benchmarks in cancer of unknown primary: from autopsy to microarray.

PubMed

Pentheroudakis, George; Golfinopoulos, Vassilios; Pavlidis, Nicholas

2007-09-01

Cancer of unknown primary (CUP) is associated with unknown biology and dismal prognosis. Information on the primary site of origin is scant and has never been analysed. We systematically reviewed all published evidence on the CUP primary site identified by two different approaches, either autopsy or microarray gene expression profiling. Published reports on identification of CUP primary site by autopsy or microarray-based multigene expression platforms were retrieved and analysed for year of publication, primary site, patient age, gender, histology, rate of primary identification, manifestations and metastatic deposits, microarray chip technology, training and validation sets, mathematical modelling, classification accuracy and number of classifying genes. From 1944 to 2000, a total of 884 CUP patients (66% males) underwent autopsy in 12 studies after presenting with metastatic or systemic symptoms and succumbing to their disease. A primary was identified in 644 (73%) of them, mostly in the lung (27%), pancreas (24%), hepatobiliary tree (8%), kidneys (8%), bowel, genital system and stomach, as a small focus of adenocarcinoma or poorly differentiated carcinoma. An unpredictable systemic dissemination was evident with high frequency of lung (46%), nodal (35%), bone (17%), brain (16%) and uncommon (18%) deposits. Between the 1944-1980 and the 1980-2000 series, female representation increased, 'undetermined neoplasm' diagnosis became rarer, pancreatic primaries were found less often while colonic ones were identified more frequently. Four studies using microarray technology profiled more than 500 CUP cases using classifier set of genes (ranging from 10 to 495) and reported strikingly dissimilar frequencies of assigned primary sites (lung 11.5%, pancreas 12.5%, bowel 12%, breast 15%, hepatobiliary tree 8%, kidneys 6%, genital system 9%, bladder 5%) in 75-90% of the cases. Evolution in medical imaging technology, diet and lifestyle habits probably account for changing epidemiology of CUP primaries in autopsies. Discrepant assignment of primary sites by microarrays may be due to the presence of 'sanctuary sites' in autopsies, molecular misclassification and the postulated presence of a pro-metastatic genetic signature. In view of the absence of patient therapeutic or prognostic benefit with primary identification, gene expression profiling should be re-orientated towards unraveling the complex pathophysiology of metastases.

A Multifaceted Sampling Approach to Better Understanding Biogeochemical and Hydrogeological Controls on Uranium Mobility at a Former Uranium Mill Tailings Site in Riverton, Wyoming

NASA Astrophysics Data System (ADS)

Dam, W. L.; Johnson, R. H.; Campbell, S.; Bone, S. E.; Noel, V.; Bargar, J.

2015-12-01

Understanding uranium mobility in subsurface environments is not trivial. Obtaining sufficient data to accurately represent soil and aquifer characteristics can require unique approaches that evolve with added site knowledge. At Riverton, the primary source of uranium mill tailings remaining from ore processing was removed but contaminant plumes have persisted longer than predicted by groundwater modeling. What are the primary mechanisms controlling plume persistence? DOE is conducting new characterization studies to assist our understanding of underlying biogeochemical and hydrogeological mechanisms affecting secondary sources. A variety of field sampling techniques are being sequentially employed including augering, trenching, pore water sampling, and installing multi-level wells. In August 2012, vadose zone soil samples from 34 locations and groundwater from 103 boreholes were collected with Geoprobe ® direct push rods. Lower than expected uranium concentrations in composited shallow soils indicated the need for more focused and deeper samples. In May 2014, soil samples containing evaporites were collected along the bank of the Little Wind River; elevated uranium concentrations in evaporite minerals correlated with plume configurations and reflect contaminated groundwater discharge at the river. In September 2014, hand anger samples collected by the river and oxbow lake also indicated the presence of organic rich zones containing elevated uranium (>50 mg/kg). Subsequent samples collected from five backhoe trenches in May 2015 revealed a highly heterogeneous vadose zone composed of clay, silt, sand and cobbles containing evaporites and organic rich zones which may interact with groundwater plumes.Plans for August 2015 include sonic drilling to obtain continuous cores from the surface down to the base of the surficial aquifer with multi-level monitoring wells constructed in each borehole to assess vertical variation in groundwater chemistry. Temporary well-points will be installed adjacent to the river to assess geochemical and flow controls in the area of plume stagnation. Analyses include critical element speciation (C, S, Fe, and U), microbes, isotopes, diffusivity and flow characteristics. These activities support a dramatically improved understanding of plume persistence.

Characteristics of an Outpatient Treatment Sample by Primary Substance of Abuse

PubMed Central

Campbell, Aimee N. C.; Nunes, Edward V.; McClure, Erin A.; Hu, Mei-Chen; Turrigiano, Eva; Goldman, Bruce; Stabile, Patricia Quinn

2013-01-01

Objective The current study examines sociodemographic and clinical characteristics, as a function of primary substance of abuse, among clients approached, screened, and assessed for eligibility in a 10-site effectiveness trial of a web-based psychosocial intervention for substance use disorders. Consistent with the design of effectiveness trials, eligibility criteria were broad and exclusion criteria minimal; thus, the recruited sample may be viewed as relatively representative of patients seeking treatment throughout the United States. Methods Chi-square tests for categorical variables and F-tests for continuous variables were used to analyze demographic, substance use, physical and mental health, and sexual risk data collected at screening and baseline; pairwise comparisons between primary substance subgroups for baseline data were conducted if the test statistic p-value was ≤ .01. Results Few participants expressed disinterest in the study at screening due to the computer-assisted intervention. A diverse sample of substance users completed baseline and were enrolled: 22.9% marijuana; 21.7% opiates; 20.9% alcohol; 20.5% cocaine; and 13.9% stimulants. Marijuana users demonstrated the greatest differences across primary substances: they were younger, less likely to be married or attend 12-step meetings, and more likely to be in treatment as a result of criminal justice involvement. All patients, even marijuana users, reported comparable rates of co-occurring mental health disorders and sexual risk, as well as substantial rates of polysubstance use disorders. Conclusion Primary substance of abuse may be a less important indicator of overall severity compared to co-occurring disorders and other factors common across treatment seekers, further demonstrating the need for integrated treatment services and care, as well as comprehensive pre-treatment assessment. PMID:24089040

Histological observations on adipocere in human remains buried for 21 years at the Tomašica grave-site in Bosnia and Herzegovina.

PubMed

Salihbegović, Adis; Clark, John; Sarajlić, Nermin; Radović, Svjetlana; Finlay, Finlay; Jogunčić, Anes; Spahić, Emina; Tuco, Vedo

2018-04-18

The Tomašica grave-site near Prijedor in the north of Bosnia is reported to be the largest primary mass grave discovered thus far relating to the 1992-95 war. A total of 275 complete bodies and 125 body parts were exhumed from it in 2013. Post mortem examinations of the victims showed that nearly all had died from gunshot injuries but an additional striking feature was the degree of preservation of many of the bodies, even 21 years on, with skin, soft tissues and internal organs still present in abundance and gross structures clearly identifiable. Histology was performed on 68 samples of soft tissue from a total 13 bodies, on both skin and internal organs, and the degree of preservation was assessed in terms of the ability to recognize microscopic structure. Further comparison was made with samples taken a month or so later (56 tissue samples from 9 bodies, all but one different from the first group), after the bodies had been covered in salt as a means of general preservation. Generally, at a microscopic level, skin and subcutaneous tissues were better preserved than internal organs, while tissues sampled at the time of autopsy were better preserved than those sampled weeks later.

Questa baseline and pre-mining ground-water quality investigation. 20. Water chemistry of the Red River and selected seeps, tributaries, and precipitation, Taos County, New Mexico, 2000-2004

USGS Publications Warehouse

Verplanck, P.L.; McCleskey, R. Blaine; Nordstrom, D. Kirk

2006-01-01

As part of a multi-year project to infer the pre-mining ground-water quality at Molycorp's Questa mine site, surface-water samples of the Red River, some of its tributaries, seeps, and snow samples were collected for analysis of inorganic solutes and of water and sulfate stable isotopes in selected samples. The primary aim of this study was to document diel, storm event, and seasonal variations in water chemistry for the Red River and similar variations in water chemistry for Straight Creek, a natural analog site similar in topography, hydrology, and geology to the mine site for inferring pre-mining water-quality conditions. Red River water samples collected between 2000 and 2004 show that the largest variations in water chemistry occur during late summer rainstorms, often monsoonal in nature. Within hours, discharge of the Red River increased from 8 to 102 cubic feet per second and pH decreased from 7.80 to 4.83. The highest concentrations of metals (iron, aluminum, zinc, manganese) and sulfate also occur during such events. Low-pH and high-solute concentrations during rainstorm runoff are derived primarily from alteration 'scar' areas of naturally high mineralization combined with steep topography that exposes continually altered rock because erosion is too rapid for vegetative growth. The year 2002 was one of the driest on record, and Red River discharge reflected the low seasonal snow pack. No snowmelt peak appeared in the hydrograph record, and a late summer storm produced the highest flow for the year. Snowmelt was closer to normal during 2003 and demonstrated the dilution effect of snowmelt on water chemistry. Two diel sampling events were conducted for the Red River, one during low flow and the other during high flow, at two locations, at the Red River gaging station and just upstream from Molycorp's mill site. No discernible diel trends were observed except for dissolved zinc and manganese at the upstream site during low flow. Straight Creek drainage water was sampled periodically from 2001 to 2004 at the down stream end of surface drainage near the point at which it disappeared into the debris fan. This water has a minimal range in pH (2.7 to 3.2) but a substantial concentration range in many solutes; for example, sulfate concentrations varied from 525 to 2,660 mg/L. Many elements covary with sulfate suggesting that dilution is the primary control of the range in solute concentrations. A transect of water samples higher in the scar area were collected in October of 2003. They had a lower range in pH (2.44 to 3.05) and higher solute concentrations than those collected periodically from lower in the catchment. Water isotopes for the upper transect samples indicated slight evaporation, and in part, may account for the higher solute concentrations. Drainage waters also were collected from Hottentot, Junebug, Hansen, Little Hansen, and Goat Hill Gulch drainages. Most constituents from other scar drainage waters showed ranges of concentration similar to those of the Straight Creek waters. An exception was water collected from Goat Hill Gulch, which has some of the highest concentrations of any surface-water sample collected but also contained waste-rock leachates.

Ecological Modeling of Aedes aegypti (L.) Pupal Production in Rural Kamphaeng Phet, Thailand

PubMed Central

Aldstadt, Jared; Koenraadt, Constantianus J. M.; Fansiri, Thanyalak; Kijchalao, Udom; Richardson, Jason; Jones, James W.; Scott, Thomas W.

2011-01-01

Background Aedes aegypti (L.) is the primary vector of dengue, the most important arboviral infection globally. Until an effective vaccine is licensed and rigorously administered, Ae. aegypti control remains the principal tool in preventing and curtailing dengue transmission. Accurate predictions of vector populations are required to assess control methods and develop effective population reduction strategies. Ae. aegypti develops primarily in artificial water holding containers. Release recapture studies indicate that most adult Ae. aegypti do not disperse over long distances. We expect, therefore, that containers in an area of high development site density are more likely to be oviposition sites and to be more frequently used as oviposition sites than containers that are relatively isolated from other development sites. After accounting for individual container characteristics, containers more frequently used as oviposition sites are likely to produce adult mosquitoes consistently and at a higher rate. To this point, most studies of Ae. aegypti populations ignore the spatial density of larval development sites. Methodology Pupal surveys were carried out from 2004 to 2007 in rural Kamphaeng Phet, Thailand. In total, 84,840 samples of water holding containers were used to estimate model parameters. Regression modeling was used to assess the effect of larval development site density, access to piped water, and seasonal variation on container productivity. A varying-coefficients model was employed to account for the large differences in productivity between container types. A two-part modeling structure, called a hurdle model, accounts for the large number of zeroes and overdispersion present in pupal population counts. Findings The number of suitable larval development sites and their density in the environment were the primary determinants of the distribution and abundance of Ae. aegypti pupae. The productivity of most container types increased significantly as habitat density increased. An ecological approach, accounting for development site density, is appropriate for predicting Ae. aegypti population levels and developing efficient vector control programs. PMID:21267055

Periodic Verification of the Scaling Factor for Radwastes in Korean NPPs - 13294

DOE Office of Scientific and Technical Information (OSTI.GOV)

Park, Yong Joon; Ahn, Hong Joo; Song, Byoung Chul

2013-07-01

According to the acceptance criteria for a low and intermediate level radioactive waste (LILW) listed in Notice No. 2012-53 of the Nuclear Safety and Security Commission (NSSC), specific concentrations of radionuclides inside a drum has to be identified and quantified. In 5 years of effort, scaling factors were derived through destructive radiochemical analysis, and the dry active waste, spent resin, concentration bottom, spent filter, and sludge drums generated during 2004 ∼ 2008 were evaluated to identify radionuclide inventories. Eventually, only dry active waste among LILWs generated from Korean NPPs were first shipped to a permanent disposal facility on December 2010.more » For the LILWs generated after 2009, the radionuclides are being radiochemically quantified because the Notice clarifies that the certifications of the scaling factors should be verified biennially. During the operation of NPP, the radionuclides designated in the Notice are formed by neutron activation of primary coolant, reactor structural materials, corrosion products, and fission products released into primary coolant through defects or failures in fuel cladding. Eventually, since the radionuclides released into primary coolant are transported into the numerous auxiliary and support systems connected to primary system, the LILWs can be contaminated, and the radionuclides can have various concentration distributions. Thus, radioactive wastes, such as spent resin and dry active waste generated at various Korean NPP sites, were sampled at each site, and the activities of the regulated radionuclides present in the sample were determined using radiochemical methods. The scaling factors were driven on the basis of the activity ratios between a or β-emitting nuclides and γ-emitting nuclides. The resulting concentrations were directly compared with the established scaling factors' data using statistical methods. In conclusions, the established scaling factors were verified with a reliability of within 2σ, and the scaling factors will be applied for newly analyzed LILWs to evaluate the radionuclide inventories. (authors)« less

Algal Nitrate Assimilation and Productivity in an Urban, Concrete-Lined Stream Dominated by Tertiary Treated Municipal Waste-Water

NASA Astrophysics Data System (ADS)

Kent, R. H.; Burton, C. A.

2001-12-01

This study examined the extent and variabiltity of nitrate loss in a 2.85 km reach of Cucamonga Creek, which is concrete-lined and dominated by treated municipal waste-water. Primary production was measured to determine if the loss could be attributed to algal assimilation. Samples for nitrite plus nitrate analysis were collected at the top and bottom of the study reach every hour throughout the 24-hour sampling period; samples for analyses of other parameters were collected less frequently. Water temperature, dissolved oxygen (DO), pH and specific conductance were monitored continuously throughout the sampling period using in-stream probes. During the two weeks prior to the study, periphyton samples were collected periodically at four stations along the reach for standing crop measurements and a growth rate time-series using Chlorophyll A and ash-free-dry mass. Water samples from the upstream station were compared to those taken an hour later (the approximate travel time) at the downstream station. Nitrate concentrations were lower at the downstream station in 21 of 25 of the paired samples, indicating nearly continuous loss in the reach. The total loss of NO3 for the day was about 0.71 g as N/m2. Most of the loss occurred during daylight hours, with the peak occurring at midday. During the night, CO2 concentrations were relatively constant at about 25 mg/L. Concentrations began to decline at sunrise, and declined to 0 mg/L at the lower site after midday. Peak nitrate loss occurred at about the same time as the CO2 concentration was at its minimum. DO declined slightly during the night, began to rise at sunrise, reached a peak during midday, and declined in late afternoon through evening; pH followed a similar pattern. Net primary productivity, as measured by the differences in DO between the two sites was 13 g O2/m2 for the day. Using the Redfield ratio, the predicted nitrate assimilation is about 0.66 g NO3 as N/m2. The continuous loss of nitrate between the two sites; the comparability between the observed loss in nitrate and that predicted using the Redfield ratio; and the timing of changes in nitrate loss, DO, pH and CO2 indicate that nitrate loss in this concrete-lined channel was primarily due to algal assimilation. The timing of the peak nitrate loss relative to the depletion of CO2 suggests that CO2 may be limiting photosynthesis, and therefore assimilation of nitrate by algae.

Polychlorinated biphenyls in aquatic invertebrates and fish and observations about nitrogen and carbon isotope composition in relation to trophic structure and bioaccumulation patterns, Lake Worth and Meandering Road Creek, Fort Worth, Texas, 2007-08

USGS Publications Warehouse

Moring, J. Bruce

2010-01-01

During 2007-08 the U.S. Geological Survey, in cooperation with the U.S. Air Force, evaluated the concentration of polychlorinated biphenyls (PCBs) in aquatic invertebrates and fish from one site in the main body of Lake Worth, two sites in a small inlet in Lake Worth (upper and lower Woods Inlet), and one site in Meandering Road Creek in Fort Worth, Texas. The four sites sampled during 2007-08 were located at or near sites where surficial bed-sediment samples had been collected and analyzed for PCBs during previous U.S. Geological Survey studies so that PCB concentrations in aquatic invertebrates and fish and PCB concentrations in surficial bed-sediment samples could be compared. Stable nitrogen and carbon isotopes were used to help assess differences in the amount of these isotopes by species and sampling location. The sum of 15 PCB-congener concentrations was highest for aquatic invertebrates and fish from the upper Woods Inlet site and lowest for the same aquatic invertebrates and fish from Lake Worth site, where PCBs historically had not been detected in lake bed sediment. An increase in the ratio of the heavier nitrogen-15 (15N) isotope to the lighter nitrogen-14 (14N) isotope, referred to as enrichment of 15N, was highest in largemouth bass (representing the highest trophic level sampled) at all sites and lowest for true midge larvae inhabiting surficial bed sediment in the lake (representing the lowest trophic level sampled). Enrichment of 15N was less variable in largemouth bass and other fish from the highest trophic level compared with shorter lived, primary consumer invertebrates from lower trophic levels, such as true midge larvae, mayfly nymphs, and zooplankton. The delta carbon-13 (delta13C) values measured in true midge larvae collected at the Lake Worth and upper and lower Woods Inlet sites were more negative compared with the delta13C values measured for all other taxa, indicating true midge larvae were more depleted of carbon-13 (13C) compared with all other aquatic invertebrate and fish. The relative depletion of 13C might indicate the carbon sources consumed by true midge larvae are different from the carbon sources consumed by all other taxon that were sampled. Ratios of stable nitrogen isotopes nitrogen-15 to nitrogen-14 (delta15N) were similar between taxa from the Lake Worth site and Woods Inlet sites. The sum of 15 PCB-congener concentrations, however, was an order of magnitude higher in largemouth bass from the upper Woods Inlet site, indicating that PCB-congener concentrations in lake bed sediment likely controls biomagnification within the lake because of the similarities in trophic structure of the resident aquatic community. The biota at the Lake Worth reference site, where PCBs were not detected in the surficial sediment during previous studies, were less contaminated than the biota at sites where PCBs had been detected in the surficial sediment. The highest trophic-level consumers (as evidenced by the most 15N-enriched delta15N values) showed the maximum bioaccumulation.

Primary Care Emergency Preparedness Network, New York City, 2015: Comparison of Member and Nonmember Sites

PubMed Central

Jean, Marc C.; Chen, Bei; Molinari, Noelle-Angelique M.; LeBlanc, Tanya T.

2017-01-01

Objectives. To assess whether Primary Care Emergency Preparedness Network member sites reported indicators of preparedness for public health emergencies compared with nonmember sites. The network—a collaboration between government and New York City primary care associations—offers technical assistance to primary care sites to improve disaster preparedness and response. Methods. In 2015, we administered an online questionnaire to sites regarding facility characteristics and preparedness indicators. We estimated differences between members and nonmembers with natural logarithm–linked binomial models. Open-ended assessments identified preparedness gaps. Results. One hundred seven sites completed the survey (23.3% response rate); 47 (43.9%) were nonmembers and 60 (56.1%) were members. Members were more likely to have completed hazard vulnerability analysis (risk ratio [RR] = 1.94; 95% confidence interval [CI] = 1.28, 2.93), to have identified essential services for continuity of operations (RR = 1.39; 95% CI = 1.03, 1.86), to have memoranda of understanding with external partners (RR = 2.49; 95% CI = 1.42, 4.36), and to have completed point-of-dispensing training (RR = 4.23; 95% CI = 1.76, 10.14). Identified preparedness gaps were improved communication, resource availability, and train-the-trainer programs. Public Health Implications. Primary Care Emergency Preparedness Network membership is associated with improved public health emergency preparedness among primary care sites. PMID:28892448

Spreaders and Sponges define metastasis in lung cancer: A Markov chain Monte Carlo Mathematical Model

PubMed Central

Newton, Paul K.; Mason, Jeremy; Bethel, Kelly; Bazhenova, Lyudmila; Nieva, Jorge; Norton, Larry; Kuhn, Peter

2013-01-01

The classic view of metastatic cancer progression is that it is a unidirectional process initiated at the primary tumor site, progressing to variably distant metastatic sites in a fairly predictable, though not perfectly understood, fashion. A Markov chain Monte Carlo mathematical approach can determine a pathway diagram that classifies metastatic tumors as ‘spreaders’ or ‘sponges’ and orders the timescales of progression from site to site. In light of recent experimental evidence highlighting the potential significance of self-seeding of primary tumors, we use a Markov chain Monte Carlo (MCMC) approach, based on large autopsy data sets, to quantify the stochastic, systemic, and often multi-directional aspects of cancer progression. We quantify three types of multi-directional mechanisms of progression: (i) self-seeding of the primary tumor; (ii) re-seeding of the primary tumor from a metastatic site (primary re-seeding); and (iii) re-seeding of metastatic tumors (metastasis re-seeding). The model shows that the combined characteristics of the primary and the first metastatic site to which it spreads largely determine the future pathways and timescales of systemic disease. For lung cancer, the main ‘spreaders’ of systemic disease are the adrenal gland and kidney, whereas the main ‘sponges’ are regional lymph nodes, liver, and bone. Lung is a significant self-seeder, although it is a ‘sponge’ site with respect to progression characteristics. PMID:23447576

Traceability in stem cell research: from participant sample to induced pluripotent stem cell and back.

PubMed

Morrison, Michael; Moraia, Linda Briceño; Steele, Jane C

2016-01-01

This paper describes a traceability system developed for the Stem cells for Biological Assays of Novel drugs and prediCtive toxiCology consortium. The system combines records and labels that to biological material across geographical locations and scientific processes from sample donation to induced pluripotent stem cell line. The labeling system uses a unique identification number to link every aliquot of sample at every stage of the reprogramming pathway back to the original donor. Only staff at the clinical recruitment site can reconnect the unique identification number to the identifying details of a specific donor. This ensures the system meets ethical and legal requirements for protecting privacy while allowing full traceability of biological material. The system can be adapted to other projects and for use with different primary sample types.

Competition and rural primary care programs.

PubMed

Ricketts, T C

1990-04-01

Rural primary care programs were established in areas where there was thought to be no competition for patients. However, evidence from site visits and surveys of a national sample of subsidized programs revealed a pattern of competitive responses by the clinics. In this study of 193 rural primary care programs, mail and telephone surveys produced uniform data on the organization, operation, finances, and utilization of a representative sample of clinics. The programs were found to compete in terms of: (1) price, (2) service mix, (3) staff availability, (4) structural accessibility, (5) outreach, and (6) targeting a segment of the market. The competitive strategies employed by the clinics had consequences that affected their productivity and financial stability. The strategies were related to the perceived missions of the programs, and depended heavily upon the degree of isolation of the program and the targeting of the services. The competitive strategy chosen by a particular program could not be predicted based on service area population and apparent competitors in the service area. The goals and objectives of the programs had more to do with their competitive responses than with market characteristics. Moreover, the chosen strategies may not meet the demands of those markets.

The effect of undersizing and tapping on bone to implant contact and implant primary stability: A histomorphometric study on bovine ribs.

PubMed

Di Stefano, Danilo Alessio; Perrotti, Vittoria; Greco, Gian Battista; Cappucci, Claudia; Arosio, Paolo; Piattelli, Adriano; Iezzi, Giovanna

2018-06-01

Implant site preparation may be adjusted to achieve the maximum possible primary stability. The aim of this investigation was to study the relation among bone-to-implant contact at insertion, bone density, and implant primary stability intra-operatively measured by a torque-measuring implant motor, when implant sites were undersized or tapped. Undersized (n=14), standard (n=13), and tapped (n=13) implant sites were prepared on 9 segments of bovine ribs. After measuring bone density using the implant motor, 40 implants were placed, and their primary stability assessed by measuring the integral of the torque-depth insertion curve. Bovine ribs were then processed histologically, the bone-to-implant contact measured and statistically correlated to bone density and the integral. Bone-to-implant contact and the integral of the torque-depth curve were significantly greater for undersized sites than tapped sites. Moreover, a correlation between bone to implant contact, the integral and bone density was found under all preparation conditions. The slope of the bone-to-implant/density and integral/density lines was significantly greater for undersized sites, while those corresponding to standard prepared and tapped sites did not differ significantly. The integral of the torque-depth curve provided reliable information about bone-to-implant contact and primary implant stability even in tapped or undersized sites. The linear relations found among the parameters suggests a connection between extent and modality of undersizing and the corresponding increase of the integral and, consequently, of primary stability. These results might help the physician determine the extent of undersizing needed to achieve the proper implant primary stability, according to the planned loading protocol.

The Autism Simplex Collection: an international, expertly phenotyped autism sample for genetic and phenotypic analyses

PubMed Central

2014-01-01

Background There is an urgent need for expanding and enhancing autism spectrum disorder (ASD) samples, in order to better understand causes of ASD. Methods In a unique public-private partnership, 13 sites with extensive experience in both the assessment and diagnosis of ASD embarked on an ambitious, 2-year program to collect samples for genetic and phenotypic research and begin analyses on these samples. The program was called The Autism Simplex Collection (TASC). TASC sample collection began in 2008 and was completed in 2010, and included nine sites from North America and four sites from Western Europe, as well as a centralized Data Coordinating Center. Results Over 1,700 trios are part of this collection, with DNA from transformed cells now available through the National Institute of Mental Health (NIMH). Autism Diagnostic Interview-Revised (ADI-R) and Autism Diagnostic Observation Schedule-Generic (ADOS-G) measures are available for all probands, as are standardized IQ measures, Vineland Adaptive Behavioral Scales (VABS), the Social Responsiveness Scale (SRS), Peabody Picture Vocabulary Test (PPVT), and physical measures (height, weight, and head circumference). At almost every site, additional phenotypic measures were collected, including the Broad Autism Phenotype Questionnaire (BAPQ) and Repetitive Behavior Scale-Revised (RBS-R), as well as the non-word repetition scale, Communication Checklist (Children’s or Adult), and Aberrant Behavior Checklist (ABC). Moreover, for nearly 1,000 trios, the Autism Genome Project Consortium (AGP) has carried out Illumina 1 M SNP genotyping and called copy number variation (CNV) in the samples, with data being made available through the National Institutes of Health (NIH). Whole exome sequencing (WES) has been carried out in over 500 probands, together with ancestry matched controls, and this data is also available through the NIH. Additional WES is being carried out by the Autism Sequencing Consortium (ASC), where the focus is on sequencing complete trios. ASC sequencing for the first 1,000 samples (all from whole-blood DNA) is complete and data will be released in 2014. Data is being made available through NIH databases (database of Genotypes and Phenotypes (dbGaP) and National Database for Autism Research (NDAR)) with DNA released in Dist 11.0. Primary funding for the collection, genotyping, sequencing and distribution of TASC samples was provided by Autism Speaks and the NIH, including the National Institute of Mental Health (NIMH) and the National Human Genetics Research Institute (NHGRI). Conclusions TASC represents an important sample set that leverages expert sites. Similar approaches, leveraging expert sites and ongoing studies, represent an important path towards further enhancing available ASD samples. PMID:25392729

High-Resolution Magnetic Properties and Cyclicity of Contourites from IODP Site U1389 (West Iberian Margin)

NASA Astrophysics Data System (ADS)

Richter, C.; Adesiyun, O.; Acton, G.; Sidorovskaia, N.; Sierro, F. J.; Xuan, C.; Verosub, K. L.

2015-12-01

We present high-resolution paleomagnetic and rock magnetic results from the lower part of the APC-cored section (36 - 107 meters composite depth) of Integrated Ocean Drilling Program (IODP) Site U1389 (36º 25.515'N; 7º 16.683'W, 644 m water depth). This site was cored as part of the IODP Mediterranean Outflow Expedition to address paleoceanographic questions about the evolution of the North Atlantic Mediterranean and climate system over the past 6 million years. The recovered section at Site U1389 consists of a thick, rapidly accumulated (~40 cm/kyr), and very uniform series of contouritic sediment. Ages were obtained by tuning the planktonic foraminifer oxygen isotope data to the NGRIP ice core record. We collected rock magnetic and paleomagnetic measurements at 1-cm resolution on 71-m of U-channel samples (representing ~145 k.yr.), with the goal of extracting a high-resolution record of paleoenvironmental variability, relative geomagnetic paleointensity, and paleosecular variation. Stepwise demagnetization of the natural remanence (NRM) demonstrates the successful removal of a secondary, predominantly drill-string induced, magnetization and identification of a stable and strong primary magnetization carried by the sediment samples (average MAD calculated by principal component analysis: ~1º). Excellent behavior of the samples during alternating field demagnetization and isothermal remanent magnetization (IRM) acquisition suggest magnetite as the main carrier of magnetic remanence. Relative paleointensity estimates were determined by normalizing the NRM by the ARM, IRM, and magnetic susceptibility. Time-frequency analyses of high-resolution concentration and grain-size dependent paleomagnetic proxy data for the entire 107-m (200 k.yr.) long APC section of Site U1389 will be presented with the goal of identifying the driver of cyclic changes in the sedimentary section.

Cytology of primary vaginal melanoma: An unusual report on fine needle aspiration.

PubMed

Agarwal, Poojan; Kaushal, Manju

2017-03-01

Primary malignant melanoma of the vagina is an extremely uncommon malignancy comprising of less than 10% malignancies of the female genital tract and 0.3% of all melanomas. Melanoblasts are neural crest derivatives and are notorious for causing primary cutaneous neoplasms. However, they involve virtually every organ of the body including eye, intestines and ocular mucosa, probably due to aberrancies in cell migration. Vagina is a rare site and primary melanoma of the vagina occurs in postmenopausal women with vaginal discharge, bleeding, or mass as common presenting complaints. Only a handful of case reports are available describing this entity on biopsy and PAP smear samples; however, fine needle aspiration has seldom been discussed. In the present report we discuss a case of an elderly female who complained of mass protruding through the vaginal opening, FNAC was done from the mass as well as from the right inguinal lymph node. An extensive clinicoradiological workup, and immunohistochemical confirmation is essential to rule out metastatic lesions and confirm primary. Diagn. Cytopathol. 2017;45:252-256. © 2016 Wiley Periodicals, Inc. © 2016 Wiley Periodicals, Inc.

The Role of Nitrogen-Fixing Symbionts in Primary Succession on the Juneau Icefield

NASA Astrophysics Data System (ADS)

Walker-Andrews, T.; Cooley, S.; Veitz, M.; White, C.

2017-12-01

The glaciers of the Juneau icefield will likely continue to retreat in the coming years, leaving behind a rocky landscape. As this land is exposed, colonizing organisms will begin the process of primary succession and soil formation. As student researchers with the Juneau Icefield Research Program, we are studying the relationship between abundance and diversity of nitrogen-fixing symbionts on the Juneau Icefield and the rate of primary succession and soil development on recently deglaciated areas. We will survey three representative plots in a variety of vegetation zones at various sample sites; collecting data on soil profiles, as well as abundance and diversity of plants and lichens. We expect to find a positive correlation between the diversity of plants and lichens­- especially of nitrogen-fixing symbionts - and the level of soil development. The data will improve understanding of plant diversity on the Juneau Icefield and how the processes of primary succession transform the new environment. This work will contribute to on-going research on the process of primary succession on the Juneau Icefield.

The degree of intratumor mutational heterogeneity varies by primary tumor sub-site

PubMed Central

Eterovic, Agda Karina; Wick, Jo; Chen, Ken; Zhao, Hao; Tazi, Loubna; Manna, Pradip; Kerley, Spencer; Joshi, Radhika; Wang, Lin; Chiosea, Simion I.; Garnett, James David; Tsue, Terance Ted; Chien, Jeremy; Mills, Gordon B.; Grandis, Jennifer Rubin; Thomas, Sufi Mary

2016-01-01

In an era where mutational profiles inform treatment options, it is critical to know the extent to which tumor biopsies represent the molecular profile of the primary and metastatic tumor. Head and neck squamous cell carcinoma (HNSCC) arise primarily in the mucosal lining of oral cavity and oropharynx. Despite aggressive therapy the 5-year survival rate is at 50%. The primary objective of this study is to characterize the degree of intratumor mutational heterogeneity in HNSCC. We used multi-region sequencing of paired primary and metastatic tumor DNA of 24 spatially distinct samples from seven patients with HNSCC of larynx, floor of the mouth (FOM) or oral tongue. Full length, in-depth sequencing of 202 genes implicated in cancer was carried out. Larynx and FOM tumors had more than 69.2% unique SNVs between the paired primary and metastatic lesions. In contrast, the oral tongue HNSCC had only 33.3% unique SNVs across multiple sites. In addition, HNSCC of the oral tongue had fewer mutations than larynx and FOM tumors. These findings were validated on the Affymetrix whole genome 6.0 array platform and were consistent with data from The Cancer Genome Atlas (TCGA). This is the first report demonstrating differences in mutational heterogeneity varying by subsite in HNSCC. The heterogeneity within laryngeal tumor specimens may lead to an underestimation of the genetic abnormalities within tumors and may foster resistance to standard treatment protocols. These findings are relevant to investigators and clinicians developing personalized cancer treatments based on identification of specific mutations in tumor biopsies. PMID:27034009

The degree of intratumor mutational heterogeneity varies by primary tumor sub-site.

PubMed

Ledgerwood, Levi G; Kumar, Dhruv; Eterovic, Agda Karina; Wick, Jo; Chen, Ken; Zhao, Hao; Tazi, Loubna; Manna, Pradip; Kerley, Spencer; Joshi, Radhika; Wang, Lin; Chiosea, Simion I; Garnett, James David; Tsue, Terance Ted; Chien, Jeremy; Mills, Gordon B; Grandis, Jennifer Rubin; Thomas, Sufi Mary

2016-05-10

In an era where mutational profiles inform treatment options, it is critical to know the extent to which tumor biopsies represent the molecular profile of the primary and metastatic tumor. Head and neck squamous cell carcinoma (HNSCC) arise primarily in the mucosal lining of oral cavity and oropharynx. Despite aggressive therapy the 5-year survival rate is at 50%. The primary objective of this study is to characterize the degree of intratumor mutational heterogeneity in HNSCC. We used multi-region sequencing of paired primary and metastatic tumor DNA of 24 spatially distinct samples from seven patients with HNSCC of larynx, floor of the mouth (FOM) or oral tongue. Full length, in-depth sequencing of 202 genes implicated in cancer was carried out. Larynx and FOM tumors had more than 69.2% unique SNVs between the paired primary and metastatic lesions. In contrast, the oral tongue HNSCC had only 33.3% unique SNVs across multiple sites. In addition, HNSCC of the oral tongue had fewer mutations than larynx and FOM tumors. These findings were validated on the Affymetrix whole genome 6.0 array platform and were consistent with data from The Cancer Genome Atlas (TCGA). This is the first report demonstrating differences in mutational heterogeneity varying by subsite in HNSCC. The heterogeneity within laryngeal tumor specimens may lead to an underestimation of the genetic abnormalities within tumors and may foster resistance to standard treatment protocols. These findings are relevant to investigators and clinicians developing personalized cancer treatments based on identification of specific mutations in tumor biopsies.

Ground-water quality in the carbonate-rock aquifer of the Great Basin, Nevada and Utah, 2003

USGS Publications Warehouse

Schaefer, Donald H.; Thiros, Susan A.; Rosen, Michael R.

2005-01-01

The carbonate-rock aquifer of the Great Basin is named for the thick sequence of Paleozoic limestone and dolomite with lesser amounts of shale, sandstone, and quartzite. It lies primarily in the eastern half of the Great Basin and includes areas of eastern Nevada and western Utah as well as the Death Valley area of California and small parts of Arizona and Idaho. The carbonate-rock aquifer is contained within the Basin and Range Principal Aquifer, one of 16 principal aquifers selected for study by the U.S. Geological Survey’s National Water- Quality Assessment Program.Water samples from 30 ground-water sites (20 in Nevada and 10 in Utah) were collected in the summer of 2003 and analyzed for major anions and cations, nutrients, trace elements, dissolved organic carbon, volatile organic compounds (VOCs), pesticides, radon, and microbiology. Water samples from selected sites also were analyzed for the isotopes oxygen-18, deuterium, and tritium to determine recharge sources and the occurrence of water recharged since the early 1950s.Primary drinking-water standards were exceeded for several inorganic constituents in 30 water samples from the carbonate-rock aquifer. The maximum contaminant level was exceeded for concentrations of dissolved antimony (6 μg/L) in one sample, arsenic (10 μg/L) in eleven samples, and thallium (2 μg/L) in one sample. Secondary drinking-water regulations were exceeded for several inorganic constituents in water samples: chloride (250 mg/L) in five samples, fluoride (2 mg/L) in two samples, iron (0.3 mg/L) in four samples, manganese (0.05 mg/L) in one sample, sulfate (250 mg/L) in three samples, and total dissolved solids (500 mg/L) in seven samples.Six different pesticides or metabolites were detected at very low concentrations in the 30 water samples. The lack of VOC detections in water sampled from most of the sites is evidence thatVOCs are not common in the carbonate-rock aquifer. Arsenic values for water range from 0.7 to 45.7 μg/L, with a median value of 9.6 μg/L. Factors affecting arsenic concentration in the carbonate-rock aquifer in addition to geothermal heating are its natural occurrence in the aquifer material and time of travel along the flow path.Most of the chemical analyses, especially for VOCs and nutrients, indicate little, if any, effect of overlying land-use patterns on ground-water quality. The water quality in recharge areas for the aquifer where human activities are more intense may be affected by urban and/or agricultural land uses as evidenced by pesticide detections. The proximity of the carbonate-rock aquifer at these sites to the land surface and the potential for local recharge to occur through the fractured rock likely results in the occurrence of these and other land-surface related contaminants in the ground water. Water from sites sampled near outcrops of carbonate-rock aquifer likely has a much shorter residence time resulting in a potential for detection of anthropogenic or land-surface related compounds. Sites located in discharge areas of the flow systems or wells that are completed at a great depth below the land surface generally show no effects of land-use activities on water quality. Flow times within the carbonate-rock aquifer, away from recharge areas, are on the order of thousands of years, so any contaminants introduced at the land surface that will not degrade along the flow path have not reached the sampled sites in these areas.

RANKL/RANK/OPG cytokine receptor system: mRNA expression pattern in BPH, primary and metastatic prostate cancer disease.

PubMed

Christoph, Frank; König, Frank; Lebentrau, Steffen; Jandrig, Burkhard; Krause, Hans; Strenziok, Romy; Schostak, Martin

2018-02-01

The cytokine system RANKL (receptor activator of NF-κB ligand), its receptor RANK and the antagonist OPG (osteoprotegerin) play a critical role in bone turnover. Our investigation was conducted to describe the gene expression at primary tumour site in prostate cancer patients and correlate the results with Gleason Score and PSA level. Seventy-one samples were obtained from prostate cancer patients at the time of radical prostatectomy and palliative prostate resection (n = 71). Patients with benign prostate hyperplasia served as controls (n = 60). We performed real-time RT-PCR after microdissection of the samples. The mRNA expression of RANK was highest in tumour tissue from patients with bone metastases (p < 0.001) as compared to BPH or locally confined tumours, also shown in clinical subgroups distinguished by Gleason Score (< 7 or ≥ 7, p = 0.028) or PSA level (< 10 or ≥ 10 µg/l, p = 0.004). RANKL and OPG mRNA expression was higher in tumour tissue from patients with metastatic compared to local disease. The RANKL/OPG ratio was low in normal prostate tissue and high tumours with bone metastases (p < 0.05). Expression of all three cytokines was high in BPH tissue but did not exceed as much as in the tumour tissue. We demonstrated that RANK, RANKL and OPG are directly expressed by prostate cancer cells at the primary tumour site and showed a clear correlation with Gleason Score, serum PSA level and advanced disease. In BPH, mRNA expression is also detectable, but RANK expression does not exceed as much as compared to tumour tissue.

Water-quality conditions of the lower Boise River, Ada and Canyon Counties, Idaho, May 1994 through February 1997

USGS Publications Warehouse

Mullins, William H.

1998-01-01

Agricultural land and water use, wastewater treatment facility discharges, land development, road construction, urban runoff, confined-animal feeding operations, reservoir operations, and river channelization affect the water quality and biotic integrity of the lower Boise River between Lucky Peak Dam and the river's mouth at Parma, Idaho. During May 1994 through February 1997, 4 sites on the Boise River, 12 tributary/drain sites, and 3 wastewater treatment facilities were sampled at various intervals during the irrigation (high-flow) and post-irrigation (low-flow) seasons to determine sources, concentrations, and relative loads of nutrients and suspended sediment. Discharge entering the Boise River from the 12 tributary/drain sites and 3 wastewater treatment facilities was measured to determine the nutrient loads being contributed from each source. Total nitrogen, total phosphorus, and suspended sediment concentrations and loads tended to increase in a downstream direction along the Boise River. Among the 15 sources of discharge to the Boise River, 3 southside tributary/drains and the West Boise wastewater treatment facility contributed the largest loads of total nitrogen; the median daily load was more than 2,000 pounds per day. The West Boise wastewater treatment facility contributed the largest median daily load of total phosphorus (810 pounds per day); Dixie Drain contributed the largest median daily load of suspended sediment (26.4 tons per day). Nitrogen-to-phosphorus ratios at the four Boise River sites indicated that phosphorus could be limiting algal growth at the Diversion Dam site, whereas nitrogen could be limiting algal growth at the Glenwood and Middleton sites during some parts of the year. Algal growth in the Boise River near Parma did not appear to be nutrient limited. Because of the complexity of the plumbing system in the lower Boise River (numerous diversions and inflow points), accurate comparisons between discharge and nutrient loads entering the river at measured sites during high-flow sampling periods were difficult. During low-flow sampling periods, southside tributary/drains contributed most of the discharge and total nitrogen load, and wastewater treatment facilities contributed most of the total phosphorus load to the Boise River. During the 50-day period July 18 through September 5, 1996, the Idaho State standard for maximum daily average temperature for coldwater biota was exceeded by 34 percent at Middleton, 48 percent at Caldwell, and 80 percent near Parma. Violations of State standards for primary and secondary contact recreation were observed at all tributary/ drains and in the Boise River near Parma. Median instantaneous concentrations of fecal coliform bacteria exceeded State standards for primary contact recreation at five tributary/drains and exceeded standards for secondary contact recreation at one tributary/drain (Dixie Drain).

Constraining Resurgence through Lake Sediment Paleomagnetism on Resurgent Dome Samosir Island in Toba Caldera, Sumatra, Indonesia

NASA Astrophysics Data System (ADS)

Solada, K.; de Silva, S. L.; Stoner, J. S.; Mucek, A. E.; Reilly, B. T.; Hatfield, R. G.; Pratomo, I.; Bowers, J.; Jamil, R.; Setianto, B.

2017-12-01

Around 74 ka, a supervolcano, Toba Caldera in Sumatra, Indonesia erupted, producing the Youngest Toba Tuff and its associated caldera. After this catastrophic eruption, a lake filled the caldera, sedimentation within the lake occurred, and the process known as resurgence began. Today, the resurgent dome, Samosir Island, is uplifted 700 m above the lake with the upper 100 m composed of these post eruption lake sediments. These sediments and their ages offer insight to the resurgent uplift history. To constrain sediment chronology, we collected discrete paleomagnetic 8 cm3 cubes and 43 radiocarbon samples from 10 sites around the island. Bulk organic carbon 14C ages provide an initial chronostratigraphic framework, which is improved by correlating paleomagnetic signals between site sections. Additionally, nearby marine sediment paleomagnetic records show large amplitude changes in inclination over the past 74 ka, providing a good template to compare the sediment chronology. 27 radiocarbon samples have already been dated, with the oldest dating at 38 ka. However, our radiocarbon and paleomagnetic correlation suggest that this record extends even older. Natural and laboratory magnetizations on discrete samples were studied using alternating field (AF) demagnetization at the Oregon State University P-Mag Lab. Although there is variability in magnetic susceptibility between study sites and natural remanant magnetization intensities are often relatively low ( 10-4 (A/m)), AF demagnetization behavior suggests a primary magnetization is recorded. Characteristic remanent magnetizations are reasonably well-defined using a principal component analysis with maximum angular deviation values < 15°, though stronger samples typically have better resolved magnetizations. Data from 4 sites with 14C ages ranging from 23 ka to 38 ka, show low inclination values, averaging around -5° compared with geocentric axial dipole prediction for the site location of approximately 4°. This is consistent with the negative inclination anomaly associated with this region. These observations and similar patterns between sections suggest that a reliable record is preserved that is suitable for magnetic stratigraphy.

The eMERGE Network: a consortium of biorepositories linked to electronic medical records data for conducting genomic studies.

PubMed

McCarty, Catherine A; Chisholm, Rex L; Chute, Christopher G; Kullo, Iftikhar J; Jarvik, Gail P; Larson, Eric B; Li, Rongling; Masys, Daniel R; Ritchie, Marylyn D; Roden, Dan M; Struewing, Jeffery P; Wolf, Wendy A

2011-01-26

The eMERGE (electronic MEdical Records and GEnomics) Network is an NHGRI-supported consortium of five institutions to explore the utility of DNA repositories coupled to Electronic Medical Record (EMR) systems for advancing discovery in genome science. eMERGE also includes a special emphasis on the ethical, legal and social issues related to these endeavors. The five sites are supported by an Administrative Coordinating Center. Setting of network goals is initiated by working groups: (1) Genomics, (2) Informatics, and (3) Consent & Community Consultation, which also includes active participation by investigators outside the eMERGE funded sites, and (4) Return of Results Oversight Committee. The Steering Committee, comprised of site PIs and representatives and NHGRI staff, meet three times per year, once per year with the External Scientific Panel. The primary site-specific phenotypes for which samples have undergone genome-wide association study (GWAS) genotyping are cataract and HDL, dementia, electrocardiographic QRS duration, peripheral arterial disease, and type 2 diabetes. A GWAS is also being undertaken for resistant hypertension in ≈ 2,000 additional samples identified across the network sites, to be added to data available for samples already genotyped. Funded by ARRA supplements, secondary phenotypes have been added at all sites to leverage the genotyping data, and hypothyroidism is being analyzed as a cross-network phenotype. Results are being posted in dbGaP. Other key eMERGE activities include evaluation of the issues associated with cross-site deployment of common algorithms to identify cases and controls in EMRs, data privacy of genomic and clinically-derived data, developing approaches for large-scale meta-analysis of GWAS data across five sites, and a community consultation and consent initiative at each site. Plans are underway to expand the network in diversity of populations and incorporation of GWAS findings into clinical care. By combining advanced clinical informatics, genome science, and community consultation, eMERGE represents a first step in the development of data-driven approaches to incorporate genomic information into routine healthcare delivery.

Remedial Investigation of Hanford Site Releases to the Columbia River - 13603

DOE Office of Scientific and Technical Information (OSTI.GOV)

Lerch, J.A.; Hulstrom, L.C.; Sands, J.P.

2013-07-01

In south-central Washington State, the Columbia River flows through the U.S. Department of Energy Hanford Site. A primary objective of the Hanford Site cleanup mission is protection of the Columbia River, through remediation of contaminated soil and groundwater that resulted from its weapons production mission. Within the Columbia River system, surface water, sediment, and biota samples related to potential Hanford Site hazardous substance releases have been collected since the start of Hanford operations. The impacts from release of Hanford Site radioactive substances to the Columbia River in areas upstream, within, and downstream of the Hanford Site boundary have been previouslymore » investigated as mandated by the U.S. Department of Energy requirements under the Atomic Energy Act. The Remedial Investigation Work Plan for Hanford Site Releases to the Columbia River [1] was issued in 2008 to initiate assessment of the impacts under the Comprehensive Environmental Response, Compensation, and Liability Act of 1980 [2]. The work plan established a phased approach to characterize contaminants, assess current risks, and determine whether or not there is a need for any cleanup actions. Field investigation activities over a 120-mile stretch of the Columbia River began in October 2008 and were completed in 2010. Sampled media included surface water, pore water, surface and core sediment, island soil, and fish (carp, walleye, whitefish, sucker, small-mouth bass, and sturgeon). Information and sample results from the field investigation were used to characterize current conditions within the Columbia River and assess whether current conditions posed a risk to ecological or human receptors that would merit additional study or response actions under CERCLA. The human health and ecological risk assessments are documented in reports that were published in 2012 [3, 4]. Conclusions from the risk assessment reports are being summarized and integrated with remedial investigation/feasibility study (RI/FS) reports developed for upland areas, riparian areas, and groundwater in the Hanford Site River Corridor. The RI/FS reports will evaluate the impacts to soil, groundwater, and river sediments and lead to proposed cleanup actions and records of decision to address releases from the Hanford Site reactor operations. (authors)« less

Prevention of child sexual abuse: evaluation of a community media campaign.

PubMed

Rheingold, Alyssa A; Campbell, Carole; Self-Brown, Shannon; de Arellano, Michael; Resnick, Heidi; Kilpatrick, Dean

2007-11-01

Given that mass media techniques have been an effective tool within the public health field for affecting behavioral change, these strategies may prove successful for the primary prevention of child sexual abuse (CSA). This study was an independent evaluation of a CSA media campaign. Two hundred parents were recruited from eight sites across the United States. Results indicated that the combined mass media campaign affected knowledge about CSA at the time of intervention compared to no intervention. No significant differences were found in regards to CSA attitudes. A significant positive impact on primary prevention response behaviors assessed using hypothetical vignettes was found; however, no significant findings were noted for several other behavioral responses. Knowledge and behavioral gains were not maintained at the one-month follow-up. Small sample size at follow-up may have affected findings. Results of this study imply that media campaigns alone may not significantly affect primary prevention of CSA.

Pathways to Medical Home Recognition: A Qualitative Comparative Analysis of the PCMH Transformation Process.

PubMed

Mendel, Peter; Chen, Emily K; Green, Harold D; Armstrong, Courtney; Timbie, Justin W; Kress, Amii M; Friedberg, Mark W; Kahn, Katherine L

2017-12-15

To understand the process of practice transformation by identifying pathways for attaining patient-centered medical home (PCMH) recognition. The CMS Federally Qualified Health Center (FQHC) Advanced Primary Care Practice Demonstration was designed to help FQHCs achieve NCQA Level 3 PCMH recognition and improve patient outcomes. We used a stratified random sample of 20 (out of 503) participating sites for this analysis. We developed a conceptual model of structural, cultural, and implementation factors affecting PCMH transformation based on literature and initial qualitative interview themes. We then used conventional cross-case analysis, followed by qualitative comparative analysis (QCA), a cross-case method based on Boolean logic algorithms, to systematically identify pathways (i.e., combinations of factors) associated with attaining-or not attaining-Level 3 recognition. Site-level indicators were derived from semistructured interviews with site leaders at two points in time (mid- and late-implementation) and administrative data collected prior to and during the demonstration period. The QCA results identified five distinct pathways to attaining PCMH recognition and four distinct pathways to not attaining recognition by the end of the demonstration. Across these pathways, one condition (change leader capacity) was common to all pathways for attaining recognition, and another (previous improvement or recognition experience) was absent in all pathways for not attaining recognition. In general, sites could compensate for deficiencies in one factor with capacity in others, but they needed a threshold of strengths in cultural and implementation factors to attain PCMH recognition. Future efforts at primary care transformation should take into account multiple pathways sites may pursue. Sites should be assessed on key cultural and implementation factors, in addition to structural components, in order to differentiate interventions and technical assistance. © Health Research and Educational Trust.

A peek into tropomyosin binding and unfolding on the actin filament.

PubMed

Singh, Abhishek; Hitchcock-Degregori, Sarah E

2009-07-24

Tropomyosin is a prototypical coiled coil along its length with subtle variations in structure that allow interactions with actin and other proteins. Actin binding globally stabilizes tropomyosin. Tropomyosin-actin interaction occurs periodically along the length of tropomyosin. However, it is not well understood how tropomyosin binds actin. Tropomyosin's periodic binding sites make differential contributions to two components of actin binding, cooperativity and affinity, and can be classified as primary or secondary sites. We show through mutagenesis and analysis of recombinant striated muscle alpha-tropomyosins that primary actin binding sites have a destabilizing coiled-coil interface, typically alanine-rich, embedded within a non-interface recognition sequence. Introduction of an Ala cluster in place of the native, more stable interface in period 2 and/or period 3 sites (of seven) increased the affinity or cooperativity of actin binding, analysed by cosedimentation and differential scanning calorimetry. Replacement of period 3 with period 5 sequence, an unstable region of known importance for cooperative actin binding, increased the cooperativity of binding. Introduction of the fluorescent probe, pyrene, near the mutation sites in periods 2 and 3 reported local instability, stabilization by actin binding, and local unfolding before or coincident with dissociation from actin (measured using light scattering), and chain dissociation (analyzed using circular dichroism). This, and previous work, suggests that regions of tropomyosin involved in binding actin have non-interface residues specific for interaction with actin and an unstable interface that is locally stabilized upon binding. The destabilized interface allows residues on the coiled-coil surface to obtain an optimal conformation for interaction with actin by increasing the number of local substates that the side chains can sample. We suggest that local disorder is a property typical of coiled coil binding sites and proteins that have multiple binding partners, of which tropomyosin is one type.

Ligand accessibility to the HIV-1 Env co-receptor binding site can occur prior to CD4 engagement and is independent of viral tier category.

PubMed

Boliar, Saikat; Patil, Shilpa; Shukla, Brihaspati N; Ghobbeh, Ali; Deshpande, Suprit; Chen, Weizao; Guenaga, Javier; Dimitrov, Dimiter S; Wyatt, Richard T; Chakrabarti, Bimal K

2018-06-01

HIV-1 virus entry into target cells requires the envelope glycoprotein (Env) to first bind the primary receptor, CD4 and subsequently the co-receptor. Antibody access to the co-receptor binding site (CoRbs) in the pre-receptor-engaged state, prior to cell attachment, remains poorly understood. Here, we have demonstrated that for tier-1 Envs, the CoRbs is directly accessible to full-length CD4-induced (CD4i) antibodies even before primary receptor engagement, indicating that on these Envs the CoRbs site is either preformed or can conformationally sample post-CD4-bound state. Tier-2 and tier-3 Envs, which are resistant to full-length CD4i antibody, are neutralized by m36.4, a lower molecular mass of CD4i-directed domain antibody. In some tier-2 and tier-3 Envs, CoRbs is accessible to m36.4 even prior to cellular attachment in an Env-specific manner independent of their tier category. These data suggest differential structural arrangements of CoRbs and varied masking of ligand access to the CoRbs in different Env isolates. Copyright © 2018 Elsevier Inc. All rights reserved.

Surface-water quality at fixed sites in the Western Lake Michigan Drainages, Wisconsin and Michigan, and the effects of natural and human factors, 1993-95

USGS Publications Warehouse

Richards, K.D.; Sullivan, D.J.; Stewart, J.S.

1998-01-01

Streamwater samples were collected from April 1993 through July 1995 at 11 fixed sites in the Western Lake Michigan Drainages Study Unit of the U.S. Geological Survey's National Water-Quality Assessment Program. Water samples were collected monthly at all Fixed Sites, and an additional two to four samples were collected each year during periods of high flow. Streamflow was monitored continuously at the Fixed Sites for the duration of the study period. This report describes field techniques used to collect the water samples, and the analytical methods used for laboratory analyses, statistical analyses of the data, and an attempt to determine the effect of natural and anthropogenic factors on concentrations of nutrients and selected major ions and suspended solids. Locations of eight of the Fixed Sites were selected to represent areas with unique combinations of land use/land cover, surficial deposits, and bedrock geology and are referred to as 'indicator sites.' The remaining three sites were located near the mouths of major rivers and are referred to as 'integrator sites.' The integrator sites represent a large part of the total flow from the Study Unit to Green Bay and western Lake Michigan, and drain various combinations of land use, bedrock, and surficial deposits. These data indicate that land use and surficial deposits may be the primary factors affecting nitrate and total phosphorus concentrations in this Study Unit. Median concentrations of nitrate at the forested sites were less than the National Median Concentration (NMC), and those at urban fixed sites were similar to the NMC. Median nitrate concentrations at the Tomorrow River, North Branch Milwaukee River, and Duck Creek agricultural indicator sites were twice the NMC, but median concentrations at the remaining agricultural indicator sites were similar to the NMC. Nitrate concentrations at one agricultural indicator site exceeded the U. S. Environmental Protection Agency (USEPA) maximum contaminant level in three run-off samples in the growing seasons of 1994 and 1995. Median concentrations of total phosphorus at the forested indicator sites were below the NMC. Tomorrow River was the only agricultural indicator site where the median total-phosphorus concentration was less than the NMC; median concentrations at the remaining agricultural Fixed Sites were similar to the NMC and exceeded 0.1 mg/L, the USEPA suggested total-phosphorus concentration in flowing water. The USEPA recommends that total-phosphorus concentration not exceed this limit to discourage excessive aquatic plant growth in flowing waters. Median total-phosphorus concentration at the urban indicator site was less than the urban NMC. Median concentrations for both nitrate and total phosphorus at the mouth of the Fox River and the Milwaukee River integrator sites were similar to the NMC for the dominant land use, agriculture, within their basins, and were lower than that at the Menominee River integrator site with a dominant forest land use. During this study, potassium concentrations were generally highest in areas of clay-dominated surficial deposits, silica was generally highest in areas of sandy surficial deposits, iron generally highest in areas of igneous/metamorphic bedrock, and calcium generally highest in areas of carbonate bedrock. The highest median fluoride concentration occurred at an urban site that receives treated water.

[Clinical significance of four quadrant localization in the diagnosis and treatment of metastatic carcinoma of the neck with unknown primary].

PubMed

Gao, Y Y; Chen, X H

2017-06-05

Objective: The aim of this study is to investigate the clinical significance of four quadrant localization in the diagnosis and treatment of unknown primary cervical metastases. Method: The clinical data with unknown primary cervical metastases, were analyzed retrospectively. All the patients have not been found the original site in the initial treatment. There are four quadrants in the neck, the neck line as the longitudinal axis, and edge of cricoid cartilage as the horizontal axis. When cervical metastasis occurred in the left and right upper quadrant, the primary tumor site and radiotherapy from the skull base to the root of the neck; when appear in left and right lower quadrant, the primary investigation site and radiotherapy from neck to thoracic mediastinum, left lower abdomen also includes following primary search. At the same time, bilateral cervical metastasis cancers, focusing on the central line near the primary focus. Specific treatment strategies include ipsilateral total neck dissection and radical radiotherapy of the above radiotherapy site. Result: Left upper neck in 4 cases, right upper neck in 5 cases, left lower neck in 7 cases, lower right neck in 8 cases and mixed area in 6 cases. Only 10 of 30 patients (33.3%) with primary sites were found in the follow up period. In accordance with the four quadrant localization, the median time was 6 months. Conclusion: Four quadrant localization to locate the primary site is accurate, and individualized comprehensive treatment is the key to improve the curative effect. Copyright© by the Editorial Department of Journal of Clinical Otorhinolaryngology Head and Neck Surgery.

Mutation Rate Variation is a Primary Determinant of the Distribution of Allele Frequencies in Humans

PubMed Central

Pritchard, Jonathan K.

2016-01-01

The site frequency spectrum (SFS) has long been used to study demographic history and natural selection. Here, we extend this summary by examining the SFS conditional on the alleles found at the same site in other species. We refer to this extension as the “phylogenetically-conditioned SFS” or cSFS. Using recent large-sample data from the Exome Aggregation Consortium (ExAC), combined with primate genome sequences, we find that human variants that occurred independently in closely related primate lineages are at higher frequencies in humans than variants with parallel substitutions in more distant primates. We show that this effect is largely due to sites with elevated mutation rates causing significant departures from the widely-used infinite sites mutation model. Our analysis also suggests substantial variation in mutation rates even among mutations involving the same nucleotide changes. In summary, we show that variable mutation rates are key determinants of the SFS in humans. PMID:27977673

Water and Streambed Sediment Quality, and Ecotoxicology of a Stream along the Blue Ridge Parkway, Adjacent to a Closed Landfill, near Roanoke, Virginia: 1999

USGS Publications Warehouse

Ebner, Donna Belval; Cherry, Donald S.; Currie, Rebecca J.

2004-01-01

A study was done of the effects of a closed landfill on the quality of water and streambed sediment and the benthic macroinvertebrate community of an unnamed stream and its tributary that flow through Blue Ridge Parkway lands in west-central Virginia. The primary water source for the tributary is a 4-inch polyvinyl chloride (PVC) pipe that protrudes from the slope at the base of the embankment bordering the landfill. An unusual expanse of precipitate was observed in the stream near the PVC pipe. Stream discharge was measured and water and streambed sediment samples were collected at a nearby reference site and at three sites downstream of the landfill in April and September 1999. Water samples were analyzed for major ions, nitrate, total and dissolved metals, total dissolved solids, total organic carbon, and volatile and semivolatile organic compounds, including organochlorine pesticides and polychlorinated biphenyls (PCBs). Streambed sediment samples were analyzed for total metals, total organic carbon, percent moisture, and volatile and semivolatile organic compounds, including organochlorine pesticides and PCBs. The benthic macroinvertebrate community within the stream channel also was sampled at the four chemical sampling sites and at one additional site in April and September. Each of the five sites was assessed for physical habitat quality. Water collected periodically at the PVC pipe discharge between November 1998 and November 1999 was used to conduct 48-hour acute and 7-day chronic toxicity tests using selected laboratory test organisms. Two 10-day chronic toxicity tests of streambed sediments collected near the discharge pipe also were conducted. Analyses showed that organic and inorganic constituents in water from beneath the landfill were discharged into the sampled tributary. In April, 79 percent of inorganic constituents detected in water had their highest concentrations at the site closest to the landfill; at the same site, 59 percent of inorganic constituents detected in streambed sediments were at their lowest concentration. The low dissolved-oxygen concentration and relatively low pH in ground water from beneath the landfill probably had a direct effect on the solubility of metals and other constituents, resulting in the high concentration of inorganic constituents in water, low concentration in sediment, and the development of the precipitate. Most constituents in water in April were progressively lower in concentration from the landfill site downstream. The highest concentrations for 59 percent of constituents detected in sediment were at the farthest downstream site, suggesting that the inorganic constituents came out of solution as the stream water was exposed to the atmosphere. In September, 52 percent of inorganic constituents detected in water were at their highest concentrations at the site nearest the landfill. Of inorganic constituents detected in streambed sediments in September, 60 percent were at their highest concentrations near the landfill. A storm that occurred a few days prior to the September sampling probably affected the preceding steady-state conditions and the distribution of constituents in sediment along the stream. Concentrations of many inorganic constituents in water remained elevated at the farthest downstream site in comparison to the reference site in April and September, indicating that concentrations did not return to background concentrations. In April and September, most of the 17 organic compounds detected in water, including volatile organic and semivolatile organic compounds, were collected in samples near the landfill, and most concentrations were below their respective reporting limits. Probably because of their volatility, few organic compounds were detected at sites downstream of that site. A total of 17 discrete organic compounds were detected in sediment samples in either April or September, including trichloroethene and tetrachloroethene along with their degrad

DEVELOPMENT AND DEPLOYMENT OF VACUUM SALT DISTILLATION AT THE SAVANNAH RIVER SITE

DOE Office of Scientific and Technical Information (OSTI.GOV)

Pierce, R.; Pak, D.; Edwards, T.

2010-10-28

The Savannah River Site has a mission to dissolve fissile materials and disposition them. The primary fissile material is plutonium dioxide (PuO{sub 2}). To support dissolution of these materials, the Savannah River National Laboratory (SRNL) designed and demonstrated a vacuum salt distillation (VSD) apparatus using both representative radioactive samples and non-radioactive simulant materials. Vacuum salt distillation, through the removal of chloride salts, increases the quantity of materials suitable for processing in the site's HB-Line Facility. Small-scale non-radioactive experiments at 900-950 C show that >99.8 wt % of the initial charge of chloride salt distilled from the sample boat with recoverymore » of >99.8 wt % of the ceric oxide (CeO{sub 2}) - the surrogate for PuO{sub 2} - as a non-chloride bearing 'product'. Small-scale radioactive testing in a glovebox demonstrated the removal of sodium chloride (NaCl) and potassium chloride (KCl) from 13 PuO{sub 2} samples. Chloride concentrations were distilled from a starting concentration of 1.8-10.8 wt % to a final concentration <500 mg/kg chloride. Initial testing of a non-radioactive, full-scale production prototype is complete. A designed experiment evaluated the impact of distillation temperature, time at temperature, vacuum, product depth, and presence of a boat cover. Significant effort has been devoted to mechanical considerations to facilitate simplified operation in a glovebox.« less

Asymmetric Responses of Primary Productivity to Altered Precipitation Simulated by Land Surface Models across Three Long-term Grassland Sites

NASA Astrophysics Data System (ADS)

Wu, D.; Ciais, P.; Viovy, N.; Knapp, A.; Wilcox, K.; Bahn, M.; Smith, M. D.; Ito, A.; Arneth, A.; Harper, A. B.; Ukkola, A.; Paschalis, A.; Poulter, B.; Peng, C.; Reick, C. H.; Hayes, D. J.; Ricciuto, D. M.; Reinthaler, D.; Chen, G.; Tian, H.; Helene, G.; Zscheischler, J.; Mao, J.; Ingrisch, J.; Nabel, J.; Pongratz, J.; Boysen, L.; Kautz, M.; Schmitt, M.; Krohn, M.; Zeng, N.; Meir, P.; Zhang, Q.; Zhu, Q.; Hasibeder, R.; Vicca, S.; Sippel, S.; Dangal, S. R. S.; Fatichi, S.; Sitch, S.; Shi, X.; Wang, Y.; Luo, Y.; Liu, Y.; Piao, S.

2017-12-01

Changes in precipitation variability including the occurrence of extreme events strongly influence plant growth in grasslands. Field measurements of aboveground net primary production (ANPP) in temperate grasslands suggest a positive asymmetric response with wet years resulting in ANPP gains larger than ANPP declines in dry years. Whether land surface models used for historical simulations and future projections of the coupled carbon-water system in grasslands are capable to simulate such non-symmetrical ANPP responses remains an important open research question. In this study, we evaluate the simulated responses of grassland primary productivity to altered precipitation with fourteen land surface models at the three sites of Colorado Shortgrass Steppe (SGS), Konza prairie (KNZ) and Stubai Valley meadow (STU) along a rainfall gradient from dry to wet. Our results suggest that: (i) Gross primary production (GPP), NPP, ANPP and belowground NPP (BNPP) show nonlinear response curves (concave-down) in all the models, but with different curvatures and mean values. In contrast across the sites, primary production increases and then saturates along increasing precipitation with a flattening at the wetter site. (ii) Slopes of spatial relationships between modeled primary production and precipitation are steeper than the temporal slopes (obtained from inter-annual variations). (iii) Asymmetric responses under nominal precipitation range with modeled inter-annual primary production show large uncertainties, and model-ensemble median generally suggests negative asymmetry (greater declines in dry years than increases in wet years) across the three sites. (iv) Primary production at the drier site is predicted to more sensitive to precipitation compared to wetter site, and median sensitivity consistently indicates greater negative impacts of reduced precipitation than positive effects of increased precipitation under extreme conditions. This study implies that most models overemphasize the drought effects or underestimate the watering impacts on primary production in the normal-state, with the direct consequence that carbon-water interactions need to be improved in future model generations with improved mechanistic representations.

Control of Methane Production and Exchange in Northern Peatlands

NASA Technical Reports Server (NTRS)

Crill, Patrick

1997-01-01

This proposal has successfully supported studies that have developed unique long ten-n datasets of methane (CH4) emissions and carbon dioxide (CO2) exchange in order to quantify the controls on CH4 production and exchange especially the linkages to the carbon cycle in northern peatlands. The primary research site has been a small fen in southeastern New Hampshire where a unique multi-year data baseline of CH4 flux measurements was begun (with NASA funding) in 1989. The fen has also been instrumented for continuous hydrological and meteorological observations and year-round porewater sampling. Multiyear datasets of methane flux are very valuable and very rare. Datasets using the same sampling techniques at the same sites are the only way to assess the effect of the integrated ecosystem response to climatological variability. The research has had two basic objectives: 1. To quantify the effect of seasonal and interannual variability on CH4flux. 2. To examine process level controls on methane dynamics.

Predicted stand volume for Eucalyptus plantations by spatial analysis

NASA Astrophysics Data System (ADS)

Latifah, Siti; Teodoro, RV; Myrna, GC; Nathaniel, CB; Leonardo, M. F.

2018-03-01

The main objective of the present study was to assess nonlinear models generated by integrating the stand volume growth rate to estimate the growth and yield of Eucalyptus. The primary data was done for point of interest (POI) of permanent sample plots (PSPs) and inventory sample plots, in Aek Nauli sector, Simalungun regency,North Sumatera Province,Indonesia. from December 2008- March 2009. Today,the demand for forestry information has continued to grow over recent years. Because many forest managers and decision makers face complex decisions, reliable information has become the necessity. In the assessment of natural resources including plantation forests have been widely used geospatial technology.The yield of Eucalyptus plantations represented by merchantable volume as dependent variable while factors affecting yield namely stands variables and the geographic variables as independent variables. The majority of the areas in the study site has stand volume class 0 - 50 m3/ha with 16.59 ha or 65.85 % of the total study site.

Fluoride abundance and controls in fresh groundwater in Quaternary deposits and bedrock fractures in an area with fluorine-rich granitoid rocks.

PubMed

Berger, Tobias; Mathurin, Frédéric A; Drake, Henrik; Åström, Mats E

2016-11-01

This study focuses on fluoride (F(-)) concentrations in groundwater in an area in northern Europe (Laxemar, southeast Sweden) where high F(-) concentrations have previously been found in surface waters such as streams and quarries. Fluoride concentrations were determined over time in groundwater in the Quaternary deposits ("regolith groundwater"), and with different sampling techniques from just beneath the ground surface to nearly -700m in the bedrock (fracture) groundwater. A number of potential controls of dissolved F(-) were studied, including geological variables, mineralogy, mineral chemistry and hydrology. In the regolith groundwater the F(-) concentrations (0.3-4.2mg/L) were relatively stable over time at each sampling site but varied widely among the sampling sites. In these groundwaters, the F(-) concentrations were uncorrelated with sample (filter) depth and the water table in meters above sea level (masl), with the thicknesses of the groundwater column and the regolith, and with the distribution of soil types at the sampling sites. Fluoride concentrations were, however, correlated with the anticipated spatial distribution of erosional material (till) derived from a F-rich circular granite intrusion. Abundant release of F(-) from such material is thus suggested, primarily via dissolution of fluorite and weathering of biotite. In the fresh fracture groundwater, the F(-) concentrations (1.2-7.4mg/L) were generally higher than in the regolith groundwater, and were uncorrelated with depth and with location relative to the granite intrusion. Two mechanisms explaining the overall high F(-) levels in the fracture groundwater were addressed. First, weathering/dissolution of fluorite, bastnäsite and apophyllite, which are secondary minerals formed in the fractures during past hydrothermal events, and biotite which is a primary mineral exposed on fracture walls. Second, long water-residence times, favoring water-rock interaction and build-up of high dissolved F(-) concentrations. The findings are relevant in contexts of extraction of groundwater for drinking-water purposes. Copyright © 2016 Elsevier B.V. All rights reserved.

Paleomagnetism of Neoproterozoic cap carbonates of the Sao Francisco and Amazonian cratons, Brazil

NASA Astrophysics Data System (ADS)

Trindade, R. I. F.; Dagrella-Filho, M. S.; Figueiredo, F. T.; Font, E.; Babinski, M.; Nogueira, A. C. R.; Riccomini, C.

2003-04-01

The low-latitude paleomagnetic record of some Neoproterozoic glacial successions has long been used as an evidence for dramatic changes in Earth climate (Snowball Earth events). But the test for such events demands a global-scale paleomagnetic database in the Neoproterozoic glacial/carbonate successions. In order to better constrain these extreme climatic events, an extensive paleomagnetic survey has been conducted in carbonates that cap the Neoproterozoic glacial rocks of the Sao Francisco (SFC) and Amazonian (AMC) cratons, Brazil. In the SFC, sampling was performed at 104 sites (horizontal beds) distributed at two sectors (north and south), about 1.000 km apart, within the stable area of the craton. In the AMC, sampling included 15 sites in undeformed, sub-horizontal beds, and 25 sites along the limbs of regional folds in the margin of the craton. After paleomagnetic cleaning, most samples from both SFC and AMC yielded similar PGVs (mean SFC: 32°N, 322°E (A95=2.8, K=65.3); mean AMC: 31°N, 336°E (A95=6.8, K=46.2)). Pb-Pb ages around 520 Ma for SFC samples, a negative fold-test for AMC samples, and the coincidence of these poles with 520 Ma Gondwanan reference poles after rotation of South America to Africa, suggest a continental-scale remagnetization by this time. Some sites from both cratons, however, seem to have not been affected by the Cambrian remagnetization. Two mean poles were calculated for SFC and AMC for which consistent reversals could be recorded, suggesting a primary nature for the characteristic magnetization (mean SFC pole: 66°S, 198°E (A95=5.4, K=47.5); mean AMC pole: 77°S, 66°E (A95=8.8, K=47.7)). These results indicate a moderate latitude (51°) for the SFC Bebedouro (Sturtian) glaciation and a low latitude (24°) for the AMC Puga (Varanger) glaciation, and reinforces the hypothesis of Neoproterozoic global-scale ice-ages.

Pain and learning in primary school: a population-based study.

PubMed

Kosola, Silja; Mundy, Lisa K; Sawyer, Susan M; Canterford, Louise; van der Windt, Danielle A; Dunn, Kate M; Patton, George C

2017-09-01

Despite the frequency of pain among children, little is known about its effects on learning and school outcomes. The objective of this study was to quantify the association of pain and academic achievement while taking into account the presence of co-occurring emotional symptoms. A population-based stratified random sample of 1239 students aged 8 to 9 years from primary schools in Melbourne, Australia, was recruited for the Childhood to Adolescence Transition Study. Children indicated sites of pain that had lasted for a day or longer in the past month using a pain manikin. Depressive- and anxiety-related symptoms were assessed using child-reported items. National assessment results for reading and numeracy were used to measure academic achievement. Sixty-five percent of children reported pain in at least 1 body site and 16% reported chronic pain. Increasing number of pain sites was associated with poorer reading scores in a dose-response fashion (β = -3.1; 95% confidence interval -4.9 to -1.3; P < 0.001). The association was only partly attenuated when adjusting for emotional symptoms (β = -2.6; 95% confidence interval -4.5 to -0.8; P < 0.001) and was not moderated by emotional symptoms. Children with chronic pain were a year behind their peers in both reading and numeracy. Among primary school students, pain was associated with lower reading scores even after adjusting for the presence of emotional symptoms. Although population-based longitudinal studies will be required to ascertain consistency and possible causality, grounds exist for considering pain and emotional symptoms in the assessment of children with reading difficulties.

Bringing Wellness to Schools: Opportunities for and Challenges to Mental Health Integration in School-Based Health Centers.

PubMed

Lai, Karen; Guo, Sisi; Ijadi-Maghsoodi, Roya; Puffer, Maryjane; Kataoka, Sheryl H

2016-12-01

School-based health centers (SBHCs) reduce access barriers to mental health care and improve educational outcomes for youths. This qualitative study evaluated the innovations and challenges of a unique network of SBHCs in a large, urban school district as the centers attempted to integrate health, mental health, and educational services. The 43 participants sampled included mental health providers, primary care providers, and care coordinators at 14 SBHCs. Semistructured interviews with each participant were audio recorded and transcribed. Themes were identified and coded by using Atlas.ti 5.1 and collapsed into three domains: operations, partnership, and engagement. Interviews revealed provider models ranging from single agencies offering both primary care and mental health services to colocated services. Sites where the health agency provided at least some mental health services reported more mental health screenings. Many sites used SBHC wellness coordinators and coordination team meetings to facilitate relationships between schools and health agency and community mental health clinic providers. Partnership challenges included confidentiality policies and staff turnover. Participants also highlighted student and parent engagement through culturally sensitive services, peer health advocates, and "drop-in" lunches. Staffing and operational models are critical in the success of integrating primary care, mental health care, and education. Among the provider models observed, the combined primary care and mental health provider model offered the most integrated services. Despite barriers, providers and schools have begun to implement novel solutions to operational problems and family engagement in mental health services.

Divided and Sliding Superficial Temporal Artery Flap for Primary Donor-site Closure

PubMed Central

Sugio, Yuta; Seike, Shien; Hosokawa, Ko

2016-01-01

Summary: Superficial temporal artery (STA) flaps are often used for reconstruction of hair-bearing areas. However, primary closure of the donor site is not easy when the size of the necessary skin island is relatively large. In such cases, skin grafts are needed at the donor site, resulting in baldness. We have solved this issue by applying the divided and sliding flap technique, which was first reported for primary donor-site closure of a latissimus dorsi musculocutaneous flap. We applied this technique to the hair-bearing STA flap, where primary donor-site closure is extremely beneficial for preventing baldness consequent to skin grafting. The STA flap was divided into 3, and creation of large flap was possible. Therefore, we concluded that the divided and sliding STA flap could at least partially solve the donor-site problem. Although further investigation is necessary to validate the maximum possible flap size, this technique may be applicable to at least small defects that are common after skin cancer ablation or trauma. PMID:27975020

Site-level evaluation of satellite-based global terrestrial gross primary production and net primary production monitoring.

Treesearch

David P. Turner; William D. Ritts; Warren B. Cohen; Thomas K. Maeirsperger; Stith T. Gower; Al A. Kirschbaum; Steve W. Runnings; Maosheng Zhaos; Steven C. Wofsy; Allison L. Dunn; Beverly E. Law; John L. Campbell; Walter C. Oechel; Hyo Jung Kwon; Tilden P. Meyers; Eric E. Small; Shirley A. Kurc; John A. Gamon

2005-01-01

Operational monitoring of global terrestrial gross primary production (GPP) and net primary production (NPP) is now underway using imagery from the satellite-borne Moderate Resolution Imaging Spectroradiometer (MODIS) sensor. Evaluation of MODIS GPP and NPP products will require site-level studies across a range of biomes, with close attention to numerous scaling...

RADON LEVELS AND ЕQUIVALENT DOSE RATES AT THE IRT-SOFIA RESEARCH REACTOR SITE.

PubMed

Krezhov, Kiril; Mladenov, Aleksander; Dimitrov, Dobromir

2018-06-11

Results from radon measurements by active sampling of indoor air in the buildings within the Nuclear Scientific Experimental and Educational Centre (NSEEC) protected site at the Institute for Nuclear Research and Nuclear Energy (INRNE) are presented. The inspected buildings included in this report are the IRT research reactor structure and several auxiliary formations wherein the laundry facilities and the gamma irradiator GOU-1 (60Co source) are installed as well as the Central Alarm Station (CAS) premises. Besides the reactor hall and the primary cooling loop area, special attention was given to the premises of the First Class Radiochemical Laboratory in the IRT reactor basement. Determination of radon concentration distribution in the premises of the constructions within the site is an important part of radiation surveillance during the operation and maintenance of the NSEEC facilities as well as for their involvement in the educational activities at INRNE.

Effects of stimulation parameters and electrode location on thresholds for epidural stimulation of cat motor cortex

NASA Astrophysics Data System (ADS)

Wongsarnpigoon, Amorn; Grill, Warren M.

2011-12-01

Epidural electrical stimulation (ECS) of the motor cortex is a developing therapy for neurological disorders. Both placement and programming of ECS systems may affect the therapeutic outcome, but the treatment parameters that will maximize therapeutic outcomes and minimize side effects are not known. We delivered ECS to the motor cortex of anesthetized cats and investigated the effects of electrode placement and stimulation parameters on thresholds for evoking motor responses in the contralateral forelimb. Thresholds were inversely related to stimulation frequency and the number of pulses per stimulus train. Thresholds were lower over the forelimb representation in motor cortex (primary site) than surrounding sites (secondary sites), and thresholds at sites <4 mm away from the primary site were significantly lower than at sites >4 mm away. Electrode location and montage influenced the effects of polarity on thresholds: monopolar anodic and cathodic thresholds were not significantly different over the primary site, cathodic thresholds were significantly lower than anodic thresholds over secondary sites and bipolar thresholds were significantly lower with the anode over the primary site than with the cathode over the primary site. A majority of bipolar thresholds were either between or equal to the respective monopolar thresholds, but several bipolar thresholds were greater than or less than the monopolar thresholds of both the anode and cathode. During bipolar stimulation, thresholds were influenced by both electric field superposition and indirect, synaptically mediated interactions. These results demonstrate the influence of stimulation parameters and electrode location during cortical stimulation, and these effects should be considered during the programming of systems for therapeutic cortical stimulation.

CpG Methylation Analysis of HPV16 in Laser Capture Microdissected Archival Tissue and Whole Tissue Sections from High Grade Anal Squamous Intraepithelial Lesions: A Potential Disease Biomarker

PubMed Central

Molano, Monica; Tabrizi, Sepehr N.; Garland, Suzanne M.; Roberts, Jennifer M.; Machalek, Dorothy A.; Phillips, Samuel; Chandler, David; Hillman, Richard J.; Grulich, Andrew E.; Jin, Fengyi; Poynten, I. Mary; Templeton, David J.; Cornall, Alyssa M.

2016-01-01

Incidence and mortality rates of anal cancer are increasing globally. More than 90% of anal squamous cell carcinomas (ASCC) are associated with human papillomavirus (HPV). Studies on HPV-related anogenital lesions have shown that patterns of methylation of viral and cellular DNA targets could potentially be developed as disease biomarkers. Lesion-specific DNA isolated from formalin-fixed paraffin-embedded (FFPE) tissues from existing or prospective patient cohorts may constitute a valuable resource for methylation analysis. However, low concentrations of DNA make these samples technically challenging to analyse using existing methods. We therefore set out to develop a sensitive and reproducible nested PCR-pyrosequencing based method to accurately quantify methylation at 10 CpG sites within the E2BS1, E2BS2,3,4 and Sp1 binding sites in the viral upstream regulatory region of HPV16 genome. Methylation analyses using primary and nested PCR-pyrosequencing on 52 FFPE tissue [26 paired whole tissue sections (WTS) and laser capture microdissected (LCM) tissues] from patients with anal squamous intraepithelial lesions was performed. Using nested PCR, methylation results were obtained for the E2BS1, E2BS2,3,4 and Sp1 binding sites in 86.4% of the WTS and 81.8% of the LCM samples. Methylation patterns were strongly correlated within median values of matched pairs of WTS and LCM sections, but overall methylation was higher in LCM samples at different CpG sites. High grade lesions showed low methylation levels in the E2BS1 and E2BS2 regions, with increased methylation detected in the E2BS,3,4/Sp1 regions, showing the highest methylation at CpG site 37. The method developed is highly sensitive in samples with low amounts of DNA and demonstrated to be suitable for archival samples. Our data shows a possible role of specific methylation in the HPV16 URR for detection of HSIL. PMID:27529629

CpG Methylation Analysis of HPV16 in Laser Capture Microdissected Archival Tissue and Whole Tissue Sections from High Grade Anal Squamous Intraepithelial Lesions: A Potential Disease Biomarker.

PubMed

Molano, Monica; Tabrizi, Sepehr N; Garland, Suzanne M; Roberts, Jennifer M; Machalek, Dorothy A; Phillips, Samuel; Chandler, David; Hillman, Richard J; Grulich, Andrew E; Jin, Fengyi; Poynten, I Mary; Templeton, David J; Cornall, Alyssa M

2016-01-01

Incidence and mortality rates of anal cancer are increasing globally. More than 90% of anal squamous cell carcinomas (ASCC) are associated with human papillomavirus (HPV). Studies on HPV-related anogenital lesions have shown that patterns of methylation of viral and cellular DNA targets could potentially be developed as disease biomarkers. Lesion-specific DNA isolated from formalin-fixed paraffin-embedded (FFPE) tissues from existing or prospective patient cohorts may constitute a valuable resource for methylation analysis. However, low concentrations of DNA make these samples technically challenging to analyse using existing methods. We therefore set out to develop a sensitive and reproducible nested PCR-pyrosequencing based method to accurately quantify methylation at 10 CpG sites within the E2BS1, E2BS2,3,4 and Sp1 binding sites in the viral upstream regulatory region of HPV16 genome. Methylation analyses using primary and nested PCR-pyrosequencing on 52 FFPE tissue [26 paired whole tissue sections (WTS) and laser capture microdissected (LCM) tissues] from patients with anal squamous intraepithelial lesions was performed. Using nested PCR, methylation results were obtained for the E2BS1, E2BS2,3,4 and Sp1 binding sites in 86.4% of the WTS and 81.8% of the LCM samples. Methylation patterns were strongly correlated within median values of matched pairs of WTS and LCM sections, but overall methylation was higher in LCM samples at different CpG sites. High grade lesions showed low methylation levels in the E2BS1 and E2BS2 regions, with increased methylation detected in the E2BS,3,4/Sp1 regions, showing the highest methylation at CpG site 37. The method developed is highly sensitive in samples with low amounts of DNA and demonstrated to be suitable for archival samples. Our data shows a possible role of specific methylation in the HPV16 URR for detection of HSIL.

Sleep habits, insomnia, and daytime sleepiness in a large and healthy community-based sample of New Zealanders.

PubMed

Wilsmore, Bradley R; Grunstein, Ronald R; Fransen, Marlene; Woodward, Mark; Norton, Robyn; Ameratunga, Shanthi

2013-06-15

To determine the relationship between sleep complaints, primary insomnia, excessive daytime sleepiness, and lifestyle factors in a large community-based sample. Cross-sectional study. Blood donor sites in New Zealand. 22,389 individuals aged 16-84 years volunteering to donate blood. N/A. A comprehensive self-administered questionnaire including personal demographics and validated questions assessing sleep disorders (snoring, apnea), sleep complaints (sleep quantity, sleep dissatisfaction), insomnia symptoms, excessive daytime sleepiness, mood, and lifestyle factors such as work patterns, smoking, alcohol, and illicit substance use. Additionally, direct measurements of height and weight were obtained. One in three participants report < 7-8 h sleep, 5 or more nights per week, and 60% would like more sleep. Almost half the participants (45%) report suffering the symptoms of insomnia at least once per week, with one in 5 meeting more stringent criteria for primary insomnia. Excessive daytime sleepiness (evident in 9% of this large, predominantly healthy sample) was associated with insomnia (odds ratio [OR] 1.75, 95% confidence interval [CI] 1.50 to 2.05), depression (OR 2.01, CI 1.74 to 2.32), and sleep disordered breathing (OR 1.92, CI 1.59 to 2.32). Long work hours, alcohol dependence, and rotating work shifts also increase the risk of daytime sleepiness. Even in this relatively young, healthy, non-clinical sample, sleep complaints and primary insomnia with subsequent excess daytime sleepiness were common. There were clear associations between many personal and lifestyle factors-such as depression, long work hours, alcohol dependence, and rotating shift work-and sleep problems or excessive daytime sleepiness.

Lymphoscintigraphy defines new lymphatic pathways from cutaneous melanoma site: clinical implications and surgical management.

PubMed

Marone, Ugo; Aloj, Luigi; Di Monta, Gianluca; Caracò, Corrado

2011-01-01

Sentinel lymph node biopsy is commonly applied as staging procedure of regional lymph nodes in patients with cutaneous melanoma. Dynamic lymphoscintigraphy defines the lymphatic pathways from a primary melanoma site and allows to identify the node receiving lymphatic drainage from the primary tumor, which is the sentinel lymph node. In rare cases, lymphoscintigraphy shows sites of lymphatic drainage in nonclassical basins never described in the past when lymphatic drainage was considered only according to the anatomical proximity of the tumor primary site. These peculiar sentinel nodes, so-called "uncommon/interval" nodes, must be surgically removed because they may contain micrometastatic disease and may be the only site of nodal involvement.

Lymphoscintigraphy Defines New Lymphatic Pathways from Cutaneous Melanoma Site: Clinical Implications and Surgical Management

PubMed Central

Marone, Ugo; Aloj, Luigi; Di Monta, Gianluca; Caracò, Corrado

2011-01-01

Sentinel lymph node biopsy is commonly applied as staging procedure of regional lymph nodes in patients with cutaneous melanoma. Dynamic lymphoscintigraphy defines the lymphatic pathways from a primary melanoma site and allows to identify the node receiving lymphatic drainage from the primary tumor, which is the sentinel lymph node. In rare cases, lymphoscintigraphy shows sites of lymphatic drainage in nonclassical basins never described in the past when lymphatic drainage was considered only according to the anatomical proximity of the tumor primary site. These peculiar sentinel nodes, so-called “uncommon/interval” nodes, must be surgically removed because they may contain micrometastatic disease and may be the only site of nodal involvement. PMID:22242203

Nevada National Security Site 2014 Data Report: Groundwater Monitoring Program Area 5 Radioactive Waste Management Site

DOE Office of Scientific and Technical Information (OSTI.GOV)

Hudson, David

2015-02-01

This report is a compilation of the groundwater sampling results from the Area 5 Radioactive Waste Management Site (RWMS) at the Nevada National Security Site, Nye County, Nevada. Groundwater samples from the aquifer immediately below the Area 5 RWMS have been collected and analyzed and static water levels have been measured in this aquifer since 1993. This report updates these data to include the 2014 results. Analysis results for leachate contaminants collected from the mixed-waste cell at the Area 5 RWMS (Cell 18) are also included. During 2014, groundwater samples were collected and static water levels were measured at threemore » wells surrounding the Area 5 RWMS. Groundwater samples were collected at wells UE5PW-1, UE5PW-2, and UE5PW-3 on March 11 and August 12, 2014, and static water levels were measured at each of these wells on March 10, June 2, August 11, and October 14, 2014. Groundwater samples were analyzed for the following indicators of contamination: pH, specific conductance, total organic carbon, total organic halides, and tritium. General water chemistry (cations and anions) was also measured. Results from samples collected in 2014 are within the limits established by agreement with the Nevada Division of Environmental Protection for each analyte. The data from the shallow aquifer indicate that there has been no measurable impact to the uppermost aquifer from the Area 5 RWMS, and there were no significant changes in measured groundwater parameters compared to previous years. Leachate from above the primary liner of Cell 18 drains into a sump and is collected in a tank at the ground surface. Cell 18 began receiving waste in January 2011. Samples were collected from the tank when the leachate volume approached the 3,000-gallon tank capacity. Leachate samples have been collected 16 times since January 2011. During 2014, samples were collected on February 25, March 5, May 20, August 12, September 16, November 11, and December 16. Each leachate sample was analyzed for toxicity characteristic contaminants and polychlorinated biphenyls (PCB). Beginning with the sample from July 31, 2013, pH and specific conductance were also measured. Leachate analysis results show no evidence of contamination. Results for toxicity characteristic contaminants are all below regulatory levels and analysis quantification limits. No quantifiable PCB levels were detected in any sample. Results for pH and specific conductance are also within expected ranges. After analysis, leachate was pumped from the collection tank and used in Cell 18 for dust control. The report contains an updated cumulative chronology for the Area 5 RWMS Groundwater Monitoring Program and a brief description of the site hydrogeology.« less

Geotechnical, geological, and selected radionuclide retention characteristics of the radioactive waste disposal site near the Farallon Islands

USGS Publications Warehouse

Booth, J.S.; Winters, W.J.; Poppe, L.J.; Neiheisel, J.; Dyer, R.S.

1989-01-01

A geotechnical and geological investigation of the Farallon Islands low-level radioactive waste (LLW) disposal area was conducted to qualitatively assess the host sediments' relative effectiveness as a barrier to radionuclide migration, to estimate the portion of the barrier that is in contact with the waste packages at the three primary disposal sites, and to provide a basic physical description of the sediments. Box cores recovered from within the general disposal area at depths of 500, 1000, and 1500 m were subcored to provide samples (~30 cm in length) for detailed descriptions, textural and mineralogical analyses, and a suite of geotechnical tests (index property, CRS consolidation, and CIU triaxial compression). -from Authors

Evaluation of newly synthesized and commercially available charged cyclomaltooligosaccharides (cyclodextrins) for capillary electrokinetic chromatography.

PubMed

Culha, Mustafa; Schell, Fred M; Fox, Shannon; Green, Thomas; Betts, Thomas; Sepaniak, Michael J

2004-01-22

A highly new charged cyclodextrin (CD) derivatives, (6-O-carboxymethyl-2,3-di-O-methyl)cyclomaltoheptaoses (CDM-beta-CDs), was synthesized and characterized as anionic reagents for capillary electrophoresis (CE) in an electrokinetic chromatography mode of separation. Substitution with dimethyl groups at the secondary hydroxyl sites of the CD is aimed at influencing the magnitude and selectivity of analyte-CD interactions, while substitution by carboxymethyl groups at the primary hydroxyl sites provides for high charge and electrophoretic mobility. Full regioselective methylation at the secondary hydroxyl sites was achieved in this work, while substitution at the primary hydroxyl sites generated a mixture of multiply charged products. The separation performance of CDM-beta-CD was evaluated using a variety of analyte mixtures. The results obtained from commercially available negatively charged cyclodextrins, heptakis(2,3-di-O-methyl-6-O-sulfo)cyclomaltoheptaose (HDMS-beta-CD) and O-(carboxymethyl)cyclomaltoheptaose (CM-beta-CD) with an average degree of substitution one (DS 1), were compared to CDM-beta-CD using a sample composed of eight positional isomers of dihydroxynaphthalene. Four hydroxylated polychlorobiphenyl derivatives, a group of chiral and isomeric catchecins, and chiral binaphthyl compounds were also separated with CDM-beta-CD. The effect of adding neutral beta-cyclodextrin (beta-CD) into the running buffer containing charged cyclodextrins was investigated and provided evidence of significant inter-CD interactions. Under certain running buffer conditions, the charged cyclodextrins also appear to adsorb to the capillary walls to various degrees.

Promoter methylation of APC and RAR-β genes as prognostic markers in non-small cell lung cancer (NSCLC).

PubMed

Feng, Hongxiang; Zhang, Zhenrong; Qing, Xin; Wang, Xiaowei; Liang, Chaoyang; Liu, Deruo

2016-02-01

Aberrant promoter hypermethylations of tumor suppressor genes are promising markers for lung cancer diagnosis and prognosis. The purpose of this study was to determine methylation status at APC and RAR-β promoters in primary NSCLC, and whether they have any relationship with survival. APC and RAR-β promoter methylation status were determined in 41 NSCLC patients using methylation specific PCR. APC promoter methylation was detectable in 9 (22.0%) tumor samples and 6 (14.6%) corresponding non-tumor samples (P=0.391). RAR-β promoter methylation was detectable in 13 (31.7%) tumor samples and 4 (9.8%) corresponding non-tumor samples (P=0.049) in the NSCLC patients. APC promoter methylation was found to be associated with T stage (P=0.046) and nodal status (P=0.019) in non-tumor samples, and with smoking (P=0.004) in tumor samples. RAR-β promoter methylation was found associated with age (P=0.031) in non-tumor samples and with primary tumor site in tumor samples. Patients with APC promoter methylation in tumor samples showed significantly longer survival than patients without it (Log-rank P=0.014). In a multivariate analysis of prognostic factors, APC methylation in tumor samples was an independent prognostic factor (P=0.012), as were N1 positive lymph node number (P=0.025) and N2 positive lymph node number (P=0.06). Our study shows that RAR-β methylation detected in lung tissue may be used as a predictive marker for NSCLC diagnosis and that APC methylation in tumor sample may be a useful marker for superior survival in NSCLC patients. Copyright © 2015. Published by Elsevier Inc.

A New Paradigm for Tissue Diagnostics: Tools and Techniques to Standardize Tissue Collection, Transport, and Fixation.

PubMed

Bauer, Daniel R; Otter, Michael; Chafin, David R

2018-01-01

Studying and developing preanalytical tools and technologies for the purpose of obtaining high-quality samples for histological assays is a growing field. Currently, there does not exist a standard practice for collecting, fixing, and monitoring these precious samples. There has been some advancement in standardizing collection for the highest profile tumor types, such as breast, where HER2 testing drives therapeutic decisions. This review examines the area of tissue collection, transport, and monitoring of formalin diffusion and details a prototype system that could be used to help standardize tissue collection efforts. We have surveyed recent primary literature sources and conducted several site visits to understand the most error-prone processes in histology laboratories. This effort identified errors that resulted from sample collection techniques and subsequent transport delays from the operating room (OR) to the histology laboratories. We have therefore devised a prototype sample collection and transport concept. The system consists of a custom data logger and cold transport box and takes advantage of a novel cold + warm (named 2 + 2) fixation method. This review highlights the beneficial aspects of standardizing tissue collection, fixation, and monitoring. In addition, a prototype system is introduced that could help standardize these processes and is compatible with use directly in the OR and from remote sites.

DOE Office of Scientific and Technical Information (OSTI.GOV)

NONE

In the Bear Creek Valley Watershed Remedial Investigation, the Boneyard/Burnyard was identified as the source of the largest releases of uranium into groundwater and surface water in Bear Creek Valley. The proposed action for remediation of this site is selective excavation and removal of source material and capping of the remainder of the site. The schedule for this action has been accelerated so that this is the first remedial action planned to be implemented in the Bear Creek Valley Record of Decision. Additional data needs to support design of the remedial action were identified at a data quality objectives meetingmore » held for this project. Sampling at the Boneyard/Burnyard will be conducted through the use of a phased approach. Initial or primary samples will be used to make in-the-field decisions about where to locate follow-up or secondary samples. On the basis of the results of surface water, soil, and groundwater analysis, up to six test pits will be dug. The test pits will be used to provide detailed descriptions of source materials and bulk samples. This document sets forth the requirements and procedures to protect the personnel involved in this project. This document also contains the health and safety plan, quality assurance project plan, waste management plan, data management plan, implementation plan, and best management practices plan for this project as appendices.« less

Use of thyroid-stimulating hormone tests for identifying primary hypothyroidism in family medicine patients.

PubMed

Birk-Urovitz, Elizabeth; Elisabeth Del Giudice, M; Meaney, Christopher; Grewal, Karan

2017-09-01

To assess the use of thyroid-stimulating hormone (TSH) tests for identifying primary hypothyroidism in 2 academic family medicine settings. Descriptive study involving a retrospective electronic chart review of family medicine patients who underwent TSH testing. Two academic family practice sites: one site is within a tertiary hospital in Toronto, Ont, and the other is within a community hospital in Newmarket, Ont. A random sample of 205 adult family medicine patients who had 1 or more TSH tests for identifying potential primary hypothyroidism between July 1, 2009, and September 15, 2013. Exclusion criteria included a previous diagnosis of any thyroid condition or abnormality, as well as pregnancy or recent pregnancy within the year preceding the study period. The proportion of normal TSH test results and the proportion of TSH tests that did not conform to test-ordering guidelines. Of the 205 TSH test results, 200 (97.6%, 95% CI 94.4% to 99.2%) showed TSH levels within the normal range. All 5 patients with abnormal TSH test results had TSH levels above the upper reference limits. Nearly one-quarter (22.4%, 95% CI 16.9% to 28.8%) of tests did not conform to test-ordering guidelines. All TSH tests classified as not conforming to test-ordering guidelines showed TSH levels within normal limits. There was a significant difference ( P < .001) between the proportions of nonconforming TSH tests at the tertiary site (14.3%, 95% CI 8.2% to 22.5%) and the community site (31.0%, 95% CI 22.1% to 41.0%). Preliminary analyses examining which variables might be associated with abnormal TSH levels showed that only muscle cramps or myalgia ( P = .0286) and a history of an autoimmune disorder ( P = .0623) met or approached statistical significance. In this study, the proportion of normal TSH test results in the context of primary hypothyroidism case finding and screening was high, and the overall proportion of TSH tests that did not conform to test-ordering guidelines was relatively high as well. These results highlight a need for more consistent TSH test-ordering guidelines for primary hypothyroidism and perhaps some educational interventions to help curtail the overuse of TSH tests in the family medicine setting. Copyright© the College of Family Physicians of Canada.

Comparative biodegradation of HDPE and LDPE using an indigenously developed microbial consortium.

PubMed

Satlewal, Alok; Soni, Ravindra; Zaidi, Mgh; Shouche, Yogesh; Goel, Reeta

2008-03-01

A variety of bacterial strains were isolated from waste disposal sites of Uttaranchal, India, and some from artificially developed soil beds containing maleic anhydride, glucose, and small pieces of polyethylene. Primary screening of isolates was done based on their ability to utilize high- and low-density polyethylenes (HDPE/LDPE) as a primary carbon source. Thereafter, a consortium was developed using potential strains. Furthermore, a biodegradation assay was carried out in 500-ml flasks containing minimal broth (250 ml) and HDPE/ LDPE at 5 mg/ml concentration. After incubation for two weeks, degraded samples were recovered through filtration and subsequent evaporation. Fourier transform infrared spectroscopy (FTIR) and simultaneous thermogravimetric-differential thermogravimetry-differential thermal analysis TG-DTG-DTA) were used to analyze these samples. Results showed that consortium-treated HDPE (considered to be more inert relative to LDPE) was degraded to a greater extent 22.41% weight loss) in comparison with LDPE (21.70% weight loss), whereas, in the case of untreated samples, weight loss was more for LDPE than HDPE (4.5% and 2.5%, respectively) at 400 degrees . Therefore, this study suggests that polyethylene could be degraded by utilizing microbial consortia in an eco-friendly manner.

Ants as biological indicators of Wayana Amerindian land use in French Guiana.

PubMed

Delabie, Jacques H C; Céréghino, Régis; Groc, Sarah; Dejean, Andrea; Gibernau, Marc; Corbara, Bruno; Dejean, Alain

2009-07-01

We examined the ecological impact of traditional land use by Wayana Amerindians in French Guiana using ants as bio-indicators. Ants were sampled through a rapid assessment method and the core results analyzed using Kohonen's self-organizing maps (SOM). Our sample sites included: (1) a Wayana village; (2) a cassava plantation; (3) an abandoned cassava plantation; (4) a forest fragment near the village; (5) a riparian forest; and (6) a primary terra firma forest. The ant diversity decreases according to the degree to which the habitat is disturbed. The SOM allowed us to compare the ecological succession between the six habitats. The protocol used is robust since the same conclusions were drawn using partial data.

Using Respondent Driven Sampling to Identify Malaria Risks and Occupational Networks among Migrant Workers in Ranong, Thailand

PubMed Central

Wangroongsarb, Piyaporn; Hwang, Jimee; Thwing, Julie; Karuchit, Samart; Kumpetch, Suthon; Rand, Alison; Drakeley, Chris; MacArthur, John R.; Kachur, S. Patrick; Satimai, Wichai; Meek, Sylvia; Sintasath, David M.

2016-01-01

Background Ranong Province in southern Thailand is one of the primary entry points for migrants entering Thailand from Myanmar, and borders Kawthaung Township in Myanmar where artemisinin resistance in malaria parasites has been detected. Areas of high population movement could increase the risk of spread of artemisinin resistance in this region and beyond. Methods A respondent-driven sampling (RDS) methodology was used to compare migrant populations coming from Myanmar in urban (Site 1) vs. rural (Site 2) settings in Ranong, Thailand. The RDS methodology collected information on knowledge, attitudes, and practices for malaria, travel and occupational histories, as well as social network size and structure. Individuals enrolled were screened for malaria by microscopy, Real Time-PCR, and serology. Results A total of 619 participants were recruited in Ranong City and 623 participants in Kraburi, a rural sub-district. By PCR, a total of 14 (1.1%) samples were positive (2 P. falciparum in Site 1; 10 P. vivax, 1 Pf, and 1 P. malariae in Site 2). PCR analysis demonstrated an overall weighted prevalence of 0.5% (95% CI, 0–1.3%) in the urban site and 1.0% (95% CI, 0.5–1.7%) in the rural site for all parasite species. PCR positivity did not correlate with serological positivity; however, as expected there was a strong association between antibody prevalence and both age and exposure. Access to long-lasting insecticidal treated nets remains low despite relatively high reported traditional net use among these populations. Conclusions The low malaria prevalence, relatively smaller networks among migrants in rural settings, and limited frequency of travel to and from other areas of malaria transmission in Myanmar, suggest that the risk for the spread of artemisinin resistance from this area may be limited in these networks currently but may have implications for regional malaria elimination efforts. PMID:28033322

Chemical composition and sources of organic aerosols over London from the ClearfLo 2012 campaigns

NASA Astrophysics Data System (ADS)

Finessi, Emanuela; Holmes, Rachel; Hopkins, James; Lee, James; Harrison, Roy; Hamilton, Jacqueline

2014-05-01

Air quality in urban areas represents a major public health issue with around one third of the European population concentrated in cities and numbers expected to increase at global scale, particularly in developing countries. Particulate matter (PM) represents a primary threat for human health as numerous studies have confirmed the association between increased levels of cardiovascular and respiratory diseases with the exposure to PM. Despite considerable efforts made in improving air quality and progressively stricter emissions regulations, the PM concentrations have not changed much over the past decades for reasons that remain unclear, and highlight that studies on PM source apportionment are required for the formulation of effective policy. We investigated the chemical composition of organic aerosol (OA) collected during two intensive field campaigns held in winter and summer 2012 in the frame of the project Clean air for London (http://www.clearflo.ac.uk/). PM samples were collected both at a city background site (North Kensington) and at a rural site 50 km southeast of London (Detling) with 8 to 24 hours sampling schedule and analysed using off-line methods. Thermal-optical analysis was used to quantify OC-EC components while a suite of soft ionization mass spectrometric techniques was deployed for detailed chemical characterization. Liquid chromatography mass Spectrometry (LC-MSn) was mostly used for the simultaneous detection and quantification of various tracers for both primary and secondary OA sources. Well-established markers for wood burning primary OA like levoglucosan and azelaic acid were quantified together with various classes of nitroaromatics including methyl-nitrocatechols that are potential tracers for wood burning secondary OA. In addition, oxidation products of biogenic VOCs such as isoprene and monoterpenes were also quantified for both seasons and sites. A non-negligible contribution from biogenic SOA to urban OA was found in summertime measurements. It is hoped that these data will provide an insight into the sources and chemical processing of organic aerosol in London and help to evaluate the effects of this megacity on the surrounding areas.

Work plan for determining the occurrence of glyphosate, its transformation product AMPA, other herbicide compounds, and antibiotics in midwestern United States streams, 2002

USGS Publications Warehouse

Battaglin, W.A.; Thurman, E.M.; Kolpin, D.W.; Scribner, E.A.; Sandstrom, M.W.; Kuivila, K.M.

2003-01-01

The objective of this study is to determine the distribution of glyphosate and its primary transformation product aminomethylphosphonic acid (AMPA) in midwestern streams during post-application and harvest-season runoff events. Water samples will be collected in 2002 during two post-herbicide-application runoff events and one harvest-season runoff event from 53 sites on streams in the Midwestern United States. All samples will be analyzed at the U.S. Geological Survey Organic Geochemistry Research Laboratory in Lawrence, Kansas, for glyphosate and 20 other herbicides. Samples will also be analyzed for a glyphosate transformation product (AMPA) and 26 other herbicide transformation products, using GC/MS or HPLC/MS. Selected samples will be analyzed for 36 antibiotics or antibiotic transformational products. Results from this study will represent the first broad-scale investigation of glyphosate and AMPA in U.S. water resources.

Y-12 National Security Complex Biological Monitoring And Abatement Program 2008 Calendar Year Report

DOE Office of Scientific and Technical Information (OSTI.GOV)

Peterson, M. J.; Greeley Jr., M. S.; Mathews, T. J.

2009-07-01

The National Pollutant Discharge Elimination System (NPDES) permit issued for the Oak Ridge Y-12 National Security Complex (Y-12 Complex) which became effective May 1, 2006, continued a requirement for a Biological Monitoring and Abatement Program (BMAP). The BMAP was originally developed in 1985 to demonstrate that the effluent limitations established for the Y-12 Complex protected the classified uses of the receiving stream (East Fork Poplar Creek: EFPC), in particular, the growth and propagation of aquatic life (Loar et al. 1989). The objectives of the current BMAP are similar, specifically to assess stream ecological conditions relative to regulatory limits and criteria,more » to assess ecological impacts as well as recovery in response to Y-12 operations, and to investigate the causes of continuing impacts. The BMAP consists of three tasks that reflect complementary approaches to evaluating the effects of the Y-12 Complex discharges on the biotic integrity of EFPC. These tasks include: (1) bioaccumulation monitoring, (2) benthic macroinvertebrate community monitoring, and (3) fish community monitoring. As required by the NPDES permit, the BMAP benthic macroinvertebrate community monitoring task includes studies to annually evaluate the receiving stream's biological integrity in comparison to TN Water Quality Criteria. BMAP monitoring is currently being conducted at five primary EFPC sites, although sites may be excluded or added depending upon the specific objectives of the various tasks. Criteria used in selecting the sites include: (1) location of sampling sites used in other studies, (2) known or suspected sources of downstream impacts, (3) proximity to U.S. Department of Energy (DOE) Oak Ridge Reservation (ORR) boundaries, (4) appropriate habitat distribution, and (5) access. The primary sampling sites include upper EFPC at kilometers (EFKs) 24.4 and 23.4 [upstream and downstream of Lake Reality (LR) respectively]; EFK 18.7 (also EFK 18.2 and 19), located off the ORR and below an area of intensive commercial and light industrial development; EFK 13.8, located upstream from the Oak Ridge Wastewater Treatment Facility (ORWTF); and EFK 6.3 located approximately 1.4 km below the ORR boundary (Fig. 1.1). Actual sampling locations on EFPC may differ slightly by task according to specific requirements of the task. Brushy Fork (BF) at kilometer (BFK) 7.6 and Hinds Creek at kilometer (HCK) 20.6 are the most commonly used reference sites for the Y-12 BMAP. Additional sites off the ORR are also occasionally used for reference, including Beaver Creek, Bull Run, Cox Creek, and Paint Rock Creek (Fig. 1.2). Summaries of the sampling designs for the three primary tasks of the Y-12 Complex BMAP for EFPC are presented in Tables 1.1-1.3. This report covers the 2008 period, although data collected outside this time period are included as appropriate. To address the biological monitoring requirements for Bear Creek and McCoy Branch, CERLCA-funded programs, data are summarized in Appendix A and Appendix B respectively. Data for these two watersheds are provided herein to address Section IX of the NPDES Permit for Y-12, where 'Results of these CERCLA programs can be used to meet the biological monitoring requirements of this permit...'. A summary of the toxicity testing results for Y-12 outfalls into upper EFPC is provided in Appendix C (these results have been previously reported) to provide a more thorough perspective of conditions in the stream. Data summarized in this report are available from the Oak Ridge Environmental Information system (OREIS) in an Arc-GIS usable format (http://www-oreis.bechteljacobs.org/oreis/help/oreishome.html). Per requirements specified in the NPDES permit, data collected following TDEC monitoring protocols (TDEC 2006) is also submitted directly to TDEC in Excel format.« less

Community Level Offset of Rain Use- and Transpiration Efficiency for a Heavily Grazed Ecosystem in Inner Mongolia Grassland

PubMed Central

Gao, Ying Z.; Giese, Marcus; Gao, Qiang; Brueck, Holger; Sheng, Lian X.; Yang, Hai J.

2013-01-01

Water use efficiency (WUE) is a key indicator to assess ecosystem adaptation to water stress. Rain use efficiency (RUE) is usually used as a proxy for WUE due to lack of transpiration data. Furthermore, RUE based on aboveground primary productivity (RUEANPP) is used to evaluate whole plant water use because root production data is often missing as well. However, it is controversial as to whether RUE is a reliable parameter to elucidate transpiration efficiency (TE), and whether RUEANPP is a suitable proxy for RUE of the whole plant basis. The experiment was conducted at three differently managed sites in the Inner Mongolia steppe: a site fenced since 1979 (UG79), a winter grazing site (WG) and a heavily grazed site (HG). Site HG had consistent lowest RUEANPP and RUE based on total net primary productivity (RUENPP). RUEANPP is a relatively good proxy at sites UG79 and WG, but less reliable for site HG. Similarly, RUEANPP is good predictor of transpiration efficiency based on aboveground net primary productivity (TEANPP) at sites UG79 and WG but not for site HG. However, if total net primary productivity is considered, RUENPP is good predictor of transpiration efficiency based on total net primary productivity (TENPP) for all sites. Although our measurements indicate decreased plant transpiration and consequentially decreasing RUE under heavy grazing, productivity was relatively compensated for with a higher TE. This offset between RUE and TE was even enhanced under water limited conditions and more evident when belowground net primary productivity (BNNP) was included. These findings suggest that BNPP should be considered when studies fucus on WUE of more intensively used grasslands. The consideration of the whole plant perspective and “real” WUE would partially revise our picture of system performance and therefore might affect the discussion on the C-sequestration and resilience potential of ecosystems. PMID:24058632

Community level offset of rain use- and transpiration efficiency for a heavily grazed ecosystem in inner Mongolia grassland.

PubMed

Gao, Ying Z; Giese, Marcus; Gao, Qiang; Brueck, Holger; Sheng, Lian X; Yang, Hai J

2013-01-01

Water use efficiency (WUE) is a key indicator to assess ecosystem adaptation to water stress. Rain use efficiency (RUE) is usually used as a proxy for WUE due to lack of transpiration data. Furthermore, RUE based on aboveground primary productivity (RUEANPP) is used to evaluate whole plant water use because root production data is often missing as well. However, it is controversial as to whether RUE is a reliable parameter to elucidate transpiration efficiency (TE), and whether RUEANPP is a suitable proxy for RUE of the whole plant basis. The experiment was conducted at three differently managed sites in the Inner Mongolia steppe: a site fenced since 1979 (UG79), a winter grazing site (WG) and a heavily grazed site (HG). Site HG had consistent lowest RUEANPP and RUE based on total net primary productivity (RUENPP). RUEANPP is a relatively good proxy at sites UG79 and WG, but less reliable for site HG. Similarly, RUEANPP is good predictor of transpiration efficiency based on aboveground net primary productivity (TEANPP) at sites UG79 and WG but not for site HG. However, if total net primary productivity is considered, RUENPP is good predictor of transpiration efficiency based on total net primary productivity (TENPP) for all sites. Although our measurements indicate decreased plant transpiration and consequentially decreasing RUE under heavy grazing, productivity was relatively compensated for with a higher TE. This offset between RUE and TE was even enhanced under water limited conditions and more evident when belowground net primary productivity (BNNP) was included. These findings suggest that BNPP should be considered when studies fucus on WUE of more intensively used grasslands. The consideration of the whole plant perspective and "real" WUE would partially revise our picture of system performance and therefore might affect the discussion on the C-sequestration and resilience potential of ecosystems.

Use of fluorescent tagging for assessment of environmental cleaning and disinfection in a veterinary hospital.

PubMed

Weese, J S; Lowe, T; Walker, M

2012-09-01

Environmental cleaning was assessed at a small animal veterinary referral hospital and associated primary healthcare facility. A convenience sample of surfaces was contaminated with fluorescent dye, and then cleaning was assessed 24 hours later by UV light visualisation. Five hundred sixty-three sites were assessed; however, 70 sites were unable to be evaluated 24 hours later because equipment had been removed or because rooms were occupied at the time of re-evaluation. Overall, dye was removed from 212/493 (43%) of sites. Site-specific rates ranged from 14% (computer keyboards and mice, 9/66 site cleaned) to 81% (examination tables, 44/54 sites cleaned). There was a significant difference in the prevalence of successful cleaning by general location (P < 0.0001) and surface type (P < 0.0001). Environmental tagging was an easy and low-cost tool to assess cleaning practices. Results prompted further infection control investigations to explain selected deficiencies, leading to identification of inadequacies in protocols and practices. Environmental tagging may be a useful infection control tool for establishing baseline cleaning rates, identifying deficiencies in protocols, evaluating the effects of interventions and education of personnel.

High Epstein-Barr Virus Load and Genomic Diversity Are Associated with Generation of gp350-Specific Neutralizing Antibodies following Acute Infectious Mononucleosis

PubMed Central

Weiss, Eric R.; Alter, Galit; Ogembo, Javier Gordon; Henderson, Jennifer L.; Tabak, Barbara; Bakiş, Yasin; Somasundaran, Mohan; Garber, Manuel; Selin, Liisa

2016-01-01

ABSTRACT The Epstein-Barr virus (EBV) gp350 glycoprotein interacts with the cellular receptor to mediate viral entry and is thought to be the major target for neutralizing antibodies. To better understand the role of EBV-specific antibodies in the control of viral replication and the evolution of sequence diversity, we measured EBV gp350-specific antibody responses and sequenced the gp350 gene in samples obtained from individuals experiencing primary EBV infection (acute infectious mononucleosis [AIM]) and again 6 months later (during convalescence [CONV]). EBV gp350-specific IgG was detected in the sera of 17 (71%) of 24 individuals at the time of AIM and all 24 (100%) individuals during CONV; binding antibody titers increased from AIM through CONV, reaching levels equivalent to those in age-matched, chronically infected individuals. Antibody-dependent cell-mediated phagocytosis (ADCP) was rarely detected during AIM (4 of 24 individuals; 17%) but was commonly detected during CONV (19 of 24 individuals; 79%). The majority (83%) of samples taken during AIM neutralized infection of primary B cells; all samples obtained at 6 months postdiagnosis neutralized EBV infection of cultured and primary target cells. Deep sequencing revealed interpatient gp350 sequence variation but conservation of the CR2-binding site. The levels of gp350-specific neutralizing activity directly correlated with higher peripheral blood EBV DNA levels during AIM and a greater evolution of diversity in gp350 nucleotide sequences from AIM to CONV. In summary, we conclude that the viral load and EBV gp350 diversity during early infection are associated with the development of neutralizing antibody responses following AIM. IMPORTANCE Antibodies against viral surface proteins can blunt the spread of viral infection by coating viral particles, mediating uptake by immune cells, or blocking interaction with host cell receptors, making them a desirable component of a sterilizing vaccine. The EBV surface protein gp350 is a major target for antibodies. We report the detection of EBV gp350-specific antibodies capable of neutralizing EBV infection in vitro. The majority of gp350-directed vaccines focus on glycoproteins from lab-adapted strains, which may poorly reflect primary viral envelope diversity. We report some of the first primary gp350 sequences, noting that the gp350 host receptor binding site is remarkably stable across patients and time. However, changes in overall gene diversity were detectable during infection. Patients with higher peripheral blood viral loads in primary infection and greater changes in viral diversity generated more efficient antibodies. Our findings provide insight into the generation of functional antibodies, necessary for vaccine development. PMID:27733645

High Epstein-Barr Virus Load and Genomic Diversity Are Associated with Generation of gp350-Specific Neutralizing Antibodies following Acute Infectious Mononucleosis.

PubMed

Weiss, Eric R; Alter, Galit; Ogembo, Javier Gordon; Henderson, Jennifer L; Tabak, Barbara; Bakiş, Yasin; Somasundaran, Mohan; Garber, Manuel; Selin, Liisa; Luzuriaga, Katherine

2017-01-01

The Epstein-Barr virus (EBV) gp350 glycoprotein interacts with the cellular receptor to mediate viral entry and is thought to be the major target for neutralizing antibodies. To better understand the role of EBV-specific antibodies in the control of viral replication and the evolution of sequence diversity, we measured EBV gp350-specific antibody responses and sequenced the gp350 gene in samples obtained from individuals experiencing primary EBV infection (acute infectious mononucleosis [AIM]) and again 6 months later (during convalescence [CONV]). EBV gp350-specific IgG was detected in the sera of 17 (71%) of 24 individuals at the time of AIM and all 24 (100%) individuals during CONV; binding antibody titers increased from AIM through CONV, reaching levels equivalent to those in age-matched, chronically infected individuals. Antibody-dependent cell-mediated phagocytosis (ADCP) was rarely detected during AIM (4 of 24 individuals; 17%) but was commonly detected during CONV (19 of 24 individuals; 79%). The majority (83%) of samples taken during AIM neutralized infection of primary B cells; all samples obtained at 6 months postdiagnosis neutralized EBV infection of cultured and primary target cells. Deep sequencing revealed interpatient gp350 sequence variation but conservation of the CR2-binding site. The levels of gp350-specific neutralizing activity directly correlated with higher peripheral blood EBV DNA levels during AIM and a greater evolution of diversity in gp350 nucleotide sequences from AIM to CONV. In summary, we conclude that the viral load and EBV gp350 diversity during early infection are associated with the development of neutralizing antibody responses following AIM. Antibodies against viral surface proteins can blunt the spread of viral infection by coating viral particles, mediating uptake by immune cells, or blocking interaction with host cell receptors, making them a desirable component of a sterilizing vaccine. The EBV surface protein gp350 is a major target for antibodies. We report the detection of EBV gp350-specific antibodies capable of neutralizing EBV infection in vitro The majority of gp350-directed vaccines focus on glycoproteins from lab-adapted strains, which may poorly reflect primary viral envelope diversity. We report some of the first primary gp350 sequences, noting that the gp350 host receptor binding site is remarkably stable across patients and time. However, changes in overall gene diversity were detectable during infection. Patients with higher peripheral blood viral loads in primary infection and greater changes in viral diversity generated more efficient antibodies. Our findings provide insight into the generation of functional antibodies, necessary for vaccine development. Copyright © 2016 American Society for Microbiology.

The independent relationship between trouble controlling Facebook use, time spent on the site and distress.

PubMed

Muench, Fredrick; Hayes, Marie; Kuerbis, Alexis; Shao, Sijing

2015-09-01

There is an emerging literature base on the relationship between maladaptive traits and "addiction" to social networking sites. These studies have operationalized addiction as either spending excessive amounts of time on social networking sites (SNS) or trouble controlling SNS use, but have not assessed the unique contribution of each of these constructs on outcomes in the same models. Moreover, these studies have exclusively been conducted with younger people rather than a heterogeneous sample. This study examined the independent relationship of a brief Facebook addiction scale, time spent on Facebook, and Facebook checking on positive and negative social domains, while controlling for self-esteem and social desirability. Participants were recruited using e-mail, SNS posts and through Amazon's MTurk system. The sample included 489 respondents ages from 18 to approximately 70, who completed a 10-15 minute survey. Results indicate that neither time spent on Facebook nor Facebook checking was significantly associated with either self-esteem, fear of negative social evaluation or social comparison, while SNS addiction symptoms were each independently associated with Facebook usage. Neither time spent on Facebook nor SNS addiction symptoms were associated with positive social relationships. Overall results suggest that time on SNS and trouble controlling use should be considered independent constructs and that interventions should target underlying loss of control as the primary intervention target above ego syntonic time spent on the site.

Beyond the Examination Room

PubMed Central

O'Malley, Ann S; Forrest, Christopher B

2002-01-01

OBJECTIVE To assess whether primary care performance of low-income women's primary care delivery sites is associated with the strength of their relationships with their physicians. DESIGN Random-digit-dial and targeted household telephone survey of a population-based sample. SETTING Washington, D.C. census tracts with ≥30% of households below 200% of federal poverty threshold. PARTICIPANTS Women over age 40 (N = 1,205), 82% of whom were African American. MEASUREMENTS AND MAIN RESULTS The response rate was 85%. Primary care performance was assessed using women's ratings of their systems' accessibility (organizational, geographic, and financial), continuity, comprehensiveness, and coordination. Respondents' ratings of trust in their physicians, communication with their physicians, and compassion shown by their physicians were used to operationalize the patient-physician relationship. Controlling for population and insurance characteristics, 4 primary care features were positively associated with women's trust in and communication with their physicians: continuity with a single clinician, organizational accessibility of the practice, comprehensive care, and coordination of specialty care services. Better organizational access, but not geographic or financial access, was associated with greater levels of trust, compassion, and communication (odds ratios [ORs], 3.2, 7.4, and 6.9, respectively; P≤ .01). Women who rated highest their doctor's ability to take care of all of their health care needs (highest level of comprehensiveness) had 11 times the odds of trusting their physician (P≤ .01) and 6 times the odds of finding their physicians compassionate and communicative (P≤ .01), compared to those with the lowest level of comprehensiveness. CONCLUSIONS Primary care delivery sites organized to be more accessible, to link patients with the same clinician for their visits, to provide for all of a woman's health care needs, and to coordinate specialty care services are associated with stronger relationships between low-income women and their physicians. Primary care systems that fail to emphasize these features of primary care may jeopardize the clinician-patient relationship and indirectly the quality of care and health outcomes. PMID:11903777

National Structural Survey of Veterans Affairs Home-Based Primary Care Programs.

PubMed

Karuza, Jurgis; Gillespie, Suzanne M; Olsan, Tobie; Cai, Xeuya; Dang, Stuti; Intrator, Orna; Li, Jiejin; Gao, Shan; Kinosian, Bruce; Edes, Thomas

2017-12-01

To describe the current structural and practice characteristics of the Department of Veterans Affairs (VA) Home-Based Primary Care (HBPC) program. We designed a national survey and surveyed HBPC program directors on-line using REDCap. We received 236 surveys from 394 identified HBPC sites (60% response rate). HBPC site characteristics were quantified using closed-ended formats. HBPC program directors were most often registered nurses, and HBPC programs primarily served veterans with complex chronic illnesses that were at high risk of hospitalization and nursing home care. Primary care was delivered using interdisciplinary teams, with nurses, social workers, and registered dietitians as team members in more than 90% of the sites. Most often, nurse practitioners were the principal primary care providers (PCPs), typically working with nurse case managers. Nearly 60% of the sites reported dual PCPs involving VA and community-based physicians. Nearly all sites provided access to a core set of comprehensive services and programs (e.g., case management, supportive home health care). At the same time, there were variations according to site (e.g., size, location (urban, rural), use of non-VA hospitals, primary care models used). HBPC sites reflected the rationale and mission of HBPC by focusing on complex chronic illness of home-based veterans and providing comprehensive primary care using interdisciplinary teams. Our next series of studies will examine how HBPC site structural characteristics and care models are related to the processes and outcomes of care to determine whether there are best practice standards that define an optimal HBPC structure and care model or whether multiple approaches to HBPC better serve the needs of veterans. Published 2017. This article is a U.S. Government work and is in the public domain in the USA.

Does the primary site of colorectal cancer impact outcomes for patients with metastatic disease?

PubMed

Price, Timothy J; Beeke, Carol; Ullah, Shahid; Padbury, Robert; Maddern, Guy; Roder, David; Townsend, Amanda R; Moore, James; Roy, Amitesh; Tomita, Yoko; Karapetis, Christos

2015-03-15

Previous reports have described differences in biology and outcome for colorectal cancer based on whether the primary is right or left sided. Further division by right, left, and rectum or even exact primary site has also been explored. Possible differences in response to biological agents have also been reported based on side of primary lesion. We explored the South Australian registry for metastatic colorectal cancer to assess if there were any differences in patient characteristics, prognostic markers, and treatment received and outcomes based on whether the primary was right or left sided. We also explored if differences exist based on left colon and rectum and by exact primary site. Two thousand nine hundred seventy-two patients were analyzed. Thirty-five percent had a right-sided primary. The median overall survival for the entire group right versus left was 9.6 versus 20.3 months (P < .001). Multivariate analysis confirmed side of primary as an independent prognostic factor. For the group that had active therapy, defined as chemotherapy (± metastasis resection), median overall survival was right, 18.2 months; and left, 29.4 months (P < .001). Importantly, we found no suggestion of major differences if left side was divided by left colon and rectum, and trends by individual site still supported a left and right division. Patients with a right-sided primary have more negative prognostic factors and indeed have inferior outcomes compared with those with a left-sided primary. Our data with further breakdown by exact site still favor a simple left-versus-right division moving forward for metastatic colorectal cancer. © 2014 American Cancer Society.

Unusual sugar specificity of banana lectin from Musa paradisiaca and its probable evolutionary origin. Crystallographic and modelling studies.

PubMed

Singh, D D; Saikrishnan, K; Kumar, Prashant; Surolia, A; Sekar, K; Vijayan, M

2005-10-01

The crystal structure of a complex of methyl-alpha-D-mannoside with banana lectin from Musa paradisiaca reveals two primary binding sites in the lectin, unlike in other lectins with beta-prism I fold which essentially consists of three Greek key motifs. It has been suggested that the fold evolved through successive gene duplication and fusion of an ancestral Greek key motif. In other lectins, all from dicots, the primary binding site exists on one of the three motifs in the three-fold symmetric molecule. Banana is a monocot, and the three motifs have not diverged enough to obliterate sequence similarity among them. Two Greek key motifs in it carry one primary binding site each. A common secondary binding site exists on the third Greek key. Modelling shows that both the primary sites can support 1-2, 1-3, and 1-6 linked mannosides with the second residue interacting in each case primarily with the secondary binding site. Modelling also readily leads to a bound branched mannopentose with the nonreducing ends of the two branches anchored at the two primary binding sites, providing a structural explanation for the lectin's specificity for branched alpha-mannans. A comparison of the dimeric banana lectin with other beta-prism I fold lectins, provides interesting insights into the variability in their quaternary structure.

Dissolved Pesticide and Organic Carbon Concentrations Detected in Surface Waters, Northern Central Valley, California, 2001-2002

USGS Publications Warehouse

Orlando, James L.; Jacobson, Lisa A.; Kuivila, Kathryn

2004-01-01

Field and laboratory studies were conducted to determine the effects of pesticide mixtures on Chinook salmon under various environmental conditions in surface waters of the northern Central Valley of California. This project was a collaborative effort between the U.S. Geological Survey (USGS) and the University of California. The project focused on understanding the environmental factors that influence the toxicity of pesticides to juvenile salmon and their prey. During the periods January through March 2001 and January through May 2002, water samples were collected at eight surface water sites in the northern Central Valley of California and analyzed by the USGS for dissolved pesticide and dissolved organic carbon concentrations. Water samples were also collected by the USGS at the same sites for aquatic toxicity testing by the Aquatic Toxicity Laboratory at the University of California Davis; however, presentation of the results of these toxicity tests is beyond the scope of this report. Samples were collected to characterize dissolved pesticide and dissolved organic carbon concentrations, and aquatic toxicity, associated with winter storm runoff concurrent with winter run Chinook salmon out-migration. Sites were selected that represented the primary habitat of juvenile Chinook salmon and included major tributaries within the Sacramento and San Joaquin River Basins and the Sacramento?San Joaquin Delta. Water samples were collected daily for a period of seven days during two winter storm events in each year. Additional samples were collected weekly during January through April or May in both years. Concentrations of 31 currently used pesticides were measured in filtered water samples using solid-phase extraction and gas chromatography-mass spectrometry at the U.S. Geological Survey's organic chemistry laboratory in Sacramento, California. Dissolved organic carbon concentrations were analyzed in filtered water samples using a Shimadzu TOC-5000A total organic carbon analyzer.

Websites for Primary Sources and Civics Education

ERIC Educational Resources Information Center

Rulli, Daniel

2005-01-01

This article features a list of websites for primary sources and civics education. The World Wide Web has become an excellent source for facsimiles, images, and transcriptions of primary sources. As it would be impossible to provide a comprehensive list of all the sites, this annotated list highlights selective sites that provide access to…

Variation in primary site resection practices for advanced colon cancer: a study using the National Cancer Data Base.

PubMed

Healy, Mark A; Pradarelli, Jason C; Krell, Robert W; Regenbogen, Scott E; Suwanabol, Pasithorn A

2016-10-01

Treatment of metastatic colon cancer may be driven as much by practice patterns as by features of disease. To optimize management, there is a need to better understand what is determining primary site resection use. We evaluated all patients with stage IV cancers in the National Cancer Data Base from 2002 to 2012 (50,791 patients, 1,230 hospitals). We first identified patient characteristics associated with primary tumor resection. Then, we assessed nationwide variation in hospital resection rates. Overall, 27,387 (53.9%) patients underwent primary site resection. Factors associated with resection included younger age, having less than 2 major comorbidities, and white race (P < .001). Nationwide, hospital-adjusted primary tumor resection rates ranged from 26.0% to 87.8% with broad differences across geographical areas and hospital accreditation types. There is statistically significant variation in hospital rates of primary site resection. This demonstrates inconsistent adherence to guidelines in the presence of conflicting evidence regarding resection benefit. Copyright © 2016 Elsevier Inc. All rights reserved.

Pursestring closure of the stoma site leads to fewer wound infections: results from a multicenter randomized controlled trial.

PubMed

Lee, Janet T; Marquez, Thao T; Clerc, Daniel; Gie, Olivier; Demartines, Nicolas; Madoff, Robert D; Rothenberger, David A; Christoforidis, Dimitrios

2014-11-01

Surgical site infection after stoma reversal is common. The optimal skin closure technique after stoma reversal has been widely debated in the literature. We hypothesized that pursestring near-complete closure of the stoma site would lead to fewer surgical site infections compared with conventional primary closure. This study was a parallel prospective multicenter randomized controlled trial. This study was conducted at 2 university medical centers. Patients (N = 122) presenting for elective colostomy or ileostomy reversal were selected. Pursestring versus conventional primary closure of stoma sites were compared. Stoma site surgical site infection within 30 days of surgery, overall surgical site infection, delayed healing (open wound for >30 days), time to wound epithelialization, and patient satisfaction were the primary outcomes measured. The pursestring group had a significantly lower stoma site infection rate (2% vs 15%, p = 0.01). There was no difference in delayed healing or patient satisfaction between groups. Time to epithelialization was measured in only 51 patients but was significantly longer in the pursestring group (34.6 ± 20 days vs 24.1 ± 17 days, p = 0.02). This study was limited by the variability in procedures and surgeons, the limited follow-up after 30 days, and the inability to perform blinding. Pursestring closure after stoma reversal has a lower risk of stoma site surgical site infection than conventional primary closure, although wounds may take longer to heal with the use of this approach. NCT01713452 (www.clinicaltrials.gov).

Microbiomes of the dust particles collected from the International Space Station and Spacecraft Assembly Facilities.

PubMed

Checinska, Aleksandra; Probst, Alexander J; Vaishampayan, Parag; White, James R; Kumar, Deepika; Stepanov, Victor G; Fox, George E; Nilsson, Henrik R; Pierson, Duane L; Perry, Jay; Venkateswaran, Kasthuri

2015-10-27

The International Space Station (ISS) is a unique built environment due to the effects of microgravity, space radiation, elevated carbon dioxide levels, and especially continuous human habitation. Understanding the composition of the ISS microbial community will facilitate further development of safety and maintenance practices. The primary goal of this study was to characterize the viable microbiome of the ISS-built environment. A second objective was to determine if the built environments of Earth-based cleanrooms associated with space exploration are an appropriate model of the ISS environment. Samples collected from the ISS and two cleanrooms at the Jet Propulsion Laboratory (JPL, Pasadena, CA) were analyzed by traditional cultivation, adenosine triphosphate (ATP), and propidium monoazide-quantitative polymerase chain reaction (PMA-qPCR) assays to estimate viable microbial populations. The 16S rRNA gene Illumina iTag sequencing was used to elucidate microbial diversity and explore differences between ISS and cleanroom microbiomes. Statistical analyses showed that members of the phyla Actinobacteria, Firmicutes, and Proteobacteria were dominant in the samples examined but varied in abundance. Actinobacteria were predominant in the ISS samples whereas Proteobacteria, least abundant in the ISS, dominated in the cleanroom samples. The viable bacterial populations seen by PMA treatment were greatly decreased. However, the treatment did not appear to have an effect on the bacterial composition (diversity) associated with each sampling site. The results of this study provide strong evidence that specific human skin-associated microorganisms make a substantial contribution to the ISS microbiome, which is not the case in Earth-based cleanrooms. For example, Corynebacterium and Propionibacterium (Actinobacteria) but not Staphylococcus (Firmicutes) species are dominant on the ISS in terms of viable and total bacterial community composition. The results obtained will facilitate future studies to determine how stable the ISS environment is over time. The present results also demonstrate the value of measuring viable cell diversity and population size at any sampling site. This information can be used to identify sites that can be targeted for more stringent cleaning. Finally, the results will allow comparisons with other built sites and facilitate future improvements on the ISS that will ensure astronaut health.

Nutrients and organic compounds in Deer Creek and south branch Plum Creek in southwestern Pennsylvania, April 1996 through September 1998

USGS Publications Warehouse

Williams, D.R.; Clark, M.E.

2001-01-01

This report presents results of an analysis of nutrient and pesticide data from two surface-water sites and volatile organic compound (VOC) data from one of the sites that are within the Allegheny and Monongahela River Basins study unit of the National Water-Quality Assessment Program of the U.S. Geological Survey. The Deer Creek site was located in a 27.0 square-mile basin within the Allegheny River Basin in Allegheny County. The primary land uses consist of small urban areas, large areas of residential housing, and some agricultural land in the upper part of the basin. The South Branch Plum Creek site was located in a 33.3 square-mile basin within the Allegheny River Basin in Indiana County. The primary land uses throughout this basin are mostly agriculture and forestland.Water samples for analysis of nutrients were collected monthly and during high-flow events from April 1996 through September 1998. Concentrations of dissolved nitrite, dissolved ammonia plus organic nitrogen, and dissolved phosphorus were less than the method detection limits in more than one-half of the samples collected. The median concentration of dissolved nitrite plus nitrate in South Branch Plum Creek was 0.937 mg/L and 0.597 mg/L in Deer Creek. The median concentration of dissolved orthophosphate was 0.01 mg/L in both streams. High loads of nitrate were measured in both streams from March to June. Concentrations of dissolved ammonia nitrogen, dissolved nitrate, and total phosphorus were lower during the summer months. Measured concentrations of nitrate nitrogen in both streams were well below the U.S. Environmental Protection Agency (USEPA) maximum contaminant level (MCL) of 10 mg/L.Water samples for analysis of pesticides were collected throughout 1997 in both streams and during a storm event on August 25-26, 1998, in Deer Creek. Samples were collected monthly at both sites and more frequently during the spring and early summer months to coincide with application of pesticides. Seventy-eight pesticides and 7 pesticide metabolites were analyzed in 31 samples collected in Deer Creek and in 18 samples collected in South Branch Plum Creek. Of the 85 pesticides and pesticide metabolites analyzed, 25 of the pesticides were detected at least once in Deer Creek, and 20 of the pesticides were detected at least once in South Branch Plum Creek. Atrazine was the most commonly detected pesticide in both streams. There was a distinct seasonal pattern of atrazine, simazine, and metolachlor concentrations measured at both sites.Prometon was detected in 3 of the 18 samples collected in South Branch Plum Creek in 1997 and in 28 of the 31 samples collected in Deer Creek in both 1997 and 1998. Prometon generally is applied in conjunction with asphalt paving projects and is commonly used in residential areas. The highest measured concentrations of prometon detected in Deer Creek were in the five storm samples collected on August 25-26, 1998.At the Deer Creek site, 9 of the 25 pesticides detected throughout the study were detected only in the sample collected on June 13, 1997. Those nine pesticides included acifluorfen, bentazon, bromoxynil, dicamba, dichlorprop, fenuron, linuron, MCPA, and neburon. Nine other pesticides also were detected in that sample.All concentrations of pesticides were well below established drinking-water guidelines. The maximum measured concentration of diazinon in Deer Creek (0.097 µg/L) and South Branch Plum Creek (0.974 µg/L) exceeded the aquatic life guideline of 0.009 µg/L established by the National Academy of Sciences/National Academy of Engineers. The maximum measured concentration of azinphos-methyl in South Branch Plum Creek (an estimated value of 0.033 µg/L) exceeded the chronic aquatic-life guideline of 0.01 µg/L established by the USEPA.Twenty-five samples were collected from Deer Creek and analyzed for volatile organic compounds (VOCs). Of 87 VOCs analyzed for, 22 were detected at least once, and 12 were gasoline-related compounds. Acetone, benzene, carbon disulfide, meta/paraxylene, methyl chloride, MTBE, p-isopropyl toluene, toluene, and 1,2,4-trimethylbenzene were each detected in five or more samples. VOCs generally were detected during the colder winter months and not frequently during the summer months.The maximum measured concentrations of benzene, ethylbenzene, o-dichlorobenzene, styrene, and toluene were two or more orders of magnitude lower than the MCLs established by the USEPA.

Effects of storm-water runoff on local ground-water quality, Clarksville, Tennessee

USGS Publications Warehouse

Hoos, Anne B.

1990-01-01

Storm-related water-quality data were collected at a drainage-well site and at a spring site in Clarksville, Tennessee, to define the effects of storm-water runoff on the quality of ground water in the area. A dye-trace test verified the direct hydraulic connection between the drainage well and Mobley Spring. Samples of storm run off and spring flow were collected at these sites for nine storms during the period February to October 1988. Water samples were collected also from Mobley Spring and two other springs and two observation wells in the area during dry-weather conditions to assess the general quality of ground water in an urban karst terrain. Evaluation of the effect of storm-water runoff on the quality of local ground water is complicated by the presence of other sources of contaminants in the area Concentrations and load for most major constituents were much smaller in storm-water runoff at the drainage well than in the discharge of Mobley Spring, indicating that much of the chemical constituent load discharged from the spring comes from sources other than the drainage well. However, for some of the minor constituents associated with roadway runoff (arsenic, copper, lead, organic carbon, and oil and grease), the drainage well contributed relatively large amounts of these constituents to local ground water during storms. The close correlation between concentrations of total organic carbon and concentrations of most trace metals at the drainage-well and Mobley Spring sites indicates that these constituents are transported together. Many trace metals were flushed early during each runoff event. Mean storm loads for copper, lead, zinc, and four nutrient species (total nitrogen, ammonia nitrogen, total phosphorus, and orthophosphorus) in storm-water runoff at the drainage-well site were lower than mean storm load predicted from an existing regression model. The overprediction by the model may be a result of the small size of the drainage area relative to the range of drainage areas used in the development of the models, or to the below-normal amounts of rainfall during the period of sampling for this investigation. Loads& in storm-water runoff for 22 constituents were extrapolated from sampled storms to total loads for the period February to October 1988. Calculated loads for trace metals for the period ranged from 0.030pound.s for cadmium to 12pound.s for strontium. Loads of the primary nutrients ranged from 0.97pounds for nitrite as nitrogen to 34pounds of organic nitrogen. Storm-water quality at the drainage-well and Mobley Spring sites was compared to background water quality of the local aquifer; as characterized by dry-weather samples from three springs and two observation wells in the Clarksville area. Concentrations of total-recoverable cadmium, chromium, copper, lead, and nickel were higher in many stormwater samples from both the drainage-well and Mobley Spring sites than in samples from any other site. In addition, concentrations of total organic carbon, methylene blue active substances, and total-recoverable oil and grease were generally higher in storm-water samples from the drainage-well site than in any ground-water sample. Densities of fecal coliform and fecal streptococcus bacteria and concentrations of total recoverable iron, manganese, and methylene blue active substances in storm samples from the drainage-well site exceeded the maximum contaminant levels listed in Tennessee?s drinking-water standards (1988) by as much as 2,500 and 5,500 colonies per 100 milliliters, and 2.7, 0.29, and 0.05 milligrams per liter, respectively. Densities of fecal coliform and fecal streptococcus bacteria and concentrations of total-recoverable iron, manganese, and lead in storm samples from Mobley Spring exceeded the maximum contaminant levels by as much as 500 and 4,500 colonies per 100 milliliters, and 18.7,0.65, and 0.02 milligrams per liter, respectively. For iron, manganese, and bacteria, these undesirable

Effects of Trophic Status on Mercury Methylation Pathways in Peatlands

NASA Astrophysics Data System (ADS)

Hines, M. E.; Zhang, L.; Sampath, S.; Hu, R.; Barkay, T.

2014-12-01

Methyl mercury (MeHg) is a bioaccumulative toxicant. It was believed to be produced by sulfate (SO4)- and iron- reducing bacteria (SRB and FeRB), but recent studies suggest that organisms that possess the gene cluster (hgcAB) can methylate Hg, which includes other microbial groups besides SRB and FeRB. Many areas known to accumulate high levels of MeHg are freshwater wetlands that lack sufficient electron acceptors to support the production of MeHg. To test the hypothesis that oligotrophic wetlands are able to methylate Hg by pathways that are not respiratory, peat was collected from three wetland sites in Alaska and three in Massachusetts that represented a trophic gradient. We determined rates of gas (CH4, CO2, H2) and LMW organic acid (formate, acetate, propionate, butyrate) formation, and rates of Hg methylation using the short-lived radioisotope 197Hg (half life 2.67 days). Two temperate sites exhibited strong terminal respiration (methanogenesis) and syntrophy, while the Alaskan sites and an oligotrophic temperate site exhibited low rates of both. Primary fermentation was an important process in the latter sites. Hg methylation was most active at the minerotrophic sites that exhibited active syntrophy and methanogenesis. Methylation decreased greatly in the presence of a methanogenic inhibitor and was stimulated by H2 indicating that methanogens and perhaps syntrophs were primary methylators. In the oligotrophic sites, the addition of SO4 stimulated methylation while a SO4 reduction inhibitor decreased methylation. There was no evidence of SO4 reduction in these samples suggesting that methylation was conducted by SRB that were metabolizing via fermentation and not SO4 reduction. While further studies are required to decipher the role of syntrophs including SRB varieties such as Syntrophobacter sp., these results indicate that fermentative bacteria may be able to significantly methylate Hg in wetlands that do not support anaerobic respiration.

Measuring variability in trophic status in the Lake Waco/Bosque River Watershed

PubMed Central

Rodriguez, Angela D; Matlock, Marty D

2008-01-01

Background Nutrient management in rivers and streams is difficult due to the spatial and temporal variability of algal growth responses. The objectives of this project were to determine the spatial and seasonal in situ variability of trophic status in the Lake Waco/Bosque River watershed, determine the variability in the lotic ecosystem trophic status index (LETSI) at each site as indicators of the system's nutrient sensitivity, and determine if passive diffusion periphytometers could provide threshold algal responses to nutrient enrichment. Methods We used the passive diffusion periphytometer to measure in-situ nutrient limitation and trophic status at eight sites in five streams in the Lake Waco/Bosque River Watershed in north-central Texas from July 1997 through October 1998. The chlorophyll a production in the periphytometers was used as an indicator of baseline chlorophyll a productivity and of maximum primary productivity (MPP) in response to nutrient enrichment (nitrogen and phosphorus). We evaluated the lotic ecosystem trophic status index (LETSI) using the ratio of baseline primary productivity to MPP, and evaluated the trophic class of each site. Results The rivers and streams in the Lake Waco/Bosque River Watershed exhibited varying degrees of nutrient enrichment over the 18-month sampling period. The North Bosque River at the headwaters (NB-02) located below the Stephenville, Texas wastewater treatment outfall consistently exhibited the highest degree of water quality impact due to nutrient enrichment. Sites at the outlet of the watershed (NB-04 and NB-05) were the next most enriched sites. Trophic class varied for enriched sites over seasons. Conclusion Seasonality played a significant role in the trophic class and sensitivity of each site to nutrients. Managing rivers and streams for nutrients will require methods for measuring in situ responses and sensitivities to nutrient enrichment. Nutrient enrichment periphytometers show significant potential for use in nutrient gradient studies. PMID:18271947

Measuring variability in trophic status in the Lake Waco/Bosque River Watershed.

PubMed

Rodriguez, Angela D; Matlock, Marty D

2008-01-11

Nutrient management in rivers and streams is difficult due to the spatial and temporal variability of algal growth responses. The objectives of this project were to determine the spatial and seasonal in situ variability of trophic status in the Lake Waco/Bosque River watershed, determine the variability in the lotic ecosystem trophic status index (LETSI) at each site as indicators of the system's nutrient sensitivity, and determine if passive diffusion periphytometers could provide threshold algal responses to nutrient enrichment. We used the passive diffusion periphytometer to measure in-situ nutrient limitation and trophic status at eight sites in five streams in the Lake Waco/Bosque River Watershed in north-central Texas from July 1997 through October 1998. The chlorophyll a production in the periphytometers was used as an indicator of baseline chlorophyll a productivity and of maximum primary productivity (MPP) in response to nutrient enrichment (nitrogen and phosphorus). We evaluated the lotic ecosystem trophic status index (LETSI) using the ratio of baseline primary productivity to MPP, and evaluated the trophic class of each site. The rivers and streams in the Lake Waco/Bosque River Watershed exhibited varying degrees of nutrient enrichment over the 18-month sampling period. The North Bosque River at the headwaters (NB-02) located below the Stephenville, Texas wastewater treatment outfall consistently exhibited the highest degree of water quality impact due to nutrient enrichment. Sites at the outlet of the watershed (NB-04 and NB-05) were the next most enriched sites. Trophic class varied for enriched sites over seasons. Seasonality played a significant role in the trophic class and sensitivity of each site to nutrients. Managing rivers and streams for nutrients will require methods for measuring in situ responses and sensitivities to nutrient enrichment. Nutrient enrichment periphytometers show significant potential for use in nutrient gradient studies.

Cancer screening and Haitian immigrants: the primary care provider factor.

PubMed

Gany, Francesca; Trinh-Shevrin, Chau; Aragones, Abraham

2008-06-01

Haitian immigrants, among the fastest growing immigrant communities in the United States, have low cancer screening rates. Several patient barriers have been identified and associated with low screening rates but little is known on provider barriers for cancer screening. To address this gap, we assessed the cancer screening practices, attitudes, and beliefs of primary care providers serving the Haitian community. We surveyed a random sample of physicians serving first generation Haitian immigrants in New York City, identified through their zip codes of practice. Participants completed a questionnaire to assess their beliefs, attitudes and practices surrounding cancer screening, and their perceptions of patient barriers to screening. 50 of 87 physicians (58%) consented to participate in the study. Cancer site-specific and overall cancer screening scores were created for breast, cervical, and colorectal cancer screening. 75% of providers followed breast cancer screening guidelines, 16% for cervical cancer, and 30% for colorectal cancer. None of the providers in the sample were following guidelines for all three cancer sites. Additionally, 97% reported recommending digital rectal exam and PSA annually to patients 50 years or older with no family history, and 100% to patients over 50 years old with family history. The reported practices of providers serving the Haitian immigrant community in New York City are not fully consistent with practice guidelines. Efforts should be made to reinforce screening guideline knowledge in physicians serving the Haitian immigrant community, to increase the utilization of systems that increase cancer screening, and to implement strategies to overcome patient barriers.

Primary site and regional lymph node involvement are independent prognostic factors for early-stage extranodal nasal-type natural killer/T cell lymphoma.

PubMed

Niu, Shao-Qing; Yang, Yong; Li, Yi-Yang; Wen, Ge; Wang, Liang; Li, Zhi-Ming; Wang, Han-Yu; Zhang, Lu-Lu; Xia, Yun-Fei; Zhang, Yu-Jing

2016-04-04

Nasal-type extranodal natural killer/T-cell lymphoma (ENKTCL) originates primarily in the nasal cavity or extra-nasal sites within the upper aerodigestive tract. However, it is unclear whether the primary site can serve as an independent prognostic factor or whether the varying clinical outcomes observed with different primary sites can be attributed merely to their propensities of regional lymph node involvement. The aim of this study was to investigate the prognostic implications of the primary site and regional lymph node involvement in patients with early-stage nasal-type ENKTCL. To develop a nomogram, we reviewed the clinical data of 215 consecutively diagnosed patients with early-stage nasal-type ENKTCL who were treated in Sun Yat-sen University Cancer Center with chemotherapy and radiotherapy between 2000 and 2011. The predictive accuracy and discriminative ability of the nomogram were determined using a concordance index (C-index) and calibration curve. The 5-year overall survival (OS) and progression-free survival (PFS) rates of patients with nasal ENKTCL were higher than those of patients with extra-nasal ENKTCL (OS: 68.2% vs. 46.0%, P = 0.030; PFS: 53.4% vs. 26.6%, P = 0.010). The 5-year OS and PFS rates of patients with Ann Arbor stage IE ENKTCL were higher than those of patients with Ann Arbor stage IIE ENKTCL (OS: 66.3% vs. 59.2%, P = 0.003; PFS: 51.4% vs. 40.3%, P = 0.009). Multivariate analysis showed that age >60 years, ECOG performance status score ≥2, elevated lactate dehydrogenase (LDH) level, extra-nasal primary site, and regional lymph node involvement were significantly associated with lower 5-year OS rate; age >60 years, elevated LDH level, extra-nasal primary site, and regional lymph node involvement were significantly associated with lower 5-year PFS rate. The nomogram included the primary site and regional lymph node involvement based on multivariate analysis. The calibration curve showed good agreement between the predicted and actual 5-year OS and PFS rates, and the C-indexes of the nomogram for the OS and PFS rates were 0.697 and 0.634, respectively. The primary site and regional lymph node involvement are independent prognostic factors for early-stage ENKTCL treated with chemotherapy followed by definitive radiotherapy.

Better Together: Co-Location of Dental and Primary Care Provides Opportunities to Improve Oral Health.

PubMed

Pourat, Nadereh; Martinez, Ana E; Crall, James J

2015-09-01

Community Health Centers (CHCs) are one of the principal safety-net providers of health care for low-income and uninsured populations. Co-locating dental services in primary care settings provides an opportunity to improve access to dental care. Yet this study of California CHCs that provide primary care services shows that only about one-third of them co-located primary and dental care services on-site. An additional one-third were members of multisite organizations in which at least one other site provided dental care. The remaining one-third of CHC sites had no dental care capacity. Policy options to promote co-location include requiring on-site availability of dental services, providing infrastructure funding to build and equip dental facilities, and offering financial incentives to provide dental care and recruit dental providers.

Vaginal type-II mucosa is an inductive site for primary CD8+ T-cell mucosal immunity

PubMed Central

Wang, Yichuan; Sui, Yongjun; Kato, Shingo; Hogg, Alison E.; Steel, Jason C.; Morris, John C.; Berzofsky, Jay A.

2014-01-01

The structured lymphoid tissues are considered the only inductive sites where primary T cell immune responses occur. The naïve T cells in structured lymphoid tissues, once being primed by antigen -bearing dendritic cells, differentiate into memory T cells and traffic back to the mucosal sites through the bloodstream. Contrary to this belief, here we show that the vaginal type-II mucosa itself, despite lack of structured lymphoid tissues, can act as an inductive site during primary CD8+ T cell immune responses. We provide evidence that the vaginal mucosa supports both the local immune priming of naïve CD8+ T cells and the local expansion of antigen-specific CD8+ T cells, thereby demonstrating a different paradigm for primary mucosal T cell immune induction. PMID:25600442

Clinical, Biologic, and Prognostic Differences on the Basis of Primary Tumor Site in Neuroblastoma: A Report From the International Neuroblastoma Risk Group Project

PubMed Central

Vo, Kieuhoa T.; Matthay, Katherine K.; Neuhaus, John; London, Wendy B.; Hero, Barbara; Ambros, Peter F.; Nakagawara, Akira; Miniati, Doug; Wheeler, Kate; Pearson, Andrew D.J.; Cohn, Susan L.; DuBois, Steven G.

2014-01-01

Purpose Neuroblastoma (NB) is a heterogeneous tumor arising from sympathetic tissues. The impact of primary tumor site in influencing the heterogeneity of NB remains unclear. Patients and Methods Children younger than age 21 years diagnosed with NB or ganglioneuroblastoma between 1990 and 2002 and with known primary site were identified from the International Neuroblastoma Risk Group database. Data were compared between sites with respect to clinical and biologic features, as well as event-free survival (EFS) and overall survival (OS). Results Among 8,369 children, 47% had adrenal tumors. All evaluated clinical and biologic variables differed statistically between primary sites. The features that were > 10% discrepant between sites were stage 4 disease, MYCN amplification, elevated ferritin, elevated lactate dehydrogenase, and segmental chromosomal aberrations, all of which were more frequent in adrenal versus nonadrenal tumors (P < .001). Adrenal tumors were more likely than nonadrenal tumors (adjusted odds ratio, 2.09; 95% CI, 1.67 to 2.63; P < .001) and thoracic tumors were less likely than nonthoracic tumors (adjusted odds ratio, 0.20; 95% CI, 0.11 to 0.39; P < .001) to have MYCN amplification after controlling for age, stage, and histologic grade. EFS and OS differed significantly according to the primary site (P < .001 for both comparisons). After controlling for age, MYCN status, and stage, patients with adrenal tumors had higher risk for events (hazard ratio, 1.13 compared with nonadrenal tumors; 95% CI, 1.03 to 1.23; P = .008), and patients with thoracic tumors had lower risk for events (HR, 0.79 compared with nonthoracic; 95% CI, 0.67 to 0.92; P = .003). Conclusion Clinical and biologic features show important differences by NB primary site, with adrenal and thoracic sites associated with inferior and superior survival, respectively. Future studies will need to investigate the biologic origin of these differences. PMID:25154816

Model-based recursive partitioning to identify risk clusters for metabolic syndrome and its components: findings from the International Mobility in Aging Study

PubMed Central

Pirkle, Catherine M; Wu, Yan Yan; Zunzunegui, Maria-Victoria; Gómez, José Fernando

2018-01-01

Objective Conceptual models underpinning much epidemiological research on ageing acknowledge that environmental, social and biological systems interact to influence health outcomes. Recursive partitioning is a data-driven approach that allows for concurrent exploration of distinct mixtures, or clusters, of individuals that have a particular outcome. Our aim is to use recursive partitioning to examine risk clusters for metabolic syndrome (MetS) and its components, in order to identify vulnerable populations. Study design Cross-sectional analysis of baseline data from a prospective longitudinal cohort called the International Mobility in Aging Study (IMIAS). Setting IMIAS includes sites from three middle-income countries—Tirana (Albania), Natal (Brazil) and Manizales (Colombia)—and two from Canada—Kingston (Ontario) and Saint-Hyacinthe (Quebec). Participants Community-dwelling male and female adults, aged 64–75 years (n=2002). Primary and secondary outcome measures We apply recursive partitioning to investigate social and behavioural risk factors for MetS and its components. Model-based recursive partitioning (MOB) was used to cluster participants into age-adjusted risk groups based on variabilities in: study site, sex, education, living arrangements, childhood adversities, adult occupation, current employment status, income, perceived income sufficiency, smoking status and weekly minutes of physical activity. Results 43% of participants had MetS. Using MOB, the primary partitioning variable was participant sex. Among women from middle-incomes sites, the predicted proportion with MetS ranged from 58% to 68%. Canadian women with limited physical activity had elevated predicted proportions of MetS (49%, 95% CI 39% to 58%). Among men, MetS ranged from 26% to 41% depending on childhood social adversity and education. Clustering for MetS components differed from the syndrome and across components. Study site was a primary partitioning variable for all components except HDL cholesterol. Sex was important for most components. Conclusion MOB is a promising technique for identifying disease risk clusters (eg, vulnerable populations) in modestly sized samples. PMID:29500203

Changes in production and respiration during a spring phytoplankton bloom in San Francisco Bay, California, USA: Implications for net ecosystem metabolism

USGS Publications Warehouse

Caffrey, J.M.; Cloern, J.E.; Grenz, C.

1998-01-01

We present results of an intensive sampling program designed to measure weekly changes in ecosystem respiration (oxygen consumption in the water column and sediments) around the 1996 spring bloom in South San Francisco Bay, California, USA. Measurements were made at a shallow site (2 m, where mean photic depth was 60% of the water column height) and a deep site (15 m, mean photic depth was only 20% of the water column). We also estimated phytoplankton primary production weekly at both sites to develop estimates of net oxygen flux as the sum of pelagic production (PP), pelagic respiration (PR) and benthic respiration (BR). Over the 14 wk period from February 5 to May 14, PP ranged from 2 to 210, PR from 9 to 289, and BR from 0.1 to 48 mmol O2 m-2 d-1, illustrating large variability of estuarine oxygen fluxes at the weekly time scale. Pelagic production exceeded total respiration at the shallow site, but not at the deep site, demonstrating that the shallow domains are net autotrophic but the deep domains are net heterotrophic, even during the period of the spring bloom. If we take into account the potential primary production by benthic microalgae, the estuary as a whole is net autotrophic during spring, net heterotrophic during the nonbloom seasons, and has a balanced net metabolism over a full annual period. The seasonal shift from net autotrophy to heterotrophy during the transition from spring to summer was accompanied by a large shift from dominance by pelagic respiration to dominance by benthic respiration. This suggests that changes in net ecosystem metabolism can reflect changes in the pathways of energy flow in shallow coastal ecosystems.

Histomorphometrical analysis following augmentation of infected extraction sites exhibiting severe bone loss and primarily closed by intrasocket reactive soft tissue.

PubMed

Mardinger, Ofer; Vered, Marilena; Chaushu, Gavriel; Nissan, Joseph

2012-06-01

Intrasocket reactive soft tissue can be used for primary closure during augmentation of infected extraction sites exhibiting severe bone loss prior to implant placement. The present study evaluated the histological characteristics of the initially used intrasocket reactive soft tissue, the overlying soft tissue, and the histomorphometry of the newly formed bone during implant placement. Thirty-six consecutive patients (43 sites) were included in the study. Extraction sites demonstrating extensive bone loss on preoperative periapical and panoramic radiographs served as inclusion criteria. Forty-three implants were inserted after a healing period of 6 months. Porous bovine xenograft bone mineral was used as a single bone substitute. The intrasocket reactive soft tissue was sutured over the grafting material to seal the coronal portion of the socket. Biopsies of the intrasocket reactive soft tissue at augmentation, healed mucosa, and bone cores at implant placement were retrieved and evaluated. The intrasocket reactive soft tissue demonstrated features compatible with granulation tissue and long junctional epithelium. The mucosal samples at implant placement demonstrated histopathological characteristics of keratinized mucosa with no residual elements of granulation tissue. Histomorphometrically, the mean composition of the bone cores was - vital bone 40 ± 19% (13.7-74.8%); bone substitute 25.7 ± 13% (0.6-51%); connective tissue 34.3 ± 15% (13.8-71.9%). Intrasocket reactive soft tissue used for primary closure following ridge augmentation is composed of granulation tissue and long junctional epithelium. At implant placement, clinical and histological results demonstrate its replacement by keratinized gingiva. The histomorphometrical results reveal considerable bone formation. Fresh extraction sites of hopeless teeth demonstrating chronic infection and severe bone loss may be grafted simultaneously with their removal. © 2010 Wiley Periodicals, Inc.

Design of the primary pre-TRMM and TRMM ground truth site

NASA Technical Reports Server (NTRS)

Garstang, Michael

1988-01-01

The primary objective of the Tropical Rain Measuring Mission (TRMM) were to: integrate the rain gage measurements with radar measurements of rainfall using the KSFC/Patrick digitized radar and associated rainfall network; delineate the major rain bearing systems over Florida using the Weather Service reported radar/rainfall distributions; combine the integrated measurements with the delineated rain bearing systems; use the results of the combined measurements and delineated rain bearing systems to represent patterns of rainfall which actually exist and contribute significantly to the rainfall to test sampling strategies and based on the results of these analyses decide upon the ground truth network; and complete the design begun in Phase 1 of a multi-scale (space and time) surface observing precipitation network centered upon KSFC. Work accomplished and in progress is discussed.

CAN A MODEL TRANSFERABILITY FRAMEWORK IMPROVE ECOSYSTEM SERVICE ESTIMATES? A CASE STUDY OF SOIL FOREST CARBON SEQUESTRATION IN TILLAMOOK BAY, OR, USA

EPA Science Inventory

Budget constraints and policies that limit primary data collection have fueled a practice of transferring estimates (or models to generate estimates) of ecological endpoints from sites where primary data exists to sites where little to no primary data were collected. Whereas bene...

Comparing homeless persons' care experiences in tailored versus nontailored primary care programs.

PubMed

Kertesz, Stefan G; Holt, Cheryl L; Steward, Jocelyn L; Jones, Richard N; Roth, David L; Stringfellow, Erin; Gordon, Adam J; Kim, Theresa W; Austin, Erika L; Henry, Stephen Randal; Kay Johnson, N; Shanette Granstaff, U; O'Connell, James J; Golden, Joya F; Young, Alexander S; Davis, Lori L; Pollio, David E

2013-12-01

We compared homeless patients' experiences of care in health care organizations that differed in their degree of primary care design service tailoring. We surveyed homeless-experienced patients (either recently or currently homeless) at 3 Veterans Affairs (VA) mainstream primary care settings in Pennsylvania and Alabama, a homeless-tailored VA clinic in California, and a highly tailored non-VA Health Care for the Homeless Program in Massachusetts (January 2011-March 2012). We developed a survey, the "Primary Care Quality-Homeless Survey," to reflect the concerns and aspirations of homeless patients. Mean scores at the tailored non-VA site were superior to those from the 3 mainstream VA sites (P < .001). Adjusting for patient characteristics, these differences remained significant for subscales assessing the patient-clinician relationship (P < .001) and perceptions of cooperation among providers (P = .004). There were 1.5- to 3-fold increased odds of an unfavorable experience in the domains of the patient-clinician relationship, cooperation, and access or coordination for the mainstream VA sites compared with the tailored non-VA site; the tailored VA site attained intermediate results. Tailored primary care service design was associated with a superior service experience for patients who experienced homelessness.

Energy Balance of Rural Ecosystems In India

NASA Astrophysics Data System (ADS)

Chhabra, A.; Madhava Rao, V.; Hermon, R. R.; Garg, A.; Nag, T.; Bhaskara Rao, N.; Sharma, A.; Parihar, J. S.

2014-11-01

India is predominantly an agricultural and rural country. Across the country, the villages vary in geographical location, area, human and livestock population, availability of resources, agricultural practices, livelihood patterns etc. This study presents an estimation of net energy balance resulting from primary production vis-a-vis energy consumption through various components in a "Rural Ecosystem". Seven sites located in different agroclimatic regions of India were studied. An end use energy accounting "Rural Energy Balance Model" is developed for input-output analysis of various energy flows of production, consumption, import and export through various components of crop, trees outside forest plantations, livestock, rural households, industry or trade within the village system boundary. An integrated approach using field, ancillary, GIS and high resolution IRS-P6 Resourcesat-2 LISS IV data is adopted for generation of various model inputs. The primary and secondary field data collection of various energy uses at household and village level were carried out using structured schedules and questionnaires. High resolution multi-temporal Resourcesat-2 LISS IV data (2013-14) was used for generating landuse/landcover maps and estimation of above-ground Trees Outside Forests phytomass. The model inputs were converted to energy equivalents using country-specific energy conversion factors. A comprehensive geotagged database of sampled households and available resources at each study site was also developed in ArcGIS framework. Across the study sites, the estimated net energy balance ranged from -18.8 Terra Joules (TJ) in a high energy consuming Hodka village, Gujarat to 224.7 TJ in an agriculture, aquaculture and plantation intensive Kollaparru village, Andhra Pradesh. The results indicate that the net energy balance of a Rural Ecosystem is largely driven by primary production through crops and natural vegetation. This study provides a significant insight to policy relevant recommendations for Energy Sustainable Rural India.

Is Privacy at Risk when Commercial Websites Target Primary School Children? A Case Study in Korea

ERIC Educational Resources Information Center

Kim, Sora; Yi, Soon-Hyung

2010-01-01

This study discusses privacy risk factors when commercial web sites target primary school children in Korea. Specifically, the authors examined types of personal information required for membership subscriptions and whether privacy policies at commercial sites for children abide by privacy guidelines. A total of 159 commercial sites targeting…

Organotropism and prognostic marker discordance in distant metastases of breast carcinoma: fact or fiction? A clinicopathologic analysis.

PubMed

St Romain, Paul; Madan, Rashna; Tawfik, Ossama W; Damjanov, Ivan; Fan, Fang

2012-03-01

Prior studies have suggested that the type of breast cancer influences the location of distant metastases ("organotropism") and that there may be discordance of estrogen receptor and human epidermal growth factor receptor 2 (Her2) expression between primaries and metastases. Our aims were to investigate the relationship between tumor type and metastatic site and to compare biomarker expression between primary and metastatic tumors. We retrospectively reviewed 102 biopsy-proven cases of breast cancer metastatic to distant sites from 2000 to 2010 and 34 corresponding primaries for histologic subtype, grade, lymphovascular invasion, lymph node metastasis, and expression of estrogen receptor and Her2. Most metastases were of ductal (88) and lobular (11) histologic types. Available data on primaries indicated that the majority were grade III with positive lymph node metastasis and lymphovascular invasion. Biomarkers on 73 metastases showed 37 estrogen receptor positive/Her2-, 6 estrogen receptor positive/Her2+, 8 estrogen receptor negative/Her2+, and 22 estrogen receptor negative/Her2-. The most common metastatic sites were the lung (26%), bone (32%), and liver (21%). We found no association between estrogen receptor/Her2 profile and metastatic site (P = .16). When compared with ductal carcinoma, lobular carcinoma showed a unique metastatic pattern to gastrointestinal tract/gynecologic sites (P = .014). Of 34 cases with paired prognostic markers for primary and metastatic sites, 7 (20%) demonstrated discordance in estrogen receptor-positive/Her2 profile between the primary and the metastasis. Because the estrogen receptor-positive/Her2 profile of metastatic breast cancer did not always match that of the primary tumor, it is important to repeat the prognostic markers of metastasis. Copyright © 2012 Elsevier Inc. All rights reserved.

Importance of seep primary production to Lophelia pertusa and associated fauna in the Gulf of Mexico

NASA Astrophysics Data System (ADS)

Becker, Erin L.; Cordes, Erik E.; Macko, Stephen A.; Fisher, Charles R.

2009-05-01

To investigate the importance of seep primary production to the nutrition of Lophelia pertusa and associated communities and examine local trophic interactions, we analyzed stable carbon, nitrogen, and sulfur compositions in seven quantitative L. pertusa community collections. A significant seep signature was only detected in one of the 35 species tested ( Provanna sculpta, a common seep gastropod) despite the presence of seep fauna at the three sample sites. A potential predator of L. pertusa was identified ( Coralliophila sp.), and a variety of other trophic interactions among the fauna occupying the coral framework were suggested by the data, including the galatheid crab Munidopsis sp. 2 feeding upon hydroids and the polychaete Eunice sp. feeding upon the sabellid polychaete Euratella sp. Stable carbon abundances were also determined for different sections of L. pertusa skeleton representing different stages in the growth and life of the aggregation. There was no temporal trend detected in the skeleton isotope values, suggesting that L. pertusa settles in these areas only after seepage has largely subsided. Isotope values of individual taxa that were collected from both L. pertusa and vestimentiferan habitats showed decreasing reliance upon seep primary production with average age of the vestimentiferan aggregation, and finally, no seep signature was detected in the coral collections. Together our data suggest that it is the presence of authigenic carbonate substrata, a product of past seep microbial activity, as well as hydrodynamic processes that drive L. pertusa occurrence at seep sites in the Gulf of Mexico, not nutritional dependence upon primary production by seep microbes.

Surgical Treatment of Metastatic Ovarian Tumors From Extragenital Primary Sites.

PubMed

Sal, Veysel; Demirkiran, Fuat; Topuz, Samet; Kahramanoglu, Ilker; Yalcin, Ibrahim; Bese, Tugan; Sozen, Hamdullah; Tokgozoglu, Nedim; Salihoglu, Yavuz; Turan, Hasan; Iyibozkurt, Cem; Kolomuc, Tugba; Sofiyeva, Nigar; Berkman, Sinan; Arvas, Macit

2016-05-01

The purpose of this study was to investigate the outcomes and prognostic factors of metastasectomy in patients with metastatic ovarian tumors from extragenital primary sites. All patients with pathologically confirmed metastatic ovarian tumors between January 1997 and June 2015 were included in this study. A total of 131 patients were identified. The data were obtained from the patients' medical records. Clinicopathological features were evaluated by both univariate and multivariate analyses. The primary sites were colorectal region (53.4%), stomach (26%), and breast (13%). Preoperative serum CA 125 and CA 19-9 levels were elevated in 29.4% and 39.8% of the patients, respectively. Cytoreductive surgery was performed in 41.2% of the patients. Seventy-three (55.7%) patients had no residual disease after surgery. Sixty-six (49.6%) patients had combined metastases at the time of the surgery to sites including the liver, pancreas, lung, bone, lymph nodes, bladder, or the intestine. With a median follow-up of 33 months, the median survival time was 22 months. The estimated 5-year survival probability is 0.26. On univariate analysis, primary cancer site, combined metastasis outside the ovaries, residual disease, preoperative serum CA 125 and CA 19-9 levels, and histologic type were significant parameters for overall survival. Furthermore, residual disease, preoperative serum CA 19-9 level, and primary cancer site were found to be independent prognostic factors on multivariate analysis. The most common primary sites for ovarian metastasis are gastrointestinal tract. Metastasectomy may have beneficial effects on survival, especially if the residual disease is less than 5 mm. Prospective studies warranted to evaluate the value of metastasectomy in patients with ovarian metastasis.

The Fracture of Relational Space in Depression: Predicaments in Primary Care Help Seeking

PubMed Central

Bromley, Elizabeth; Kennedy, David; Miranda, Jeanne; Sherbourne, Cathy Donald; Wells, Kenneth B.

2015-01-01

Primary care clinicians treat the majority of cases of depression in the United States. The primary care clinic is also a site for enactment of a disease-oriented concept of depression that locates disorder within an individual body. Drawing on theories of the self and stigma, this article highlights problematics of primary care depression treatment by examining the lived experience of depression. The data come from individuals who screened positive for depressive symptoms in primary care settings and were followed over ten years. After iterative mixed-methodological exploration of a large dataset, we analyzed interviews from a purposive sample of 46 individuals using grounded and phenomenological approaches. We describe two major results. First, we note that depression is experienced as located within and inextricable from relational space and that the self is experienced as relational, rather than autonomous, in depression. Second, we describe the ways in which the experience of depression contradicts a disease-oriented concept such that help-seeking intensifies rather than alleviates the relational problem of depression. We conclude by highlighting that an understanding of illness experience may be essential to improving primary care depression treatment and by questioning the bracketing of relational concerns in depression within the construct of stigma. PMID:27990025

Stimulation of soil nitrification and denitrification by grazing in grasslands: do changes in plant species composition matter?

PubMed

Le Roux, X; Bardy, M; Loiseau, P; Louault, F

2003-11-01

Stimulation of nitrification and denitrification by long term (from years to decades) grazing has commonly been reported in different grassland ecosystems. However, grazing generally induces important changes in plant species composition, and whether changes in nitrification and denitrification are primarily due to changes in vegetation composition has never been tested. We compared soil nitrification- and denitrification-enzyme activities (NEA and DEA, respectively) between semi-natural grassland sites experiencing intensive (IG) and light (LG) grazing/mowing regimes for 13 years. Mean NEA and DEA (i.e. observed from random soil sampling) were higher in IG than LG sites. The NEA/DEA ratio was higher in IG than LG sites, indicating a higher stimulation of nitrification. Marked changes in plant species composition were observed in response to the grazing/mowing regime. In particular, the specific phytomass volume of Elymus repens was lower in IG than LG sites, whereas the specific volume of Lolium perenne was higher in IG than LG sites. In contrast, the specific volume of Holcus lanatus, Poa trivialis and Arrhenatherum elatius were not significantly different between treatments. Soils sampled beneath grass tussocks of the last three species exhibited higher DEA, NEA and NEA/DEA ratio in IG than LG sites. For a given grazing regime, plant species did not affect significantly soil DEA, NEA and NEA/DEA ratio. The modification of plant species composition is thus not the primary factor driving changes in nitrification and denitrification in semi-natural grassland ecosystems experiencing long term intensive grazing. Factors such as trampling, N returned in animal excreta, and/or modification of N uptake and C exudation by frequently defoliated plants could be responsible for the enhanced microbial activities.

An ex vivo human aqueous humor-concentration comparison of two commercial bromfenac formulations

PubMed Central

Walters, Thomas R; Smyth-Medina, Robert J; Cockrum, Paul C

2018-01-01

Purpose The purpose of this study was to quantify the concentration of bromfenac in the aqueous humor utilizing high-performance liquid chromatography mass spectrometry between two commercial nonsteroidal anti-inflammatory drugs, using aqueous humor concentrations to characterize pharmacokinetic proportional differences between 0.075% bromfenac ophthalmic solution in DuraSite (BromSite®) and 0.09% bromfenac ophthalmic solution (Bromday®). Methods In this multicenter, randomized, double-masked, two-arm, parallel-group, comparative, Phase II clinical trial, subjects were assigned to receive bromfenac in DuraSite or bromfenac ophthalmic solution in a 1:1 ratio. One drop of the masked test article was instilled into the study eye once a day for 2 days prior to and 3 hours prior (last instillation) to the subject’s cataract surgery. Aqueous humor samples were collected upon initial cataract incision for analysis of bromfenac levels. The primary end point was aqueous humor concentration of bromfenac at Day 3, at the initiation of cataract surgery. Aqueous humor samples were collected and analyzed for bromfenac levels. Results A total of 60 subjects completed the study, 30 in each group. The mean bromfenac aqueous humor concentration in subjects who received bromfenac in DuraSite was more than twice (49.33±41.87 ng/mL, P=0.004) that of subjects who received bromfenac ophthalmic solution (23.65±16.31 ng/mL) after three doses. Conclusion Mean bromfenac aqueous humor concentration in subjects receiving the DuraSite-containing bromfenac in DuraSite (0.075%) was significantly higher compared to subjects receiving bromfenac ophthalmic solution (0.09%) after 3 days of dosing. PMID:29849449

Gaseous and Freely-Dissolved PCBs in the Lower Great Lakes Based on Passive Sampling: Spatial Trends and Air-Water Exchange.

PubMed

Liu, Ying; Wang, Siyao; McDonough, Carrie A; Khairy, Mohammed; Muir, Derek C G; Helm, Paul A; Lohmann, Rainer

2016-05-17

Polyethylene passive sampling was performed to quantify gaseous and freely dissolved polychlorinated biphenyls (PCBs) in the air and water of Lakes Erie and Ontario during 2011-2012. In view of differing physical characteristics and the impacts of historical contamination by PCBs within these lakes, spatial variation of PCB concentrations and air-water exchange across these lakes may be expected. Both lakes displayed statistically similar aqueous and atmospheric PCB concentrations. Total aqueous concentrations of 29 PCBs ranged from 1.5 pg L(-1) in the open lake of Lake Erie (site E02) in 2011 spring to 105 pg L(-1) in Niagara (site On05) in 2012 summer, while total atmospheric concentrations were 7.7-634 pg m(-3) across both lakes. A west-to-east gradient was observed for aqueous PCBs in Lake Erie. River discharge and localized influences (e.g., sediment resuspension and regional alongshore transport) likely dominated spatial trends of aqueous PCBs in both lakes. Air-water exchange fluxes of Σ7PCBs ranged from -2.4 (±1.9) ng m(-2) day(-1) (deposition) in Sheffield (site E03) to 9.0 (±3.1) ng m(-2) day(-1) (volatilization) in Niagara (site On05). Net volatilization of PCBs was the primary trend across most sites and periods. Almost half of variation in air-water exchange fluxes was attributed to the difference in aqueous concentrations of PCBs. Uncertainty analysis in fugacity ratios and mass fluxes in air-water exchange of PCBs indicated that PCBs have reached or approached equilibrium only at the eastern Lake Erie and along the Canadian shore of Lake Ontario sites, where air-water exchange fluxes dominated atmospheric concentrations.

Quality of Streams in Johnson County, Kansas, and Relations to Environmental Variables, 2003-07

USGS Publications Warehouse

Rasmussen, Teresa J.; Poulton, Barry C.; Graham, Jennifer L.

2009-01-01

The quality of streams and relations to environmental variables in Johnson County, northeastern Kansas, were evaluated using water, streambed sediment, land use, streamflow, habitat, algal periphyton (benthic algae), and benthic macroinvertebrate data. Water, streambed sediment, and macroinvertebrate samples were collected in March 2007 during base flow at 20 stream sites that represent 11 different watersheds in the county. In addition, algal periphyton samples were collected twice (spring and summer 2007) at one-half of the sites. Environmental data including water and streambed-sediment chemistry data (primarily nutrients, fecal-indicator bacteria, and organic wastewater compounds), land use, streamflow, and habitat data were used in statistical analyses to evaluate relations between biological conditions and variables that may affect them. This report includes an evaluation of water and streambed-sediment chemistry, assessment of habitat conditions, comparison of biological community attributes (such as composition, diversity, and abundance) among sampling sites, placement of sampling sites into impairment categories, evaluation of biological data relative to environmental variables, and evaluation of changes in biological communities and effects of urbanization. This evaluation is useful for understanding factors that affect stream quality, for improving water-quality management programs, and for documenting changing conditions over time. The information will become increasingly important for protecting streams in the future as urbanization continues. Results of this study indicate that the biological quality at nearly all biological sampling sites in Johnson County has some level of impairment. Periphyton taxa generally were indicative of somewhat degraded conditions with small to moderate amounts of organic enrichment. Camp Branch in the Blue River watershed was the only site that met State criteria for full support of aquatic life in 2007. Since 2003, biological quality improved at one rural sampling site, possibly because of changes in wastewater affecting the site, and declined at three urban sites possibly because of the combined effects of ongoing development. Rural streams in the western and southern parts of the county, with land-use conditions similar to those found at the State reference site (Captain Creek), continue to support some organisms normally associated with healthy streams. Several environmental factors contribute to biological indicators of stream quality. The primary factor explaining biological quality at sites in Johnson County was the amount of urbanization upstream in the watershed. Specific conductance of stream water, which is a measure of dissolved solids in water and is determined primarily by the amount of groundwater contributing to streamflow, the amount of urbanization, and discharges from wastewater and industrial sites, was strongly negatively correlated with biological stream quality as indicated by macroinvertebrate metrics. Concentration of polycyclic aromatic hydrocarbons (PAHs) in streambed sediment also was negatively correlated with biological stream quality. Individual habitat variables that most commonly were positively correlated with biological indicators included stream sinuosity, buffer length, and substrate cover diversity. Riffle substrate embeddedness and sediment deposition commonly were negatively correlated with favorable metric scores. Statistical analysis indicated that specific conductance, impervious surface area (a measure of urbanization), and stream sinuosity explained 85 percent of the variance in macroinvertebrate communities. Management practices affecting environmental variables that appear to be most important for Johnson County streams include protection of stream corridors, measures that reduce the effects of impervious surfaces associated with urbanization, reduction of dissolved solids in stream water, reduction of PAHs entering streams and

Results of external quality-assurance program for the National Atmospheric Deposition Program and National Trends Network during 1985

USGS Publications Warehouse

Brooks, M.H.; Schroder, L.J.; Willoughby, T.C.

1988-01-01

External quality assurance monitoring of the National Atmospheric Deposition Program (NADP) and National Trends Network (NTN) was performed by the U.S. Geological Survey during 1985. The monitoring consisted of three primary programs: (1) an intersite comparison program designed to assess the precision and accuracy of onsite pH and specific conductance measurements made by NADP and NTN site operators; (2) a blind audit sample program designed to assess the effect of routine field handling on the precision and bias of NADP and NTN wet deposition data; and (3) an interlaboratory comparison program designed to compare analytical data from the laboratory processing NADP and NTN samples with data produced by other laboratories routinely analyzing wet deposition samples and to provide estimates of individual laboratory precision. An average of 94% of the site operators participated in the four voluntary intersite comparisons during 1985. A larger percentage of participating site operators met the accuracy goal for specific conductance measurements (average, 87%) than for pH measurements (average, 67%). Overall precision was dependent on the actual specific conductance of the test solution and independent of the pH of the test solution. Data for the blind audit sample program indicated slight positive biases resulting from routine field handling for all analytes except specific conductance. These biases were not large enough to be significant for most data users. Data for the blind audit sample program also indicated that decreases in hydrogen ion concentration were accompanied by decreases in specific conductance. Precision estimates derived from the blind audit sample program indicate that the major source of uncertainty in wet deposition data is the routine field handling that each wet deposition sample receives. Results of the interlaboratory comparison program were similar to results of previous years ' evaluations, indicating that the participating laboratories produced comparable data when they analyzed identical wet deposition samples, and that the laboratory processing NADP and NTN samples achieved the best analyte precision of the participating laboratories. (Author 's abstract)

In situ analysis of Mars soil sample with the sam gcms instrumentation onboard Curiosity : interpretation and comparison of measurements done at Rocknest and Yelloknife bay sites

NASA Astrophysics Data System (ADS)

Szopa, Cyril; Coll, Patrice; Cabane, Michel; Coscia, David; Buch, Arnaud; Francois, Pascaline; Millan, Maeva; Teinturier, Sammy; Navarro-Gonzales, Rafael; Glavin, Daniel; Freissinet, Caro; Steele, Andrew; Eigenbrode, Jen; Mahaffy, Paul

2014-05-01

The characterisation of the chemical and mineralogical composition of regolith samples collected with the Curiosity rover is a primary objective of the SAM experiment. These data should provide essential clues on the past habitability of Gale crater. Amongst the SAM suite of instruments [1], SAM-GC (Gas Chromatograph) is devoted to identify and quantify volatiles evolved from the thermal (heating up to about 900°C)/chemical (derivatization procedure) treatment of any soil sample collected by the Curiosity rover. With the aim to search for potential organic molecules outgassed from the samples, a SAM-GC analytical channel composed of thermal-desorption injector and a MXT-CLP chromatographic column was chosen to achieve all the measurements done up today, as it was designed for the separation of a wide range of volatile organic molecules. Three solid samples have been analyzed with GCMS, one sand sample collected at the Rocknest site, and two rock samples (John Klein and Cumberland respectively) collected at the Yellowknife Bay site using the Curiosity driller. All the measurements were successful and they produced complex chromatograms with both detectors used for SAM GC, i.e. a thermal conductivity detector and the SAM quandrupole mass spectrometer. Their interpretation already revealed the presence of an oxychlorine phase present in the sample which is at the origin of chlorohydrocarbons clearly identified [2] but this represents only a fraction of the GCMS signal recorded [3,4]. This work presents a systematic comparison of the GCMS measurements done for the different samples collected, supported by reference data obtained in laboratory with different spare models of the gas chromatograph, with the aim to bring new elements of interpretation of the SAM measurements. References: [1] Mahaffy, P. et al. (2012) Space Sci Rev, 170, 401-478. [2] Glavin, D. et al. (2013), JGR. [3] Leshin L. et al. (2013), Science, [4] Ming D. et al. (2013), Science, 32, 64-67. Acknowledgements: SAM-GC team acknowledges support from the French Space Agency (CNES), French National Programme of Planetology (PNP), National French Council (CNRS), Pierre Simon Laplace Institute, Institut Universitaire de France (IUF) and ESEP Labex.

Physical and chemical properties of aerosols at a coastal site Paposo (Chile) during VOCALS campaign

NASA Astrophysics Data System (ADS)

Cordova, A. M.; Chand, D.; Wood, R.; Wallace, D.; Hegg, D. A.; Shaw, G. E.; Krejci, R.; Fochesatto, G. J.; Gallardo, L.

2009-12-01

One of the primary goals of the VOCALS (VAMOS* Ocean-Cloud-Atmosphere-Land Study) Regional Experiment (REx) and associated modeling program is an improved understanding of aerosol indirect effects over the southeast Pacific (SEP). Details on the program are available online at www.eol.ucar.edu/projects/vocals/. To this end, detailed aerosol physical and chemical measurements were made during REx at a coastal land site at Paposo (25o 0.4' S, 70o 27.011' W, 690 masl) in northern Chile, a site ideally positioned for studying continental aerosol sources advecting over the SEP. We present initial analysis of data from Paposo. Detailed measurements of aerosol properties were made from mid October to mid November 2008. Observations from optical particle counters (OPC), nephelometers, aethalometer, scanning mobility particle sizer (SMPS) and the chemical analysis of the submicron aerosols samples collected on teflon filters are being used in this study. Large variations in aerosols parameters were observed which corresponded with changes in meteorology, as determined using trajectory analysis. Ion Chromatograph (IC) analysis of submicron aerosol samples shows that about 41% of submicron mass is sulfate. The light scattering coefficient shows a strong non-linear correlation with aerosol size observed using an OPC. Detailed results will be presented in the AGU meeting.

Maturation of the infant microbiome community structure and function across multiple body sites and in relation to mode of delivery.

PubMed

Chu, Derrick M; Ma, Jun; Prince, Amanda L; Antony, Kathleen M; Seferovic, Maxim D; Aagaard, Kjersti M

2017-03-01

Human microbial communities are characterized by their taxonomic, metagenomic and metabolic diversity, which varies by distinct body sites and influences human physiology. However, when and how microbial communities within each body niche acquire unique taxonomical and functional signatures in early life remains underexplored. We thus sought to determine the taxonomic composition and potential metabolic function of the neonatal and early infant microbiota across multiple body sites and assess the effect of the mode of delivery and its potential confounders or modifiers. A cohort of pregnant women in their early third trimester (n = 81) were prospectively enrolled for longitudinal sampling through 6 weeks after delivery, and a second matched cross-sectional cohort (n = 81) was additionally recruited for sampling once at the time of delivery. Samples across multiple body sites, including stool, oral gingiva, nares, skin and vagina were collected for each maternal-infant dyad. Whole-genome shotgun sequencing and sequencing analysis of the gene encoding the 16S rRNA were performed to interrogate the composition and function of the neonatal and maternal microbiota. We found that the neonatal microbiota and its associated functional pathways were relatively homogeneous across all body sites at delivery, with the notable exception of the neonatal meconium. However, by 6 weeks after delivery, the infant microbiota structure and function had substantially expanded and diversified, with the body site serving as the primary determinant of the composition of the bacterial community and its functional capacity. Although minor variations in the neonatal (immediately at birth) microbiota community structure were associated with the cesarean mode of delivery in some body sites (oral gingiva, nares and skin; R 2 = 0.038), this was not true for neonatal stool (meconium; Mann-Whitney P > 0.05), and there was no observable difference in community function regardless of delivery mode. For infants at 6 weeks of age, the microbiota structure and function had expanded and diversified with demonstrable body site specificity (P < 0.001, R 2 = 0.189) but without discernable differences in community structure or function between infants delivered vaginally or by cesarean surgery (P = 0.057, R 2 = 0.007). We conclude that within the first 6 weeks of life, the infant microbiota undergoes substantial reorganization, which is primarily driven by body site and not by mode of delivery.

Maturation of the Infant Microbiome Community Structure and Function Across Multiple Body Sites and in Relation to Mode of Delivery

PubMed Central

Chu, Derrick M.; Ma, Jun; Prince, Amanda L.; Antony, Kathleen M.; Seferovic, Maxim D.; Aagaard, Kjersti M.

2017-01-01

Human microbial communities are characterized by their taxonomic, metagenomic, and metabolic diversity, which varies by distinct body sites and influences human physiology. However, when and how microbial communities within each body niche acquire unique taxonomical and functional signatures in early life remains underexplored. We thus sought to assess the taxonomic composition and potential metabolic function of the neonatal and early infant microbiota across multiple body sites, and assess the impact of mode of delivery and its potential confounders or modifiers. A cohort of pregnant women in their early 3rd trimester (n=81) were prospectively enrolled for longitudinal sampling through 6 weeks post-delivery, and a second matched cross-sectional cohort (n=81) was additionally recruited for sampling once at delivery. Samples were collected for each maternal-infant dyad across multiple body sites, including stool, oral gingiva, nares, skin and vagina. 16S rRNA gene sequencing analysis and whole genome shotgun sequencing was performed to interrogate the composition and function of the neonatal and maternal microbiota. We found that the neonatal microbiota and its associated functional pathways were relatively homogenous across all body sites at delivery, with the notable exception of neonatal meconium. However, by 6 weeks, the infant microbiota structure and function had significantly expanded and diversified, with body site serving as the primary determinant of the bacterial community composition and its functional capacity. Although minor variations in the neonatal (immediately at birth) microbiota community structure were associated with Cesarean delivery in some body sites (oral, nares, and skin; R2 = 0.038), this was not true in neonatal stool (meconium, Mann-Whitney p>0.05) and there was no observable difference in community function regardless of delivery mode. By 6 weeks of age, the infant microbiota structure and function had expanded and diversified with demonstrable body site specificity (p<0.001, R2 = 0.189), and no discernable differences in neither community structure nor function by Cesarean delivery were identifiable (p=0.057, R2 = 0.007). We conclude that within the first 6 weeks of life, the infant microbiota undergoes significant reorganization that is primarily driven by body site and not by mode of delivery. PMID:28112736

Re-evaluation of forest biomass carbon stocks and lessons from the world's most carbon-dense forests.

PubMed

Keith, Heather; Mackey, Brendan G; Lindenmayer, David B

2009-07-14

From analysis of published global site biomass data (n = 136) from primary forests, we discovered (i) the world's highest known total biomass carbon density (living plus dead) of 1,867 tonnes carbon per ha (average value from 13 sites) occurs in Australian temperate moist Eucalyptus regnans forests, and (ii) average values of the global site biomass data were higher for sampled temperate moist forests (n = 44) than for sampled tropical (n = 36) and boreal (n = 52) forests (n is number of sites per forest biome). Spatially averaged Intergovernmental Panel on Climate Change biome default values are lower than our average site values for temperate moist forests, because the temperate biome contains a diversity of forest ecosystem types that support a range of mature carbon stocks or have a long land-use history with reduced carbon stocks. We describe a framework for identifying forests important for carbon storage based on the factors that account for high biomass carbon densities, including (i) relatively cool temperatures and moderately high precipitation producing rates of fast growth but slow decomposition, and (ii) older forests that are often multiaged and multilayered and have experienced minimal human disturbance. Our results are relevant to negotiations under the United Nations Framework Convention on Climate Change regarding forest conservation, management, and restoration. Conserving forests with large stocks of biomass from deforestation and degradation avoids significant carbon emissions to the atmosphere, irrespective of the source country, and should be among allowable mitigation activities. Similarly, management that allows restoration of a forest's carbon sequestration potential also should be recognized.

Re-evaluation of forest biomass carbon stocks and lessons from the world's most carbon-dense forests

PubMed Central

Keith, Heather; Mackey, Brendan G.; Lindenmayer, David B.

2009-01-01

From analysis of published global site biomass data (n = 136) from primary forests, we discovered (i) the world's highest known total biomass carbon density (living plus dead) of 1,867 tonnes carbon per ha (average value from 13 sites) occurs in Australian temperate moist Eucalyptus regnans forests, and (ii) average values of the global site biomass data were higher for sampled temperate moist forests (n = 44) than for sampled tropical (n = 36) and boreal (n = 52) forests (n is number of sites per forest biome). Spatially averaged Intergovernmental Panel on Climate Change biome default values are lower than our average site values for temperate moist forests, because the temperate biome contains a diversity of forest ecosystem types that support a range of mature carbon stocks or have a long land-use history with reduced carbon stocks. We describe a framework for identifying forests important for carbon storage based on the factors that account for high biomass carbon densities, including (i) relatively cool temperatures and moderately high precipitation producing rates of fast growth but slow decomposition, and (ii) older forests that are often multiaged and multilayered and have experienced minimal human disturbance. Our results are relevant to negotiations under the United Nations Framework Convention on Climate Change regarding forest conservation, management, and restoration. Conserving forests with large stocks of biomass from deforestation and degradation avoids significant carbon emissions to the atmosphere, irrespective of the source country, and should be among allowable mitigation activities. Similarly, management that allows restoration of a forest's carbon sequestration potential also should be recognized. PMID:19553199

Evaluating porewater polycyclic aromatic hydrocarbon-related toxicity at a contaminated sediment site using a spiked field-sediment approach.

PubMed

Hartzell, Sharon E; Unger, Michael A; Vadas, George G; Yonkos, Lance T

2018-03-01

Although the complexity of contaminant mixtures in sediments can confound the identification of causative agents of adverse biological response, understanding the contaminant(s) of primary concern at impacted sites is critical to sound environmental management and remediation. In the present study, a stock mixture of 18 polycyclic aromatic hydrocarbon (PAH) compounds was prepared to reflect the variety and relative proportions of PAHs measured in surface sediment samples collected from discrete areas of a historically contaminated industrial estuary. This site-specific PAH stock mixture was spiked into nontoxic in-system and out-of-system field-collected reference sediments in dilution series spanning the range of previously measured total PAH concentrations from the region. Spiked sediments were evaluated in 10-d Leptocheirus plumulosus tests to determine whether toxicity in laboratory-created PAH concentrations was similar to the toxicity found in field-collected samples with equivalent PAH concentrations. The results show that toxicity of contaminated sediments was not explained by PAH exposure, while indicating that toxicity in spiked in-system (fine grain, high total organic carbon [TOC]) and out-of-system (course grain, low TOC) sediments was better explained by porewater PAH concentrations, measured using an antibody-based biosensor that quantified 3- to 5-ring PAHs, than total sediment PAH concentrations. The study demonstrates the application of site-specific spiking experiments to evaluate sediment toxicity at sites with complex mixtures of multiple contaminant classes and the utility of the PAH biosensor for rapid sediment-independent porewater PAH analysis. Environ Toxicol Chem 2018;37:893-902. © 2017 SETAC. © 2017 SETAC.

The fishes of Buffalo National River, Arkansas, 2001-2003

USGS Publications Warehouse

Petersen, James C.; Justus, B.G.

2005-01-01

During June through September 2001 and 2002, extensive fish community sampling was conducted at 29 sites within the boundaries of Buffalo National River. Samples were collected using backpack, tote barge, and boat electrofishing equipment. Kick seining also was used at all sites. To supplement these results, samples were collected in 2003 from less typical habitats and during other seasons of the year. Ten supplemental samples were collected from the Buffalo River and five samples were collected from tributaries of the Buffalo River. During the 3 years of sampling, 66 species of fish were collected or observed from the 42 sampling sites. Stonerollers, duskystripe shiners, longear sunfish, and rainbow darters were among the more abundant fish species at most sites. Each of these species is common and abundant throughout much of the Ozark Plateaus in creeks and small rivers. Other species (for example, banded sculpin, southern redbelly dace, orangethroat darter, and Ozark minnow) were among the more abundant species at other sites. These species prefer small- to medium-sized, springfed streams or small creeks. A preliminary list of species expected to occur at Buffalo National River provided by the National Park Service incorrectly listed 47 species because of incorrect species range or habitat requirements. Upon revising this list, the inventory yielded 66 of the 78 species (85 percent). Twelve additional species not collected in 2001-2003 may occur at Buffalo National River for two primary reasons--because the species had been collected previously at the park, or because the park occurs within the known species range and habitats found at the park are suitable for the species. Although no fish species collected from Buffalo National River are federally-listed threatened or endangered species, several species collected at Buffalo National River may be of special interest to National Park Service managers and others. Ten species are endemic to the Ozark Plateaus area and most of these ten are restricted to the White River Basin. For some species the Buffalo River is a population stronghold. The yoke darter and Ozark bass are especially abundant in the Buffalo River. In Arkansas, the Ozark shiner is most abundant in the Buffalo River and, although populations of Ozark shiners are declining in Arkansas, this is not typically the case in the Buffalo River. Data from 2001-2003 indicate that gilt darters currently (2005) are less common in the Buffalo River than during the 1970's. Populations of channel catfish (and any other fish species whose movements are inhibited by the cold water temperatures of the White River) may continue to decline without remedial efforts.

Sensitive capture of circulating tumour cells by functionalized graphene oxide nanosheets

NASA Astrophysics Data System (ADS)

Yoon, Hyeun Joong; Kim, Tae Hyun; Zhang, Zhuo; Azizi, Ebrahim; Pham, Trinh M.; Paoletti, Costanza; Lin, Jules; Ramnath, Nithya; Wicha, Max S.; Hayes, Daniel F.; Simeone, Diane M.; Nagrath, Sunitha

2013-10-01

The spread of cancer throughout the body is driven by circulating tumour cells (CTCs). These cells detach from the primary tumour and move from the bloodstream to a new site of subsequent tumour growth. They also carry information about the primary tumour and have the potential to be valuable biomarkers for disease diagnosis and progression, and for the molecular characterization of certain biological properties of the tumour. However, the limited sensitivity and specificity of current methods for measuring and studying these cells in patient blood samples prevents the realization of their full clinical potential. The use of microfluidic devices is a promising method for isolating CTCs. However, the devices are reliant on three-dimensional structures, which limits further characterization and expansion of cells on the chip. Here we demonstrate an effective approach to isolating CTCs from blood samples of pancreatic, breast and lung cancer patients, by using functionalized graphene oxide nanosheets on a patterned gold surface. CTCs were captured with high sensitivity at a low concentration of target cells (73 +/- 32.4% at 3-5 cells per ml blood).

Long-term passive restoration following fluvial deposition of sulphidic copper tailings: nature filters out the solutions.

PubMed

Nikolic, Nina; Böcker, Reinhard; Nikolic, Miroslav

2016-07-01

Despite the growing popularity of ecological restoration approach, data on primary succession on toxic post-mining substrates, under site environmental conditions which considerably differ from the surrounding environment, are still scarce. Here, we studied the spontaneous vegetation development on an unusual locality created by long-term and large-scale fluvial deposition of sulphidic tailings from a copper mine in a pronouncedly xerothermic, calcareous surrounding. We performed multivariate analyses of soil samples (20 physical and chemical parameters) and vegetation samples (floristic and structural parameters in three types of occurring forests), collected along the pollution gradients throughout the affected floodplain. The nature can cope with two types of imposed constraints: (a) excessive Cu concentrations and (b) very low pH, combined with nutrient deficiency. The former will still allow convergence to the original vegetation, while the latter will result in novel, depauperate assemblages of species typical for cooler and moister climate. Our results for the first time demonstrate that with the increasing severity of environmental filtering, the relative importance of the surrounding vegetation for primary succession strongly decreases.

Hydrogeology of a low-level radioactive-waste disposal site near Sheffield, Illinois

USGS Publications Warehouse

Foster, J.B.; Erickson, J.R.; Healy, R.W.

1984-01-01

The Sheffield low-level radioactive-waste facility is located on 20 acres of rolling terrain 3 miles southwest of Sheffield, Illinois. The shallow hydrogeologic system is composed of glacial sediments. Pennsylvania shale and mudstone bedrock isolate the regional aquifers below from the hydrogeologic system in the overlying glacial deposits. Pebbly sand underlies 67 percent of the site. Two ground-water flow paths were identified. The primary path conveys ground water from the site to the east through the pebbly-sand unit; a secondary path conveys ground water to the south and east through less permeable material. The pebbly-sand unit provides an underdrain that eliminates the risk of water rising into the trenches. Digital computer model results indicate that the pebbly-sand unit controls ground-water movement. Tritium found migrating in ground water in the southeast corner of the site travels approximately 25 feet per year. A group of water samples from wells which contained the highest tritium concentrations had specific conductivities, alkalinities, hardness, and chloride, sulfate, calcium, and magnesium contents higher than normal for local shallow ground water. (USGS)

Overview of the 2015 Algodones Sand Dunes field campaign to support sensor intercalibration

NASA Astrophysics Data System (ADS)

McCorkel, Joel; Bachmann, Charles M.; Coburn, Craig; Gerace, Aaron; Leigh, Larry; Czapla-Myers, Jeff; Helder, Dennis; Cook, Bruce

2018-01-01

Several sites from around the world are being used operationally and are suitable for vicarious calibration of space-borne imaging platforms. However, due to the proximity of these sites (e.g., Libya 4), a rigorous characterization of the landscape is not feasible, limiting their utility for sensor intercalibration efforts. Due to its accessibility and similarities to Libya 4, the Algodones Sand Dunes System in California, USA, was identified as a potentially attractive intercalibration site for space-borne, reflective instruments such as Landsat. In March 2015, a 4-day field campaign was conducted to develop an initial characterization of Algodones with a primary goal of assessing its intercalibration potential. Five organizations from the US and Canada collaborated to collect both active and passive airborne image data, spatial and temporal measurements of spectral bidirectional reflectance distribution function, and in-situ sand samples from several locations across the Algodones system. The collection activities conducted to support the campaign goal is summarized, including a summary of all instrumentation used, the data collected, and the experiments performed in an effort to characterize the Algodones site.

Compositional variability in Mediterranean archaeofaunas from Upper Paleolithic Southwest Europe

NASA Astrophysics Data System (ADS)

Jones, Emily Lena

2018-03-01

Recent meta-analyses of Upper Paleolithic Southwestern European archaeofaunas (Jones, 2015, 2016) have identified a consistent "Mediterranean" cluster from the Last Glacial Maximum through the early Holocene, suggesting similarities in environment and/or consistency in hunting strategy across this region through time despite radical changes in climate. However, while these archaeofaunas from this cluster all derive from sites located within today's Mediterranean bioclimatic region, many of them are from locations far from the Mediterranean Sea - Atlantic Portugal, the Spanish Meseta - which today differ significantly from each other in biotic composition. In this paper, I explore clustering (through cluster analysis and non-metric multidimensional scaling) within the Mediterranean archaeofaunal group. I test for the influence of sample size as well as the geographic variables of site elevation, latitude, and longitude on variability in the large mammal portions of archaeofaunal assemblages. ANOVA shows no relationship between cluster-defined groups and site elevation or longitude; instead, site latitude appears to be a primary contributor to patterning. However, the overall compositional similarity of the Mediterranean archaeofaunas in this dataset suggests more consistency than variability in Upper Paleolithic hunting strategy in this region.

Nearshore morphology, benthic structure, hydrodynamics, and coastal groundwater discharge near Kahekili Beach Park, Maui, Hawaii

USGS Publications Warehouse

Swarzenski, Peter W.; Storlazzi, Curt D.; Presto, M. Katherine; Gibbs, Ann E.; Smith, Christopher G.; Dimova, Natasha T.; Dailer, Meghan L.; Logan, Joshua B.

2012-01-01

This report presents a brief summary of recent fieldwork conducted off Kahekili Beach Park, Maui, Hawaii, the site of the newly established U.S. Coral Reef Task Force priority study area at Kaanapali and the Hawaii Department of Land and Natural Resources, Division of Aquatic Resources, Kahekili Herbivore Fisheries Management Area (HFMA). The goals of this fieldwork are to provide new baseline information to help guide future studies and to provide first insights into rates and drivers of coastal groundwater discharge and associated constituent loadings into the priority study area's coastal waters. This study presents the first swath acoustic mapping information, in situ oceanographic instrument measurements, and coastal groundwater discharge estimates at this site based on the submarine groundwater discharge tracer radon-222 (222Rn). Coastal groundwater discharge rates ranged from about 22 to 50 centimeters per day, depending on proximity of the sampling mooring to the primary discharge vent. The water chemistry of the discharging groundwater was at times dramatically different than ambient seawater. For example, at the primary vent site at Kahekili, the concentrations of total dissolved nitrogen (TDN), dissolved silicate (DSi), and total dissolved phosphorus (TDP) in the discharging groundwater were 43.75 micromolar (μM), 583.49 μM, and 12.04 μM, respectively. These data extend our basic understanding of the morphology, benthic structure, and oceanographic setting of this vent site and provide a first estimate of the magnitude and physical forcings of submarine groundwater discharge and associated trace metals and nutrient loads here.

Primary and secondary organic aerosols in summer 2016 in Beijing

NASA Astrophysics Data System (ADS)

Tang, Rongzhi; Wu, Zepeng; Li, Xiao; Wang, Yujue; Shang, Dongjie; Xiao, Yao; Li, Mengren; Zeng, Limin; Wu, Zhijun; Hallquist, Mattias; Hu, Min; Guo, Song

2018-03-01

To improve air quality, the Beijing government has employed several air pollution control measures since the 2008 Olympics. In order to investigate organic aerosol sources after the implementation of these measures, ambient fine particulate matter was collected at a regional site in Changping (CP) and an urban site at the Peking University Atmosphere Environment Monitoring Station (PKUERS) during the Photochemical Smog in China field campaign in summer 2016. Chemical mass balance (CMB) modeling and the tracer yield method were used to apportion primary and secondary organic sources. Our results showed that the particle concentration decreased significantly during the last few years. The apportioned primary and secondary sources explained 62.8 ± 18.3 and 80.9 ± 27.2 % of the measured OC at CP and PKUERS, respectively. Vehicular emissions served as the dominant source. Except for gasoline engine emissions, the contributions of all the other primary sources decreased. In addition, the anthropogenic SOC, i.e., toluene SOC, also decreased, implying that deducting primary emissions can reduce anthropogenic SOA. In contrast to the SOA from other regions in the world where biogenic SOA was dominant, anthropogenic SOA was the major contributor to SOA, implying that deducting anthropogenic VOC emissions is an efficient way to reduce SOA in Beijing. Back-trajectory cluster analysis results showed that high mass concentrations of OC were observed when the air mass was from the south. However, the contributions of different primary organic sources were similar, suggesting regional particle pollution. The ozone concentration and temperature correlated well with the SOA concentration. Different correlations between day and night samples suggested different SOA formation pathways. Significant enhancement of SOA with increasing particle water content and acidity was observed in our study, suggesting that aqueous-phase acid-catalyzed reactions may be the important SOA formation mechanism in summer in Beijing.

Differences in spatiotemporal variations of atmospheric PAH levels between North America and Europe: data from two air monitoring projects.

PubMed

Liu, Liang-Ying; Kukučka, Petr; Venier, Marta; Salamova, Amina; Klánová, Jana; Hites, Ronald A

2014-03-01

Atmospheric concentrations of high molecular weight polycyclic aromatic hydrocarbons (PAHs) were measured at five sites for almost two decades near the North American Great Lakes, as part of the Integrated Atmospheric Deposition Network (IADN), and at three remote sites around Europe, as part of the European Monitoring and Evaluation Programme (EMEP). The primary objectives were to reveal the spatial distributions, long-term temporal trends, and seasonal variations of atmospheric PAH concentrations and to investigate potential differences between these two regions. Atmospheric PAH concentrations at the urban sites in Chicago and Cleveland near Great Lakes were about 20 times (depending on PAH congener and sampling site) greater than those at the rural sites except for Košetice in the Czech Republic. Atmospheric PAH concentrations at Košetice, also a rural site, were about one-third of those at Chicago and Cleveland, but 10 times higher than those at other rural sites (Sturgeon Point, Sleeping Bear Dunes, Eagle Harbor, Aspvreten, and Spitsbergen). Significant long-term decreasing trends of all these PAH atmospheric concentrations were observed at Chicago and Cleveland. For the other sites, either less significant or no long-term decreasing trends were observed. Clear seasonality was observed at Sturgeon Point, Sleeping Bear Dunes, Košetice, and Spitsbergen, with the highest PAH concentrations observed in mid-January. Copyright © 2013 Elsevier Ltd. All rights reserved.

Pesticide and trace metal occurrence and aquatic benchmark exceedances in surface waters and sediments of urban wetlands and retention ponds in Melbourne, Australia.

PubMed

Allinson, Graeme; Zhang, Pei; Bui, AnhDuyen; Allinson, Mayumi; Rose, Gavin; Marshall, Stephen; Pettigrove, Vincent

2015-07-01

Samples of water and sediments were collected from 24 urban wetlands in Melbourne, Australia, in April 2010, and tested for more than 90 pesticides using a range of gas chromatographic (GC) and liquid chromatographic (LC) techniques, sample 'hormonal' activity using yeast-based recombinant receptor-reporter gene bioassays, and trace metals using spectroscopic techniques. At the time of sampling, there was almost no estrogenic activity in the water column. Twenty-three different pesticide residues were observed in one or more water samples from the 24 wetlands; chemicals observed at more than 40% of sites were simazine (100%), atrazine (79%), and metalaxyl and terbutryn (46%). Using the toxicity unit (TU) concept, less than 15% of the detected pesticides were considered to pose an individual, short-term risk to fish or zooplankton in the ponds and wetlands. However, one pesticide (fenvalerate) may have posed a possible short-term risk to fish (log10TUf > -3), and three pesticides (azoxystrobin, fenamiphos and fenvalerate) may have posed a risk to zooplankton (logTUzp between -2 and -3); all the photosystem II (PSII) inhibiting herbicides may have posed a risk to primary producers in the ponds and wetlands (log10TUap and/or log10TUalg > -3). The wetland sediments were contaminated with 16 different pesticides; no chemicals were observed at more than one third of sites, but based on frequency of detection and concentrations, bifenthrin (33%, maximum 59 μg/kg) is the priority insecticide of concern for the sediments studied. Five sites returned a TU greater than the possible effect threshold (i.e. log10TU > 1) as a result of bifenthrin contamination of their sediments. Most sediments did not exceed Australian sediment quality guideline levels for trace metals. However, more than half of the sites had threshold effect concentration quotients (TECQ) values >1 for Cu (58%), Pb (50%), Ni (67%) and Zn (63%), and 75% of sites had mean probable effect concentration quotients (PECQ) >0.2, suggesting that the collected sediments may have been having some impact on sediment-dwelling organisms.

Biogenic Volatile Organic Compounds (BVOCs) and their oxidation products at two Mediterranean background sites

NASA Astrophysics Data System (ADS)

Debevec, Cecile; Sauvage, Stephane; Gros, Valerie; Sciare, Jean; Pikridas, Michael; Dusanter, Sebastien; Leonardis, Thierry; Gaudion, Vincent; Depelchin, Laurence; Fronval, Isabelle; Sarda-Esteve, Roland; Baisnee, Dominique; Vasiliadou, Emily; Savvides, Chrysanthos; Kalogridis, Cerise; Michoud, Vincent; Locoge, Nadine

2017-04-01

In the framework of the ChArMEx (Chemistry Aerosol Mediterranean Experiments) program, this work aims at providing a better characterization of the sources and fate of VOCs impacting the Mediterranean region as well as conducting a parallel between organic aerosol and gas phase composition. To reach these objectives, on-line measurements of a large number of VOCs were conducted by flame ionization detection/gas chromatography and proton transfer reaction mass spectrometry at two Mediterranean receptor sites, Cape Corsica in summer 2013 and the Cyprus Atmospheric Observatory (CAO) in March 2015. Additionally, off-line air samples were collected on cartridges. On-line submicron aerosol chemical composition was performed in parallel with an aerosol mass spectrometer. VOCs Sources were identified using positive matrix factorization (PMF) tool and discussed in previous studies (Michoud et al., submitted, Debevec et al., submitted). This work focuses on BVOCs measured at these sampling sites (especially on their levels, speciation, variability and processes). Different speciation of monoterpenes was noticed at these sites. Even if monoterpenes were mainly composed of β-pinene at both sites (34 % - 38 % of the total monoterpenes mass concentration), α-terpinene was observed in higher proportion at Cape Corsica (21 %) than CAO (2 %) while lower proportion of α-pinene was measured (Cape Corsica: 24 %, CAO: 35 %). Biogenic sources were found to be significant contributors to the VOCs concentrations observed at these sampling sites (Cape Corsica: 20%, CAO: 36 %) but have shown different variabilities. At Cape Corsica, a primary and a secondary biogenic factor were identified, both correlating with air temperature and exhibiting a clear diurnal profile. At CAO, two different biogenic factors were identified with distinct diurnal profiles, the first one driven by isoprene was correlated with air temperature and the second one, driven by monoterpenes, showed maxima during nighttime. This nocturnal variability could be driven by nighttime emissions, chemical decay or dynamical processes; all these assumptions will be discussed here. From PMF factors identified, measured oxygenated VOCs were apportioned among their potential different origins (either biogenic or anthropogenic and either primary or secondary). Finally, a parallel between organic aerosol and gas phase composition was conducted to better highlight the relationship between the two phases. The diurnal variability of secondary organic aerosol appeared to be influenced by biogenic contributions. References. Debevec, C., Sauvage, S., Gros, V., Sciare, J., Pikridas, M., Stavroulas, I., Salameh, T., Leonardis, T., Gaudion, V., Depelchin, L., Fronval, I., Sarda-Esteve, R., Baisnee, D., Bonsang, B., Savvides, C., Vrejoussis, M. and Locoge, N.: Origin and variability of volatile organic compounds observed at an Eastern Mediterranean background site (Cyprus), submitted to ACPD. Michoud, V., Sciare, J., Sauvage, S., Dusanter, S., Leonardis, T., Gros, V., Kalogridis, A.-C., Zannoni, N., Féron, A., Petit, J.-E., Creen, V., Baisnée, D., Sarda-Estève, R., Bonnaire, N., Marchand, N., DeWitt, H. L., Pey, J., Colomb, A., Gheussi, F., Szidat, S., Stavroulas, I., Borbon, A. and Locoge, N.: Organic carbon at a remote site of the western Mediterranean Basin: composition, sources and chemistry during the ChArMEx SOP2 field experiment, submitted to ACPD.

The occurrence of glyphosate, atrazine, and other pesticides in vernal pools and adjacent streams in Washington, DC, Maryland, Iowa, and Wyoming, 2005-2006

USGS Publications Warehouse

Battaglin, William A.; Rice, Karen C.; Focazio, Michael J.; Salmons, Sue; Barry, Robert X.

2009-01-01

Vernal pools are sensitive environments that provide critical habitat for many species, including amphibians. These small water bodies are not always protected by pesticide label requirements for no-spray buffer zones, and the occurrence of pesticides in them is poorly documented. In this study, we investigated the occurrence of glyphosate, its primary degradation product aminomethylphosphonic acid, and additional pesticides in vernal pools and adjacent flowing waters. Most sampling sites were chosen to be in areas where glyphosate was being used either in production agriculture or for nonindigenous plant control. The four site locations were in otherwise protected areas (e.g., in a National Park). When possible, water samples were collected both before and after glyphosate application in 2005 and 2006. Twenty-eight pesticides or pesticide degradation products were detected in the study, and as many as 11 were identified in individual samples. Atrazine was detected most frequently and concentrations exceeded the freshwater aquatic life standard of 1.8 micrograms per liter (μg/l) in samples from Rands Ditch and Browns Ditch in DeSoto National Wildlife Refuge. Glyphosate was measured at the highest concentration (328 μg/l) in a sample from Riley Spring Pond in Rock Creek National Park. This concentration exceeded the freshwater aquatic life standard for glyphosate of 65 μg/l. Aminomethylphosphonic acid, triclopyr, and nicosulfuron also were detected at concentrations greater than 3.0 μg/l.

E-consult implementation: lessons learned using consolidated framework for implementation research.

PubMed

Haverhals, Leah M; Sayre, George; Helfrich, Christian D; Battaglia, Catherine; Aron, David; Stevenson, Lauren D; Kirsh, Susan; Ho, Michael; Lowery, Julie

2015-12-01

In 2011, the Veterans Health Administration (VHA) implemented electronic consults (e-consults) as an alternative to in-person specialty visits to improve access and reduce travel for veterans. We conducted an evaluation to understand variation in the use of the new e-consult mechanism and the causes of variable implementation, guided by the Consolidated Framework for Implementation Research (CFIR). Qualitative case studies of 3 high- and 5 low-implementation e-consult pilot sites. Participants included e-consult site leaders, primary care providers, specialists, and support staff identified using a modified snowball sample. We used a 3-step approach, with a structured survey of e-consult site leaders to identify key constructs, based on the CFIR. We then conducted open-ended interviews, focused on key constructs, with all participants. Finally, we produced structured, site-level ratings of CFIR constructs and compared them between high- and low-implementation sites. Site leaders identified 14 initial constructs. We conducted 37 interviews, from which 4 CFIR constructs distinguished high implementation e-consult sites: compatibility, networks and communications, training, and access to knowledge and information. For example, illustrating compatibility, a specialist at a high-implementation site reported that the site changed the order of consult options so that all specialties listed e-consults first to maintain consistency. High-implementation sites also exhibited greater agreement on constructs. By using the CFIR to analyze results, we facilitate future synthesis with other findings, and we better identify common patterns of implementation determinants common across settings.

Culicoides and other biting flies on the Palos Verdes Peninsula of Southern California, and their possible relationship to equine dermatitis.

PubMed

Mullens, Bradley A; Owen, Jeb P; Heft, David E; Sobeck, Ruth V

2005-03-01

Biting insects were sampled to investigate the cause(s) of dermatitis (putative Culicoides hypersensitivity [CHS]) on horses on the Palos Verdes Peninsula, Los Angeles County, California. Suction traps baited with CO2 were operated at 5 sites from April 2002 to August 2003, supplemented by sampling from horses. Six species of Culicoides, 7 species of mosquitoes, and occasional Simulium and Stomoxys were collected in traps. Culicoides sonorensis was the most common midge trapped, although C. obsoletus and C. freeborni also were collected repeatedly. Insects from the belly region of horses in spring (peak dermatitis period) were mostly C. obsoletus, which were far more abundant than indicated by CO2-baited suction traps. The predominant mosquito was Culiseta incidens; Culex quinquefasciatus and Cx. tarsalis also could be common, depending on the site. Mosquitoes, particularly Cs. incidens, were more abundant the 2nd year (normal rainfall), whereas C. sonorensis and C. freeborni were more abundant the 1st year (drought period). Culicoides obsoletus, supplemented by C. sonorensis, is regarded as a primary suspect causing CHS in this area.

Alternative Methods for Assessing Contaminant Transport from the Vadose Zone to Indoor Air

NASA Astrophysics Data System (ADS)

Baylor, K. J.; Lee, A.; Reddy, P.; Plate, M.

2010-12-01

Vapor intrusion, which is the transport of contaminant vapors from groundwater and the vadose zone to indoor air, has emerged as a significant human health risk near hazardous waste sites. Volatile organic compounds (VOCs) such as trichloroethylene (TCE) and tetrachloroethylene (PCE) can volatilize from groundwater and from residual sources in the vadose zone and enter homes and commercial buildings through cracks in the slab, plumbing conduits, or other preferential pathways. Assessment of the vapor intrusion pathway typically requires collection of groundwater, soil gas, and indoor air samples, a process which can be expensive and time-consuming. We evaluated three alternative vapor intrusion assessment methods, including 1) use of radon as a surrogate for vapor intrusion, 2) use of pressure differential measurements between indoor/outdoor and indoor/subslab to assess the potential for vapor intrusion, and 3) use of passive, longer-duration sorbent methods to measure indoor air VOC concentrations. The primary test site, located approximately 30 miles south of San Francisco, was selected due to the presence of TCE (10 - 300 ug/L) in shallow groundwater (5 to 10 feet bgs). At this test site, we found that radon was not a suitable surrogate to asses vapor intrusion and that pressure differential measurements are challenging to implement and equipment-intensive. More significantly, we found that the passive, longer-duration sorbent methods are easy to deploy and compared well quantitatively with standard indoor air sampling methods. The sorbent technique is less than half the cost of typical indoor air methods, and also provides a longer duration sample, typically 3 to 14 days rather than 8 to 24 hours for standard methods. The passive sorbent methods can be a reliable, cost-effective, and easy way to sample for TCE, PCE and other VOCs as part of a vapor intrusion investigation.

Reconnaissance investigation of water quality, bottom sediment, and biota associated with irrigation drainage in the Sun River area, west-central Montana, 1986-87

USGS Publications Warehouse

Knapton, J.R.; Jones, W.E.; Sutphin, J.W.

1988-01-01

The Sun River area was selected for a reconnaissance investigation of irrigation drainage because sufficient information existed to indicate that potential problems of a toxic nature might exist. The area of study included the Sun River Irrigation Project, Freeze-out Lake Game Management Area, and Benton Lake National Wildlife Refuge. Water, bottom sediment , and biota were sampled at selected sites and analyzed for inorganic and organic constituents that could be toxic at large concentrations. Although selenium was of primary concern, other trace elements and selected pesticides were also analyzed. Some water quality problems have been prevalent for many years in the Sun River Irrigation Projects, including the Sun River and Muddy Creek. However, during this study, most sampling sites were free of concentrations of toxic constituents that are in excess of established criteria and standards. There was little change in arsenic, boron, mercury, and selenium concentrations in fish and invertebrates at Sun River sampling sites upstream and downstream from the irrigation project. Presently, the most serious threat within the irrigation project appears to be from nitrate in groundwater. Water from some wells contains nitrate concentration in excess of drinking water standards (10 mg/L) established for the State of Montana. The largest selenium concentrations in water and bottom sediment were from seeps that surround Benton Lake, with maximum concentrations of 580 mg/L in water and biological samples. Several eared-grebe livers from Freezeout Lake and several coot livers and eggs from Benton Lake had selenium concentrations indicative of contamination. (See also W89-07064) (Author 's abstract)

Utility of Decision Rules for Transcutaneous Bilirubin Measurements

PubMed Central

Burgos, Anthony E.; Flaherman, Valerie; Chung, Esther K.; Simpson, Elizabeth A.; Goyal, Neera K.; Von Kohorn, Isabelle; Dhepyasuwan, Niramol

2016-01-01

BACKGROUND: Transcutaneous bilirubin (TcB) meters are widely used for screening newborns for jaundice, with a total serum bilirubin (TSB) measurement indicated when the TcB value is classified as “positive” by using a decision rule. The goal of our study was to assess the clinical utility of 3 recommended TcB screening decision rules. METHODS: Paired TcB/TSB measurements were collected at 34 newborn nursery sites. At 27 sites (sample 1), newborns were routinely screened with a TcB measurement. For sample 2, sites that typically screen with TSB levels also obtained a TcB measurement for the study. Three decision rules to define a positive TcB measurement were evaluated: ≥75th percentile on the Bhutani nomogram, 70% of the phototherapy level, and within 3 mg/dL of the phototherapy threshold. The primary outcome was a TSB level at/above the phototherapy threshold. The rate of false-negative TcB screens and percentage of blood draws avoided were calculated for each decision rule. RESULTS: For sample 1, data were analyzed on 911 paired TcB-TSB measurements from a total of 8316 TcB measurements. False-negative rates were <10% with all decision rules; none identified all 31 newborns with a TSB level at/above the phototherapy threshold. The percentage of blood draws avoided ranged from 79.4% to 90.7%. In sample 2, each rule correctly identified all 8 newborns with TSB levels at/above the phototherapy threshold. CONCLUSIONS: Although all of the decision rules can be used effectively to screen newborns for jaundice, each will “miss” some infants with a TSB level at/above the phototherapy threshold. PMID:27244792

Quality of water and chemistry of bottom sediment in the Rillito Creek basin, Tucson, Arizona, 1986-92

USGS Publications Warehouse

Tadayon, Saeid; Smith, C.F.

1994-01-01

Data were collected on physical properties and chemistry of 4 surface water, l4 ground water, and 4 bottom sediment sites in the Rillito Creek basin where artificial recharge of surface runoff is being considered. Concentrations of suspended sediment in streams generally increased with increases in streamflow and were higher during the summer. The surface water is a calcium and bicarbonate type, and the ground water is calcium sodium and bicarbonate type. Total trace ek=nents in surface water that exceeded the U.S. Environmental Protection Agency primary maximum contaminant levels for drinking-water standards were barium, beryllium, cadmium, chromium, lead, mercury and nickel. Most unfiltered samples for suspended gross alpha as uranium, and unadjusted gross alpha plus gross beta in surface water exceeded the U.S. Environmental Protection Agency and the State of Arizona drinking-water standards. Comparisons of trace- element concentrations in bottom sediment with those in soils of the western conterminous United States generally indicate similar concentrations for most of the trace elements, with the exceptions of scandium and tin. The maximum concentration of total nitrite plus nitrate as nitrogen in three ground- samples and total lead in one ground-water sample exceeded U.S. Environmental Protection Agency primary maximum contaminant levels for drinking- water standards, respectively. Seven organochlorine pesticides were detected in surface-water samples and nine in bottom-sediment samples. Three priority pollutants were detected in surface water, two were detected in ground water, and eleven were detected in bottom sediment. Low concentrations of oil and grease were detected in surface-water and bottom- sediment samples.

Continuous and discrete water-quality data collected at five sites on Lake Houston near Houston, Texas, 2006-08

USGS Publications Warehouse

Beussink, Amy M.; Burnich, Michael R.

2009-01-01

Lake Houston, a reservoir impounded in 1954 by the City of Houston, Texas, is a primary source of drinking water for Houston and surrounding areas. The U.S. Geological Survey, in cooperation with the City of Houston, developed a continuous water-quality monitoring network to track daily changes in water quality in the southwestern quadrant of Lake Houston beginning in 2006. Continuous water-quality data (the physiochemical properties water temperature, specific conductance, pH, dissolved oxygen concentration, and turbidity) were collected from Lake Houston to characterize the in-lake processes that affect water quality. Continuous data were collected hourly from mobile, multi-depth monitoring stations developed and constructed by the U.S. Geological Survey. Multi-depth monitoring stations were installed at five sites in three general locations in the southwestern quadrant of the lake. Discrete water-quality data (samples) were collected routinely (once or twice each month) at all sites to characterize the chemical and biological (phytoplankton and bacteria) response to changes in the continuous water-quality properties. Physiochemical properties (the five continuously monitored plus transparency) were measured in the field when samples were collected. In addition to the routine samples, discrete water-quality samples were collected synoptically (one or two times during the study period) at all sites to determine the presence and levels of selected constituents not analyzed in routine samples. Routine samples were measured or analyzed for acid neutralizing capacity; selected major ions and trace elements (calcium, silica, and manganese); nutrients (filtered and total ammonia nitrogen, filtered nitrate plus nitrite nitrogen, total nitrate nitrogen, filtered and total nitrite nitrogen, filtered and total orthophosphate phosphorus, total phosphorus, total nitrogen, total organic carbon); fecal indicator bacteria (total coliform and Escherichia coli); sediment (suspended-sediment concentration and loss-on-ignition); actinomycetes bacteria; taste-and-odor-causing compounds (2-methylisoborneol and geosmin); cyanobacterial toxins (total microcystins); and phytoplankton abundance, biovolume, and community composition (taxonomic identification to genus). Synoptic samples were analyzed for major ions, trace elements, wastewater indicators, pesticides, volatile organic compounds, and carbon. The analytical data are presented in tables by type (continuous, discrete routine, discrete synoptic) and listed by station number. Continuously monitored properties (except pH) also are displayed graphically.

Assessment of chemical analyses by means of portable XRF in the Roman mortars of Complutum archaeological site (Spain)

NASA Astrophysics Data System (ADS)

Ergenç, Duygu; Freire, David; Fort, Rafael

2016-04-01

The chemical characterization of lime mortars used in Roman period has a great significance and plays a key role in the acquisition of knowledge with respect to construction technology, raw materials and, accordingly, in its conservation works. When it comes to cultural heritage studies, sampling is always complicated since the minimum damage is the primary concern. The use of non-destructive techniques and direct measurements with portable devices reduce the amount of samples and time consumed in analyses, consequently it could be stated that such techniques are extremely useful in conservation and restoration works. In this study, the portable XRF device was used to determine the composition of chemical elements which compose the Roman lime mortars in the archaeological site of Complutum, Alcalá de Henares (Madrid, Spain) which is listed as a World Heritage Site by UNESCO since 1998. Portable XRF devices have some detection limits below the ones of the laboratory equipment that are immovable and require sampling. In order to correlate the results, sampling and grinding were initially done to prepare the powders for the laboratory XRF analysis with the following elements: Si, Al, Fe, Ca, Mg, K, Ti, Nb, Zr, Sr, Rb, Pb, Zn and Cr. The analyses of the powdered samples were conducted with the laboratory equipment PHILIPS Magix Pro (PW-2440) from the Centre of Scientific Instrumentation CIC in the University of Granada, and the results were compared to the results gathered with X Ray Florescence (EDTRX) THERMO NITON model XL3T from the Petrophysics Laboratory Geosciences Institute IGEO (CSIC-UCM). Analyses were performed on the surfaces of the samples -without any previous preparation-, and on the powdered samples to compare the variations between both traditional XRF analyses and the portable XRF. A good correlation was found among the results obtained by the laboratory equipment, the portable device as well as the surface measurements. The results of this study enable to differentiate the types of lime mortars used in the site (Caementicium and Signinum) and in different buildings that form the Roman city. Acknowledgements: Thanks to the project CLIMORTEC (BIA2014-53911-R), to CEI-Moncloa of UCM-UPM-UCM and to Madrid Community for funding the Geomateriales2 (P2013/MIT2914) program

Medical-grade honey does not reduce skin colonization at central venous catheter-insertion sites of critically ill patients: a randomized controlled trial

PubMed Central

2012-01-01

Introduction Catheter-related bloodstream infections (CRBSIs) associated with short-term central venous catheters (CVCs) in intensive care unit (ICU) patients are a major clinical problem. Bacterial colonization of the skin at the CVC insertion site is an important etiologic factor for CRBSI. The aim of this study was to assess the efficacy of medical-grade honey in reducing bacterial skin colonization at insertion sites. Methods A prospective, single-center, open-label randomized controlled trial was performed at the ICU of a university hospital in The Netherlands to assess the efficacy of medical-grade honey to reduce skin colonization of insertion sites. Medical-grade honey was applied in addition to standard CVC-site dressing and disinfection with 0.5% chlorhexidine in 70% alcohol. Skin colonization was assessed on a daily basis before CVC-site disinfection. The primary end point was colonization of insertion sites with >100 colony-forming units at the last sampling before removal of the CVC or transfer of the patient from the ICU. Secondary end points were quantitative levels of colonization of the insertion sites and colonization of insertion sites stratified for CVC location. Results Colonization of insertion sites was not affected by the use of medical-grade honey, as 44 (34%) of 129 and 36 (34%) of 106 patients in the honey and standard care groups, respectively, had a positive skin culture (P = 0.98). Median levels of skin colonization at the last sampling were 1 (0 to 2.84) and 1 (0 to 2.70) log colony-forming units (CFUs)/swab for the honey and control groups, respectively (P = 0.94). Gender, days of CVC placement, CVC location, and CVC type were predictive for a positive skin culture. Correction for these variables did not change the effect of honey on skin-culture positivity. Conclusions Medical-grade honey does not affect colonization of the skin at CVC insertion sites in ICU patients when applied in addition to standard disinfection with 0.5% chlorhexidine in 70% alcohol. Trial registration Netherlands Trial Registry, NTR1652. PMID:23111148

Medical-grade honey does not reduce skin colonization at central venous catheter-insertion sites of critically ill patients: a randomized controlled trial.

PubMed

Kwakman, Paulus H; Müller, Marcella C; Binnekade, Jan M; van den Akker, Johannes P; de Borgie, Corianne A; Schultz, Marcus J; Zaat, Sebastian A

2012-10-30

Catheter-related bloodstream infections (CRBSIs) associated with short-term central venous catheters (CVCs) in intensive care unit (ICU) patients are a major clinical problem. Bacterial colonization of the skin at the CVC insertion site is an important etiologic factor for CRBSI. The aim of this study was to assess the efficacy of medical-grade honey in reducing bacterial skin colonization at insertion sites. A prospective, single-center, open-label randomized controlled trial was performed at the ICU of a university hospital in The Netherlands to assess the efficacy of medical-grade honey to reduce skin colonization of insertion sites. Medical-grade honey was applied in addition to standard CVC-site dressing and disinfection with 0.5% chlorhexidine in 70% alcohol. Skin colonization was assessed on a daily basis before CVC-site disinfection. The primary end point was colonization of insertion sites with >100 colony-forming units at the last sampling before removal of the CVC or transfer of the patient from the ICU. Secondary end points were quantitative levels of colonization of the insertion sites and colonization of insertion sites stratified for CVC location. Colonization of insertion sites was not affected by the use of medical-grade honey, as 44 (34%) of 129 and 36 (34%) of 106 patients in the honey and standard care groups, respectively, had a positive skin culture (P = 0.98). Median levels of skin colonization at the last sampling were 1 (0 to 2.84) and 1 (0 to 2.70) log colony-forming units (CFUs)/swab for the honey and control groups, respectively (P = 0.94). Gender, days of CVC placement, CVC location, and CVC type were predictive for a positive skin culture. Correction for these variables did not change the effect of honey on skin-culture positivity. Medical-grade honey does not affect colonization of the skin at CVC insertion sites in ICU patients when applied in addition to standard disinfection with 0.5% chlorhexidine in 70% alcohol. Netherlands Trial Registry, NTR1652.

Quality of stormwater runoff discharged from Massachusetts highways, 2005-07

USGS Publications Warehouse

Smith, Kirk P.; Granato, Gregory E.

2010-01-01

The U.S. Geological Survey (USGS), in cooperation with U.S. Department of Transportation Federal Highway Administration and the Massachusetts Department of Transportation, conducted a field study from September 2005 through September 2007 to characterize the quality of highway runoff for a wide range of constituents. The highways studied had annual average daily traffic (AADT) volumes from about 3,000 to more than 190,000 vehicles per day. Highway-monitoring stations were installed at 12 locations in Massachusetts on 8 highways. The 12 monitoring stations were subdivided into 4 primary, 4 secondary, and 4 test stations. Each site contained a 100-percent impervious drainage area that included two or more catch basins sharing a common outflow pipe. Paired primary and secondary stations were located within a few miles of each other on a limited-access section of the same highway. Most of the data were collected at the primary and secondary stations, which were located on four principal highways (Route 119, Route 2, Interstate 495, and Interstate 95). The secondary stations were operated simultaneously with the primary stations for at least a year. Data from the four test stations (Route 8, Interstate 195, Interstate 190, and Interstate 93) were used to determine the transferability of the data collected from the principal highways to other highways characterized by different construction techniques, land use, and geography. Automatic-monitoring techniques were used to collect composite samples of highway runoff and make continuous measurements of several physical characteristics. Flowweighted samples of highway runoff were collected automatically during approximately 140 rain and mixed rain, sleet, and snowstorms. These samples were analyzed for physical characteristics and concentrations of 6 dissolved major ions, total nutrients, 8 total-recoverable metals, suspended sediment, and 85 semivolatile organic compounds (SVOCs), which include priority polyaromatic hydrocarbons (PAHs), phthalate esters, and other anthropogenic or naturally occurring organic compounds. The distribution of particle size of suspended sediment also was determined for composite samples of highway runoff. Samples of highway runoff were collected year round and under various dry antecedent conditions throughout the 2-year sampling period. In addition to samples of highway runoff, supplemental samples also were collected of sediment in highway runoff, background soils, berm materials, maintenance sands, deicing compounds, and vegetation matter. These additional samples were collected near or on the highways to support data analysis. There were few statistically significant differences between populations of constituent concentrations in samples from the primary and secondary stations on the same principal highways (Mann-Whitney test, 95-percent confidence level). Similarly, there were few statistically significant differences between populations of constituent concentrations for the four principal highways (data from the paired primary and secondary stations for each principal highway) and populations for test stations with similar AADT volumes. Exceptions to this include several total-recoverable metals for stations on Route 2 and Interstate 195 (highways with moderate AADT volumes), and for stations on Interstate 95 and Interstate 93 (highways with high AADT volumes). Supplemental data collected during this study indicate that many of these differences may be explained by the quantity, as well as the quality, of the sediment in samples of highway runoff. Nonparametric statistical methods also were used to test for differences between populations of sample constituent concentrations among the four principal highways that differed mainly in traffic volume. These results indicate that there were few statistically significant differences (Mann-Whitney test, 95-percent confidence level) for populations of concentrations of most total-recoverable metals

The independent relationship between trouble controlling Facebook use, time spent on the site and distress

PubMed Central

Muench, Fredrick; Hayes, Marie; Kuerbis, Alexis; Shao, Sijing

2015-01-01

Background and Aims There is an emerging literature base on the relationship between maladaptive traits and “addiction” to social networking sites. These studies have operationalized addiction as either spending excessive amounts of time on social networking sites (SNS) or trouble controlling SNS use, but have not assessed the unique contribution of each of these constructs on outcomes in the same models. Moreover, these studies have exclusively been conducted with younger people rather than a heterogeneous sample. This study examined the independent relationship of a brief Facebook addiction scale, time spent on Facebook, and Facebook checking on positive and negative social domains, while controlling for self-esteem and social desirability. Methods Participants were recruited using e-mail, SNS posts and through Amazon’s MTurk system. The sample included 489 respondents ages from 18 to approximately 70, who completed a 10–15 minute survey. Results Results indicate that neither time spent on Facebook nor Facebook checking was significantly associated with either self-esteem, fear of negative social evaluation or social comparison, while SNS addiction symptoms were each independently associated with Facebook usage. Neither time spent on Facebook nor SNS addiction symptoms were associated with positive social relationships. Discussion Overall results suggest that time on SNS and trouble controlling use should be considered independent constructs and that interventions should target underlying loss of control as the primary intervention target above ego syntonic time spent on the site. PMID:26551906

Atmospheric oxalic acid and related secondary organic aerosols in Qinghai Lake, a continental background site in Tibet Plateau

NASA Astrophysics Data System (ADS)

Meng, Jingjing; Wang, Gehui; Li, Jianjun; Cheng, Chunlei; Cao, Junji

2013-11-01

Summertime PM2.5 aerosols collected from Qinghai Lake (3200 m a.s.l.), a remote continental site in the northeastern part of Tibetan Plateau, were analyzed for dicarboxylic acids (C2-C11), ketocarboxylic acids and α-dicarbonyals. Oxalic acid (C2) is the dominant dicarboxylic acid in the samples, followed by malonic, succinic and azelaic acids. Total dicarboxylic acids (231 ± 119 ng m-3), ketocarboxylic acids (8.4 ± 4.3 ng m-3), and α-dicarbonyls (2.7 ± 2.1 ng m-3) at the Tibetan background site are 2-5 times less than those detected in lowland areas such as 14 Chinese megacities. Compared to those in other urban and marine areas enhancements in relative abundances of C2/total diacids and diacids-C/WSOC of the PM2.5 samples suggest that organic aerosols in the region are more oxidized due to strong solar radiation. Molecular compositions and air mass trajectories demonstrate that the above secondary organic aerosols in the Qinghai Lake atmosphere are largely derived from long-range transport. Ratios of oxalic acid, glyoxal and methylglyoxal to levoglucosan in PM2.5 aerosols emitted from household burning of yak dung, a major energy source for Tibetan in the region, are 30-400 times lower than those in the ambient air, which further indicates that primary emission from biomass burning is a negligible source of atmospheric oxalic acid and α-dicarbonyls at this background site.

Development and clinical trial results of a prototype device for trans-cutaneous monitoring of kidney function

NASA Astrophysics Data System (ADS)

Debreczeny, Martin P.; Dorshow, Richard B.

2017-02-01

A prototype medical device for trans-cutaneous monitoring of kidney function has been developed, validated, and used in a clinical trial on 16 healthy subjects having a wide range of skin color types. The fluorescent tracer agent MB-102 was administered intravenously as a bolus that was varied between 0.5 and 4 μmole/kg subject weight. The tracer agent was tracked as a function of time in plasma by blood sampling and trans-cutaneously at four body sites (sternum, forehead, arm, and side) simultaneously. Excitation was performed with a very low level of amplitude-modulated LED light at 450 nm (<50 μW/cm2), and fluorescence emission was synchronously detected at 570 nm. With adjustment of detection gain between subjects, no skin color dependence was observed of the signal-to-noise ratio (SNR) of the transcutaneous measurements. The primary source of measurement noise appeared to be subject motion, likely due to variations in blood content at the skin measurement site. A typical two-compartment pharmacokinetic dependence was observed with equilibration of the fluorescent agent between the vascular space into which it was injected and the extracellular space into which it subsequently diffused. Variation of this equilibration time was observed across body sites, with the sternum providing the shortest and most consistent equilibration. After equilibration, the terminal fluorescence time dependence at the sternum site was found to be highly correlated with tracer agent concentration time dependence sampled from the blood plasma.

Strict lymphotropism of Epstein-Barr virus during acute infectious mononucleosis in nonimmunocompromised individuals.

PubMed

Karajannis, M A; Hummel, M; Anagnostopoulos, I; Stein, H

1997-04-15

Previous investigations of exfoliated oropharyngeal cells from individuals suffering from infectious mononucleosis (IM) suggested that the oropharyngeal epithelia are the primary target and also the site of life-long persistence of the Epstein-Barr virus (EBV). This concept was widely accepted. However, the investigation of histological sections with more sensitive EBV detection techniques has drawn this concept into doubt since EBV proved to be constantly absent in normal epithelial cells. To elucidate the discrepancy, throat washings and peripheral mononuclear blood cells from 16 patients suffering from IM were investigated for EBV-DNA and EBV gene products employing highly sensitive in situ hybridization, immunocytochemistry, and polymerase chain reaction. Although all patients exhibited latently infected B lymphocytes in peripheral blood, samples of exfoliated oropharyngeal cells were constantly EBV-negative with the exception of three cases. In these cases, the patients additionally suffered from purulent ulcerating tonsillitis, EBV-infected B cells, but no EBV-infected epithelial cells were detectable. These findings support the view that recirculating lymphocytes of B-cell origin, but not epithelial cells are the initial target of EBV during primary infection and that B cells also represent the site of life-long viral persistence.

Circular dichroism study of the interaction between mutagens and bilirubin bound to different binding sites of serum albumins

NASA Astrophysics Data System (ADS)

Orlov, Sergey; Goncharova, Iryna; Urbanová, Marie

Although recent investigations have shown that bilirubin not only has a negative role in the organism but also exhibits significant antimutagenic properties, the mechanisms of interactions between bilirubin and mutagens are not clear. In this study, interaction between bilirubin bound to different binding sites of mammalian serum albumins with structural analogues of the mutagens 2-aminofluorene, 2,7-diaminofluorene and mutagen 2,4,7-trinitrofluorenone were investigated by circular dichroism and absorption spectroscopy. Homological human and bovine serum albumins were used as chiral matrices, which preferentially bind different conformers of bilirubin in the primary binding sites and make it observable by circular dichroism. These molecular systems approximated a real system for the study of mutagens in blood serum. Differences between the interaction of bilirubin bound to primary and to secondary binding sites of serum albumins with mutagens were shown. For bilirubin bound to secondary binding sites with low affinity, partial displacement and the formation of self-associates were observed in all studied mutagens. The associates of bilirubin bound to primary binding sites of serum albumins are formed with 2-aminofluorene and 2,4,7-trinitrofluorenone. It was proposed that 2,7-diaminofluorene does not interact with bilirubin bound to primary sites of human and bovine serum albumins due to the spatial hindrance of the albumins binding domains. The spatial arrangement of the bilirubin bound to serum albumin along with the studied mutagens was modelled using ligand docking, which revealed a possibility of an arrangement of the both bilirubin and 2-aminofluorene and 2,4,7-trinitrofluorenone in the primary binding site of human serum albumin.

Quantification of the effects of ocean acidification on sediment microbial communities in the environment: the importance of ecosystem approaches.

PubMed

Hassenrück, Christiane; Fink, Artur; Lichtschlag, Anna; Tegetmeyer, Halina E; de Beer, Dirk; Ramette, Alban

2016-05-01

To understand how ocean acidification (OA) influences sediment microbial communities, naturally CO2-rich sites are increasingly being used as OA analogues. However, the characterization of these naturally CO2-rich sites is often limited to OA-related variables, neglecting additional environmental variables that may confound OA effects. Here, we used an extensive array of sediment and bottom water parameters to evaluate pH effects on sediment microbial communities at hydrothermal CO2 seeps in Papua New Guinea. The geochemical composition of the sediment pore water showed variations in the hydrothermal signature at seep sites with comparable pH, allowing the identification of sites that may better represent future OA scenarios. At these sites, we detected a 60% shift in the microbial community composition compared with reference sites, mostly related to increases in Chloroflexi sequences. pH was among the factors significantly, yet not mainly, explaining changes in microbial community composition. pH variation may therefore often not be the primary cause of microbial changes when sampling is done along complex environmental gradients. Thus, we recommend an ecosystem approach when assessing OA effects on sediment microbial communities under natural conditions. This will enable a more reliable quantification of OA effects via a reduction of potential confounding effects. © FEMS 2016.

Guideline-conforming timing of invasive management in troponin-positive or high-risk ACS without persistent ST-segment elevation in German chest pain units. Urban university maximum care vs. rural regional primary care.

PubMed

Breuckmann, F; Remberg, F; Böse, D; Lichtenberg, M; Kümpers, P; Pavenstädt, H; Waltenberger, J; Fischer, D

2016-03-01

This study aimed to analyze guideline adherence in the timing of invasive management for myocardial infarction without persistent ST-segment elevation (NSTEMI) in two exemplary German centers, comparing an urban university maximum care facility and a rural regional primary care facility. All patients diagnosed as having NSTEMI during 2013 were retrospectively enrolled in two centers: (1) site I, a maximum care center in an urban university setting, and (b) site II, a primary care center in a rural regional care setting. Data acquisition included time intervals from admission to invasive management, risk criteria, rate of intervention, and medical therapy. The median time from admission to coronary angiography was 12.0 h (site I) or 17.5 h (site II; p = 0.17). Guideline-adherent timing was achieved in 88.1 % (site I) or 82.9 % (site II; p = 0.18) of cases. Intervention rates were high in both sites (site I-75.5 % vs. site II-75.3 %; p = 0.85). Adherence to recommendations of medical therapy was high and comparable between the two sites. In NSTEMI or high-risk acute coronary syndromes without persistent ST-segment elevation, guideline-adherent timing of invasive management was achieved in about 85 % of cases, and was comparable between urban maximum and rural primary care settings. Validation by the German Chest Pain Unit Registry including outcome analysis is required.

OSIRIS-REx Asteroid Sample-Return Mission

NASA Astrophysics Data System (ADS)

DellaGiustina, D. N.; Lauretta, D. S.

2016-12-01

Launching in September 2016, the primary objective of the Origins, Spectral Interpretation, Resource Identification, and Security-Regolith Explorer (OSIRIS-REx) mission is to return a pristine sample of asteroid (101955) Bennu to Earth for sample analysis. Bennu is a carbonaceous primitive near-Earth object, and is expected to be rich in volatile and organic material leftover from the formation of the Solar System. OSIRIS-REx will return a minimum of 60 g of bulk surface material from this body using a novel "touch-and-go" sample acquisition mechanism. Analyses of these samples will provide unprecedented knowledge about presolar history, from the initial stages of planet formation to the origin of life. Before sample acquisition, OSIRIS-REx will perform global mapping of Bennu, detailing the asteroid's composition and texture, resolving surface features, revealing its geologic and dynamic history, and providing context for the returned samples. The mission will also document the sampling site in situ at sub-centimeter scales, as well as the asteroid sampling event. In addition, OSIRIS-REx will measure the Yarkovsky effect, a non-Keplerian force affecting the orbit of this potentially hazardous asteroid, and provide a ground truth data for the interpretation of telescopic observations of carbonaceous asteroids.

Primary cilia proteins: ciliary and extraciliary sites and functions.

PubMed

Hua, Kiet; Ferland, Russell J

2018-05-01

Primary cilia are immotile organelles known for their roles in development and cell signaling. Defects in primary cilia result in a range of disorders named ciliopathies. Because this organelle can be found singularly on almost all cell types, its importance extends to most organ systems. As such, elucidating the importance of the primary cilium has attracted researchers from all biological disciplines. As the primary cilia field expands, caution is warranted in attributing biological defects solely to the function of this organelle, since many of these "ciliary" proteins are found at other sites in cells and likely have non-ciliary functions. Indeed, many, if not all, cilia proteins have locations and functions outside the primary cilium. Extraciliary functions are known to include cell cycle regulation, cytoskeletal regulation, and trafficking. Cilia proteins have been observed in the nucleus, at the Golgi apparatus, and even in immune synapses of T cells (interestingly, a non-ciliated cell). Given the abundance of extraciliary sites and functions, it can be difficult to definitively attribute an observed phenotype solely to defective cilia rather than to some defective extraciliary function or a combination of both. Thus, extraciliary sites and functions of cilia proteins need to be considered, as well as experimentally determined. Through such consideration, we will understand the true role of the primary cilium in disease as compared to other cellular processes' influences in mediating disease (or through a combination of both). Here, we review a compilation of known extraciliary sites and functions of "cilia" proteins as a means to demonstrate the potential non-ciliary roles for these proteins.

2011 Annual Industrial Wastewater Reuse Report for the Idaho National Laboratory Site's Materials and Fuels Complex Industrial Waste Ditch and Industrial Waste Pond

DOE Office of Scientific and Technical Information (OSTI.GOV)

David Frederick

2012-02-01

This report describes conditions, as required by the state of Idaho Industrial Wastewater Reuse Permit (LA-000160-01), for the wastewater reuse site at the Idaho National Laboratory Site's Materials and Fuels Complex Industrial Waste Ditch and Industrial Waste Pond from November 1, 2010 through October 31, 2011. The report contains the following information: (1) Facility and system description; (2) Permit required effluent monitoring data and loading rates; (3) Groundwater monitoring data; (4) Status of special compliance conditions; and (5) Discussion of the facility's environmental impacts. During the 2011 reporting year, an estimated 6.99 million gallons of wastewater were discharged to themore » Industrial Waste Ditch and Pond which is well below the permit limit of 13 million gallons per year. Using the dissolved iron data, the concentrations of all permit-required analytes in the samples from the down gradient monitoring wells were below the Ground Water Quality Rule Primary and Secondary Constituent Standards.« less

Primary mapping and stratigraphic data and field methods for the Snowmastodon Project

USGS Publications Warehouse

Lucking, Carol; Johnson, Kirk R.; Pigati, Jeffery S.; Miller, Ian

2012-01-01

During the Snowmastodon Project, many different people collected data for a wide array of purposes under a variety of conditions. Early in the process and in an attempt to provide project-wide consistency, Kirk Johnson appointed Carol Lucking as the project’s data manager both in the field and the lab. She was responsible for using GIS to create maps on an ongoing basis throughout the project. Jeff Pigati agreed to measure stratigraphic sections and coordinate the collection of various nonvertebrate samples to make sure that all resulting data could be plotted on common diagrams. Kirk Johnson was onsite for the entire project and measured the basin margin stratigraphy on a daily basis as it was destroyed by the digging teams. In the fall of 2010, we treated the upper part of the site (which included discrete excavations for the mammoth, deer, and bison skeletons) as an archaeological excavation and the lower part of the site (which contained isolated mastodon, ground sloth, and bison bones) as a construction salvage site.

Bacterial diversity patterns of the intertidal biofilm in urban beaches of Río de la Plata.

PubMed

Piccini, C; García-Alonso, J

2015-02-28

Intertidal benthic ecosystems in estuaries are productive sites where microbial processes play critical roles in nutrients mineralization, primary production and trophic web. In this groundwork study we analyzed the bacterial community of intertidal biofilms from Río de la Plata beaches with different anthropogenic impacts. Several environmental parameters were measured and bacterial assemblages were analyzed by 16S-rDNA pyrosequencing. The average OTU found per sample was 527.3±122.5, showing similar richness and diversity among them. However, sites having the highest and lowest salinity displayed higher bacterial diversity. Assemblages from a site nearby an oil refinery, showing the lowest salinity and oxygen concentration, were clearly distinct from the rest. The weight of this splitting relied on OTUs belonging to Thauera, known by its ability to metabolize aromatic compounds. Our results suggest that intertidal bacterial assemblages would be structured by major estuarine variables such as salinity, and that anthropogenic-induced environmental parameters might also be relevant. Copyright © 2014 Elsevier Ltd. All rights reserved.

Comparison of upper arm and forearm blood pressure.

PubMed

Domiano, Kathy L; Hinck, Susan M; Savinske, Debra L; Hope, Kathryn L

2008-11-01

The upper arm is the primary site used to obtain a blood pressure measurement (BPM); however, when it is not possible to use the upper arm, the forearm is a commonly used alternate site. This study determines if there is a significant difference between upper arm and forearm BPMs among adults and examines the relationship of participant characteristics to the BPM difference. A convenience sample was recruited from a low-income, independent-living, 104-apartment complex in the Midwest. Of the 106 participants, 64% were female and 89% were White. Ages ranged from 20 to 85 years (M = 50.7). The investigators calculated the BMIs (range = 18 to 42, M = 29.3, SD = 5.4) for the 89% (n = 94) of participants who reported their weight. The forearm tended to have higher BPMs than the upper arm (M difference = 4.0 mm Hg systolic, 2.3 mm Hg diastolic). However, site differences were greatest for men, obese adults, and middle aged (36 to 65) adults.

Sediment characteristics of the Yellowstone River in the vicinity of a proposed bypass chute near Glendive, Montana, 2011

USGS Publications Warehouse

Hanson, Brent R.

2012-01-01

In 2011, sediment data were collected by the U.S. Geological Survey in cooperation with the U.S. Army Corps of Engineers on the Yellowstone River at the location of a proposed bypass chute. The sediment data were collected to provide an understanding of the sediment dynamics of the given reach of the Yellowstone River. Suspended-sediment concentrations collected at the three sites generally decreased with decreasing streamflow. In general, the highest suspendedsediment concentrations were found near the channel bed and towards the center of the channel with lower suspendedsediment concentrations near the channel banks and water surface. Suspended sediment was the primary component of the total sediment load for all three sampling locations on the Yellowstone River and contributed at least 98 percent of the total sediment load at each of the three sites. The amount of bedload measured at the three sites was a smaller load in comparison with the suspended-sediment load.

High-Resolution Topomapping of Mars: Life After MER Site Selection

NASA Technical Reports Server (NTRS)

Kirk, R. L.; Howington-Kraus, E.; Hare, T. M.; Soricone, R.; Ross, K.; Weller, L.; Rosiek, M.; Redding, B.; Galuszka, D.; Haldemann, A. F. C.

2004-01-01

In this abstract we describe our ongoing use of high-resolution images from the Mars Global Surveyor Mars Orbiter Camera Narrow-Angle subsystem (MGS MOC-NA) to derive quantitative topographic and slope data for the martian surface at 3 - 10-m resolution. Our efforts over the past several years focused on assessment of candidate landing sites for the Mars Exploration Rovers (MER) and culminated in the selection of sites in Gusev crater and Meridiani Planum as safe as well as scientifically compelling. As of this writing, MER-A (Spirit) has landed safely in Gusev and we are performing a limited amount of additional mapping near the landing point to support localization of the lander and rover operations planning. The primary focus of our work, however, has been extending our techniques to sample a variety of geologic terrains planetwide to support both a variety of geoscientific studies and planning and data analysis for missions such as Mars Express, Mars Reconnaissance Orbiter, and Phoenix.

Characterization of a genotoxicity biomarker in three-spined stickleback (Gasterosteus aculeatus L.): Biotic variability and integration in a battery of biomarkers for environmental monitoring.

PubMed

Santos, Raphael; Joyeux, Aude; Palluel, Olivier; Palos-Ladeiro, Mélissa; Besnard, Aurélien; Blanchard, Christophe; Porcher, Jean Marc; Bony, Sylvie; Devaux, Alain; Sanchez, Wilfried

2016-04-01

As a large array of hazardous substances exhibiting genotoxicity are discharged into surface water, this work aimed at assessing the relevance of adding a genotoxicity biomarker in a battery of biomarkers recently developed in the model fish three-spined stickleback (Gasterosteus aculeatus). First the confounding influence of gender, body length, and season (used as a proxy of age and of the fish reproductive status, respectively) on the level of primary DNA damage in erythrocytes was investigated in wild sticklebacks. Then, the genotoxity biomarker was included in a large battery of biomarkers assessing xenobiotic biotransformation, oxidative stress and neurotoxicity, and implemented in five sites. Gender, age and reproductive status did not influence DNA damage level in fish from the reference site. A significant relationship between the level of primary DNA damage and fish length (as a proxy of age also correlated to the season) was highlighted in the contaminated site. Among all biomarkers investigated in the field, the level of DNA damage was one of the four most discriminating biomarkers with EROD, catalase activity and the level of lipid peroxidation representing together 75.40% of the discriminating power in sampled fish. The level of DNA damage was correlated to the EROD activity and to the level of peroxidation, which mainly discriminated fish from sites under urban pressure. Finally, Integrated Biomarker Response indexes (IBRv2), which were calculated with the whole biomarker response dataset exhibited higher values in the Reveillon (9.62), the Scarpe and Rhonelle contaminated sites (5.11 and 4.90) compared with the two reference sites (2.38 and 2.55). The present work highlights that integration of a genotoxicity biomarker in a multiparametric approach is relevant to assess ecotoxicological risk in freshwater aquatic organisms. © 2014 Wiley Periodicals, Inc.

Damage to metallic samples produced by measured lightning currents

NASA Technical Reports Server (NTRS)

Fisher, Richard J.; Schnetzer, George H.

1991-01-01

A total of 10 sample disks of 2024-T3 aluminum and 4130 ferrous steel were exposed to rocket-triggered lightning currents at the Kennedy Space Center test site. The experimental configuration was arranged so that the samples were not exposed to the preliminary streamer, wire-burn, or following currents that are associated with an upward-initiated rocket-triggered flash but which are atypical of naturally initiated lightning. Return-stroke currents and continuing currents actually attaching to the sample were measured, augmented by close-up video recordings of approximately 3 feet of the channel above the sample and by 16-mm movies with 5-ms resolution. From these data it was possible to correlate individual damage spots with streamer, return-stroke, and continuing currents that produced them. Substantial penetration of 80-mil aluminum was produced by a continuing current of submedian amplitude and duration, and full penetration of a 35-mil steel sample occurred under an eightieth percentile continuing current. The primary purpose of the data acquired in these experiments is for use in improving and quantifying the fidelity of laboratory simulations of lightning burnthrough.

A modeling analysis of alternative primary and secondary US ozone standards in urban and rural areas

NASA Astrophysics Data System (ADS)

Nopmongcol, Uarporn; Emery, Chris; Sakulyanontvittaya, Tanarit; Jung, Jaegun; Knipping, Eladio; Yarwood, Greg

2014-12-01

This study employed the High-Order Decoupled Direct Method (HDDM) of sensitivity analysis in a photochemical grid model to determine US anthropogenic emissions reductions required from 2006 levels to meet alternative US primary (health-based) and secondary (welfare-based) ozone (O3) standards. Applying the modeling techniques developed by Yarwood et al. (2013), we specifically evaluated sector-wide emission reductions needed to meet primary standards in the range of 60-75 ppb, and secondary standards in the range of 7-15 ppm-h, in 22 cities and at 20 rural sites across the US for NOx-only, combined NOx and VOC, and VOC-only scenarios. Site-specific model biases were taken into account by applying adjustment factors separately for the primary and secondary standard metrics, analogous to the US Environmental Protection Agency's (EPA) relative response factor technique. Both bias-adjusted and unadjusted results are presented and analyzed. We found that the secondary metric does not necessarily respond to emission reductions the same way the primary metric does, indicating sensitivity to their different forms. Combined NOx and VOC reductions are most effective for cities, whereas NOx-only reductions are sufficient at rural sites. Most cities we examined require more than 50% US anthropogenic emission reductions from 2006 levels to meet the current primary 75 ppb US standard and secondary 15 ppm-h target. Most rural sites require less than 20% reductions to meet the primary 75 ppb standard and less than 40% reductions to meet the secondary 15 ppm-h target. Whether the primary standard is protective of the secondary standard depends on the combination of alternative standard levels. Our modeling suggests that the current 75 ppb standard achieves a 15 ppm-h secondary target in most (17 of 22) cities, but only half of the rural sites; the inability for several western cities and rural areas to achieve the seasonally-summed secondary 15 ppm-h target while meeting the 75 ppb primary target is likely driven by higher background O3 that is commonly reported in the western US. However, a 70 ppb primary standard is protective of a 15 ppm-h secondary standard in all cities and 18 of 20 rural sites we examined, and a 60 ppb primary standard is protective of a 7 ppm-h secondary standard in all cities and 19 of 20 rural sites. If EPA promulgates separate primary and secondary standards, exceedance areas will need to develop and demonstrate control strategies to achieve both. This HDDM analysis provides an illustrative screening assessment by which to estimate emissions reductions necessary to satisfy both standards.

The effect of multiple primary rules on population-based cancer survival

PubMed Central

Weir, Hannah K.; Johnson, Christopher J.; Thompson, Trevor D.

2015-01-01

Purpose Different rules for registering multiple primary (MP) cancers are used by cancer registries throughout the world, making international data comparisons difficult. This study evaluates the effect of Surveillance, Epidemiology, and End Results (SEER) and International Association of Cancer Registries (IACR) MP rules on population-based cancer survival estimates. Methods Data from five US states and six metropolitan area cancer registries participating in the SEER Program were used to estimate age-standardized relative survival (RS%) for first cancers-only and all first cancers matching the selection criteria according to SEER and IACR MP rules for all cancer sites combined and for the top 25 cancer site groups among men and women. Results During 1995–2008, the percentage of MP cancers (all sites, both sexes) increased 25.4 % by using SEER rules (from 14.6 to 18.4 %) and 20.1 % by using IACR rules (from 13.2 to 15.8 %). More MP cancers were registered among females than among males, and SEER rules registered more MP cancers than IACR rules (15.8 vs. 14.4 % among males; 17.2 vs. 14.5 % among females). The top 3 cancer sites with the largest differences were melanoma (5.8 %), urinary bladder (3.5 %), and kidney and renal pelvis (2.9 %) among males, and breast (5.9 %), melanoma (3.9 %), and urinary bladder (3.4 %) among females. Five-year survival estimates (all sites combined) restricted to first primary cancers-only were higher than estimates by using first site-specific primaries (SEER or IACR rules), and for 11 of 21 sites among males and 11 of 23 sites among females. SEER estimates are comparable to IACR estimates for all site-specific cancers and marginally higher for all sites combined among females (RS 62.28 vs. 61.96 %). Conclusion Survival after diagnosis has improved for many leading cancers. However, cancer patients remain at risk of subsequent cancers. Survival estimates based on first cancers-only exclude a large and increasing number of MP cancers. To produce clinically and epidemiologically relevant and less biased cancer survival estimates, data on all cancers should be included in the analysis. The multiple primary rules (SEER or IACR) used to identify primary cancers do not affect survival estimates if all first cancers matching the selection criteria are used to produce site-specific survival estimates. PMID:23558444

Comparing Homeless Persons’ Care Experiences in Tailored Versus Nontailored Primary Care Programs

PubMed Central

Holt, Cheryl L.; Steward, Jocelyn L.; Jones, Richard N.; Roth, David L.; Stringfellow, Erin; Gordon, Adam J.; Kim, Theresa W.; Austin, Erika L.; Henry, Stephen Randal; Kay Johnson, N.; Shanette Granstaff, U.; O’Connell, James J.; Golden, Joya F.; Young, Alexander S.; Davis, Lori L.; Pollio, David E.

2013-01-01

Objectives. We compared homeless patients’ experiences of care in health care organizations that differed in their degree of primary care design service tailoring. Methods. We surveyed homeless-experienced patients (either recently or currently homeless) at 3 Veterans Affairs (VA) mainstream primary care settings in Pennsylvania and Alabama, a homeless-tailored VA clinic in California, and a highly tailored non-VA Health Care for the Homeless Program in Massachusetts (January 2011-March 2012). We developed a survey, the “Primary Care Quality-Homeless Survey," to reflect the concerns and aspirations of homeless patients. Results. Mean scores at the tailored non-VA site were superior to those from the 3 mainstream VA sites (P < .001). Adjusting for patient characteristics, these differences remained significant for subscales assessing the patient–clinician relationship (P < .001) and perceptions of cooperation among providers (P = .004). There were 1.5- to 3-fold increased odds of an unfavorable experience in the domains of the patient–clinician relationship, cooperation, and access or coordination for the mainstream VA sites compared with the tailored non-VA site; the tailored VA site attained intermediate results. Conclusions. Tailored primary care service design was associated with a superior service experience for patients who experienced homelessness. PMID:24148052

Influence of dietary carbon on mercury bioaccumulation in streams of the Adirondack Mountains of New York and the Coastal Plain of South Carolina, USA

USGS Publications Warehouse

Riva-Murray, Karen; Bradley, Paul M.; Chasar, Lia C.; Button, Daniel T.; Brigham, Mark E.; Eikenberry, Barbara C. Scudder; Journey, Celeste A.; Lutz, Michelle A.

2013-01-01

We studied lower food webs in streams of two mercury-sensitive regions to determine whether variations in consumer foraging strategy and resultant dietary carbon signatures accounted for observed within-site and among-site variations in consumer mercury concentration. We collected macroinvertebrates (primary consumers and predators) and selected forage fishes from three sites in the Adirondack Mountains of New York, and three sites in the Coastal Plain of South Carolina, for analysis of mercury (Hg) and stable isotopes of carbon (δ13C) and nitrogen (δ15N). Among primary consumers, scrapers and filterers had higher MeHg and more depleted δ13C than shredders from the same site. Variation in δ13C accounted for up to 34 % of within-site variation in MeHg among primary consumers, beyond that explained by δ15N, an indicator of trophic position. Consumer δ13C accounted for 10 % of the variation in Hg among predatory macroinvertebrates and forage fishes across these six sites, after accounting for environmental aqueous methylmercury (MeHg, 5 % of variation) and base-N adjusted consumer trophic position (Δδ15N, 22 % of variation). The δ13C spatial pattern within consumer taxa groups corresponded to differences in benthic habitat shading among sites. Consumers from relatively more-shaded sites had more enriched δ13C that was more similar to typical detrital δ13C, while those from the relatively more-open sites had more depleted δ13C. Although we could not clearly attribute these differences strictly to differences in assimilation of carbon from terrestrial or in-channel sources, greater potential for benthic primary production at more open sites might play a role. We found significant variation among consumers within and among sites in carbon source; this may be related to within-site differences in diet and foraging habitat, and to among-site differences in environmental conditions that influence primary production. These observations suggest that different foraging strategies and habitats influence MeHg bioaccumulation in streams, even at relatively small spatial scales. Such influence must be considered when selecting lower trophic level consumers as sentinels of MeHg bioaccumulation for comparison within and among sites.

Nitro-polycyclic aromatic hydrocarbon concentrations and sources in urban and suburban atmospheres of the Mid-Atlantic region

NASA Astrophysics Data System (ADS)

Bamford, Holly A.; Baker, Joel E.

Gas and particle phase concentrations of 26 nitro-PAHs were quantified in ambient air collected in downtown Baltimore, MD, an urban region, and in Fort Meade, MD, a suburban area 20 km south-southeast of Baltimore, during January and July 2001. Total (gas+particle) concentrations for individual nitro-PAH compounds varied by as much as five times from sample to sample within each month. 2-Nitrofluoranthene and 9-nitroanthracene were the most abundant of the nitro-PAHs quantitatively analyzed in the air at both sites, accounting for approximately half of the total nitro-PAH concentrations during January and July. Concentrations at Baltimore were on average two to three times higher than those measured at the Fort Meade site. Concentrations for most nitro-PAHs were higher in January than in July, suggesting a reduction in photodecay of nitro-PAHs during January promoted the accumulation of nitro-PAHs. Concentrations of nitro-PAHs produced from gas-phase reactions were significantly correlated with concentrations of oxides of nitrogen (NO x) measured simultaneously at the Fort Meade site. 3-Nitrophenanthrene and 4-nitrophenanthrene were negatively correlated with NO x and were the only nitro-PAHs correlated with O 3, suggesting a different formation mechanism for these compounds compared to the other nitro-PAHs found in this study. The relative contribution of gas-phase reactions and primary emission sources of nitro-PAHs were evaluated using source specific concentration ratios of 2-nitrofluoranthene and 1-nitropyrene (2-NF/1-NP). The mean ratios of 2-NF/1-NP at both sites were statistically higher in July than January, indicating gas-phase reactions were an important source of 2-nitrofluoranthene in the summer. However, in January, gas-phase reactions were reduced, the NO 3-initiated reaction in particular, and primary emissions may significantly contribute to ambient nitro-PAH levels. The two dominant gas-phase production pathways of nitro-PAHs from the OH and NO 3-initiated reactions were investigated using concentration ratios of 2-nitrofluoranthene and 2-nitropyrene (2-NF/2-NP). At both sites, 2-NF/2-NP ratios indicated that the daytime OH-initiated reaction was the dominant gas-phase formation pathway. The estimated contributions of nitro-PAHs produced through gas-phase reactions via the OH pathway during July were >45% and during January were >83% at both Fort Meade and Baltimore.

PAH Baselines for Amazonic Surficial Sediments: A Case of Study in Guajará Bay and Guamá River (Northern Brazil).

PubMed

Rodrigues, Camila Carneiro Dos Santos; Santos, Ewerton; Ramos, Brunalisa Silva; Damasceno, Flaviana Cardoso; Correa, José Augusto Martins

2018-06-01

The 16 priority PAH were determined in sediment samples from the insular zone of Guajará Bay and Guamá River (Southern Amazon River mouth). Low hydrocarbon levels were observed and naphthalene was the most representative PAH. The low molecular weight PAH represented 51% of the total PAH. Statistical analysis showed that the sampling sites are not significantly different. Source analysis by PAH ratios and principal component analysis revealed that PAH are primary from a few rate of fossil fuel combustion, mainly related to the local small community activity. All samples presented no biological stress or damage potencial according to the sediment quality guidelines. This study discuss baselines for PAH in surface sediments from Amazonic aquatic systems based on source determination by PAH ratios and principal component analysis, sediment quality guidelines and through comparison with previous studies data.

40 CFR 761.250 - Sample site selection for pipeline section abandonment.

Code of Federal Regulations, 2010 CFR

2010-07-01

... 40 Protection of Environment 30 2010-07-01 2010-07-01 false Sample site selection for pipeline... Disposal of Natural Gas Pipeline: Selecting Sample Sites, Collecting Surface Samples, and Analyzing Standard PCB Wipe Samples § 761.250 Sample site selection for pipeline section abandonment. This procedure...

40 CFR 761.250 - Sample site selection for pipeline section abandonment.

Code of Federal Regulations, 2011 CFR

2011-07-01

... 40 Protection of Environment 31 2011-07-01 2011-07-01 false Sample site selection for pipeline... Disposal of Natural Gas Pipeline: Selecting Sample Sites, Collecting Surface Samples, and Analyzing Standard PCB Wipe Samples § 761.250 Sample site selection for pipeline section abandonment. This procedure...

DOE Office of Scientific and Technical Information (OSTI.GOV)

Gonzalez, Nelida; Borg-Karlson, Anna-Karin; Artaxo, Paulo

This work presents the application of a newly developed method to facilitate the distinction between primary and secondary organic compounds in ambient aerosols based on their chiral analysis. The organic constituents chosen for chiral analysis are the four stereomers of the 2-methyltetrols, (2R,3S)- and (2S,3R)- methylerythritol and (2S,3S)- and (2R,3R)- methylthreitol. Ambient PM10 aerosol samples were collected between June 2008 and June 2009 near Manaus, Brazil, in a remote tropical rainforest environment of central Amazonia. The samples were analyzed for the presence of these four stereomers because qualitatively, in a previous study, they have been demonstrated to have partly primarymore » origins. Thus the origin of these compounds may be primary and secondary from the biosynthesis and oxidation processes of isoprene within plants and also in the atmosphere. Using authentic standards, the quantified concentrations were in average 78.2 and 72.8 ng m-3 for (2R,3S)- and (2S,3R)- methylerythritol and 3.1 and 3.3 ng m-3 for (2S,3S)- and (2R,3R)- methylthreitol during the dry season and 7.1, 6.5, 2.0, and 2.2 ng m-3 during the wet season, respectively. Furthermore, these compounds were found to be outside the confidence interval for racemic mixtures (enantiomeric fraction, Ef = 0.5 -0.01) in nearly all the samples, with deviations of up to 32 % (Ef = 0.61) for (2R,3S)-methylerythritol and 47 % (Ef = 0.65) for (2S,3S)-methylthreitol indicating (99% confidence level) biologically-produced 2-methyltetrols. The minimum primary origin contribution ranged between 0.19 and 29.67 ng m-3 for the 2-methylerythritols and between 0.15 and 1.2 ng m-3 for the 2-methylthreitols. The strong correlation of the diatereomers (racemic 2-methylerythritol and 2-methylthreitol) in the wet season implied a secondary origin. Assuming the maximum secondary contribution in the dry season, the secondary fraction in the wet season was 81-99 % and in the dry season, 10 - 95 %. Nevertheless, from the total 2-methyltetrol mass, the secondary mass represented 31 % whereas the primary 69 %. These results could have been expected for PM10 aerosols and might be different for fine particles at the same site. In addition, correlations with isoprene emission estimates for this site only showed an anti-correlation with 2-methylthreitol suggesting their direct emission from biological activity. The present study reinforces the importance of the analysis of chiral organic compounds to correctly assess the contribution of primary biogenic emissions and isoprene oxidation products to biogenic secondary organic aerosol.« less

Evaluation of Pre- and Post- Redevelopment Groundwater Chemical Analyses from LM Monitoring Wells

DOE Office of Scientific and Technical Information (OSTI.GOV)

Kamp, Susan; Dayvault, Jalena

This report documents the efforts and analyses conducted for the Applied Studies and Technology (AS&T) Ancillary Work Plan (AWP) project titled Evaluation of Pre- and Post- Redevelopment Groundwater Sample Laboratory Analyses from Selected LM Groundwater Monitoring Wells. This effort entailed compiling an inventory of nearly 500 previous well redevelopment events at 16 U.S. Department of Energy Office of Legacy Management (LM) sites, searching the literature for impacts of well redevelopment on groundwater sample quality, and—the focus of this report—evaluating the impacts of well redevelopment on field measurements and sample analytical results. Study Catalyst Monitoring well redevelopment, the surging or high-volumemore » pumping of a well to loosen and remove accumulated sediment and biological build-up from a well, is considered an element of monitoring well maintenance that is implemented periodically during the lifetime of the well to mitigate its gradual deterioration. Well redevelopment has been conducted fairly routinely at a few LM sites in the western United States (e.g., the Grand Junction office site and the Gunnison processing site in Colorado), but at most other sites in this region it is not a routine practice. Also, until recently (2014–2015), there had been no specific criteria for implementing well redevelopment, and documentation of redevelopment events has been inconsistent. A catalyst for this evaluation was the self-identification of these inconsistencies by the Legacy Management Support contractor. As a result, in early 2015 Environmental Monitoring Operations (EMO) staff began collecting and documenting additional field measurements during well redevelopment events. In late 2015, AS&T staff undertook an independent internal evaluation of EMO's well redevelopment records and corresponding pre- and post-well-redevelopment groundwater analytical results. Study Findings Although literature discussions parallel the prevailing industry-wide assumption that well redevelopment is necessary to increase production or to extend the life of a well, no data in the literature indicate that redevelopment affects chemical signatures in monitoring wells. The comprehensive evaluation undertaken for this study also yielded no evidence that redevelopment has any quantifiable or predictable effect on groundwater sample quality. Both short-term and long-term changes in groundwater chemistry were assessed relative to preceding and subsequent well redevelopment events. Although short-term changes in specific conductance or contaminant concentrations likely attributable to well redevelopment were found at some sites, these cases were limited to a small subset of wells in which chemical stratification had been observed. Redevelopment causes mixing of the well water, resulting in short-term impacts, but not in a consistent direction. Long-term groundwater concentration trends of uranium, the primary contaminant of concern at most LM Uranium Mill Tailings Radiation Control Act (UMTRCA) sites, were evaluated for all 16 sites addressed in this study. Based on the data evaluated, there are no apparent impacts of well redevelopment on uranium trends. In most cases where deviations in trends were found, these could be attributed to water level fluctuations or other factors. A few exceptions were found where spikes or marked decreases in uranium concentrations could potentially be related to the preceding well redevelopment, but apparent impacts were neither predictable nor quantifiable. Summary and Recommendations A catalyst for this project was a concern that there was a need for strict criteria for a program-wide approach to well redevelopment at LM sites. There was also an implicit question as to whether well redevelopment was a necessary practice that was being overlooked at some sites. The primary objective of this study was to determine if there are significant differences in laboratory analytical results between pre- and post-redevelopment groundwater samples. Results of this evaluation indicate that this is not the case—groundwater concentrations of uranium, the primary contaminant of concern at most LM UMTRCA sites, generally remained unchanged pre- and post-well-redevelopment. The literature supports redevelopment of monitoring and municipal wells if signs of reduced productivity, biofouling, sediment buildup, or other conditions potentially affecting long-term well integrity are observed. In these cases, use of a downhole camera to examine the condition of the well screen and casing may be useful. However, based on the data sets examined for this study, there is no evidence that well redevelopment is needed in order to obtain samples that have the same chemical concentrations as those in the groundwater. To conclusively demonstrate that point—that is, to define chemical effects—the underlying mechanisms have to be understood. For example, if biofouling is observed in a well and is considered a potential cause of spurious or invalid chemical data, appropriate hypothesis-testing ethodology should be used to test the validity of this claim. Until late 2014, the onset of this project, there was no standard procedure for documenting well redevelopment events; some (perhaps many) had not been captured in the historical record. EMO has made notable progress in this regard since 2015, having established a format for documenting well redevelopment events and associated field measurements, as well as a data repository for capturing those records. This policy should be continued to ensure that all well redevelopment events and associated field observations are recorded and easily tracked.« less

Sleep Habits, Insomnia, and Daytime Sleepiness in a Large and Healthy Community-Based Sample of New Zealanders

PubMed Central

Wilsmore, Bradley R.; Grunstein, Ronald R.; Fransen, Marlene; Woodward, Mark; Norton, Robyn; Ameratunga, Shanthi

2013-01-01

Study Objectives: To determine the relationship between sleep complaints, primary insomnia, excessive daytime sleepiness, and lifestyle factors in a large community-based sample. Design: Cross-sectional study. Setting: Blood donor sites in New Zealand. Patients or Participants: 22,389 individuals aged 16-84 years volunteering to donate blood. Interventions: N/A. Measurements: A comprehensive self-administered questionnaire including personal demographics and validated questions assessing sleep disorders (snoring, apnea), sleep complaints (sleep quantity, sleep dissatisfaction), insomnia symptoms, excessive daytime sleepiness, mood, and lifestyle factors such as work patterns, smoking, alcohol, and illicit substance use. Additionally, direct measurements of height and weight were obtained. Results: One in three participants report < 7-8 h sleep, 5 or more nights per week, and 60% would like more sleep. Almost half the participants (45%) report suffering the symptoms of insomnia at least once per week, with one in 5 meeting more stringent criteria for primary insomnia. Excessive daytime sleepiness (evident in 9% of this large, predominantly healthy sample) was associated with insomnia (odds ratio [OR] 1.75, 95% confidence interval [CI] 1.50 to 2.05), depression (OR 2.01, CI 1.74 to 2.32), and sleep disordered breathing (OR 1.92, CI 1.59 to 2.32). Long work hours, alcohol dependence, and rotating work shifts also increase the risk of daytime sleepiness. Conclusions: Even in this relatively young, healthy, non-clinical sample, sleep complaints and primary insomnia with subsequent excess daytime sleepiness were common. There were clear associations between many personal and lifestyle factors—such as depression, long work hours, alcohol dependence, and rotating shift work—and sleep problems or excessive daytime sleepiness. Citation: Wilsmore BR; Grunstein RR; Fransen M; Woodward M; Norton R; Ameratunga S. Sleep habits, insomnia, and daytime sleepiness in a large and healthy community-based sample of New Zealanders. J Clin Sleep Med 2013;9(6):559-566. PMID:23772189

A systemic identification approach for primary transcription start site of Arabidopsis miRNAs from multidimensional omics data.

PubMed

You, Qi; Yan, Hengyu; Liu, Yue; Yi, Xin; Zhang, Kang; Xu, Wenying; Su, Zhen

2017-05-01

The 22-nucleotide non-coding microRNAs (miRNAs) are mostly transcribed by RNA polymerase II and are similar to protein-coding genes. Unlike the clear process from stem-loop precursors to mature miRNAs, the primary transcriptional regulation of miRNA, especially in plants, still needs to be further clarified, including the original transcription start site, functional cis-elements and primary transcript structures. Due to several well-characterized transcription signals in the promoter region, we proposed a systemic approach integrating multidimensional "omics" (including genomics, transcriptomics, and epigenomics) data to improve the genome-wide identification of primary miRNA transcripts. Here, we used the model plant Arabidopsis thaliana to improve the ability to identify candidate promoter locations in intergenic miRNAs and to determine rules for identifying primary transcription start sites of miRNAs by integrating high-throughput omics data, such as the DNase I hypersensitive sites, chromatin immunoprecipitation-sequencing of polymerase II and H3K4me3, as well as high throughput transcriptomic data. As a result, 93% of refined primary transcripts could be confirmed by the primer pairs from a previous study. Cis-element and secondary structure analyses also supported the feasibility of our results. This work will contribute to the primary transcriptional regulatory analysis of miRNAs, and the conserved regulatory pattern may be a suitable miRNA characteristic in other plant species.

Source apportionment of organic aerosol across Houston, TX during DISCOVER-AQ

NASA Astrophysics Data System (ADS)

Yoon, S.; Clark, A. E.; Ortiz, S. M.; Usenko, S.; Sheesley, R. J.

2015-12-01

As part of the ground-based sampling efforts during DISCOVER-AQ's Houston month-long campaign in September 2013, atmospheric particulate matter (PM) samples were collected at four sites: Moody Tower (urban), Manvel Croix (southern suburb), Conroe (northern suburb), and La Porte (urban industrial). The Houston metropolitan area, especially the Houston Ship Channel, is a densely industrialized urban city with large concentrations of petroleum refining, petrochemical manufacturing, and heavy traffic during peak hours. Due to these and other emission sources, the area is heavily impacted by ambient PM. This study will be looking at fine PM (diameter less than 2.5µm, PM2.5) from all four sites. PM2.5fraction is relevant for understanding fate and transport of organic contaminants and is widely known to negatively impact human health. Chemical analysis including radiocarbon (14C) and organic tracer measurements (polycyclic aromatic hydrocarbons, alkanes, hopanes, steranes, and levoglucosan) were used for source apportionment. The 14C measurements constrained CMB results to estimate both primary and secondary contributions to total organic carbon (TOC). Results indicate that Moody Tower had consistent primary motor vehicle exhaust contribution (18-27%) and a fossil secondary organic aerosol (SOA) contribution from 5-33% depending on atmospheric conditions. Conroe had a lower contribution of motor vehicle exhaust (5-10%) and similarly variable fraction of fossil SOA (4-25%). Manvel Croix had an interim motor vehicle contribution (9-15%) with a variable fossil SOA (5-30%). For contemporary OC, there was minimal contribution of wood smoke during examined weeks (0-9%) but larger contributor of biogenic SOA ranging from 40-75% at Moody Tower, 56-81% at Manvel Croix and 60-79% at Conroe. Overall, the motor vehicle contribution was consistent at each site during the analysis week, biogenic SOA was consistently high, while fossil SOA showed the most variability.

Land-use versus natural controls on soil fertility in the Subandean Amazon, Peru.

PubMed

Lindell, Lina; Aström, Mats; Oberg, Tomas

2010-01-15

Deforestation to amplify the agricultural frontier is a serious threat to the Amazon forest. Strategies to attain and maintain satisfactory soil fertility, which requires knowledge of spatial and temporal changes caused by land-use, are important for reaching sustainable development. This study highlights these issues by evaluating the relative effects of agricultural land-use and natural factors on chemical fertility of Inceptisols on redbed lithologies in the Subandean Amazon. Macro and micronutrients were determined in topsoil and subsoil in the vicinity of two villages at a total of 80 sites including pastures, coffee plantations, swidden fields, secondary forest and, as a reference, adjacent primary forest. Differences in soil fertility between the land cover classes were investigated by principal component analysis (PCA) and partial least squares regression (PLSR). Primary forest soil was found to be chemically similar to that of coffee plantations, pastures and secondary forests. There were no significant differences between soils of these land cover types in terms of plant nutrients (e.g. N, P, K, Ca, Mg, Mo, Mn, Zn, Cu and Co) or other fertility indicators (OM, pH, BS, EC, CECe and exchangeable acidity). The parent material (as indicated by texture and sample geographical origin) and the slope of the sampled sites were stronger controls on soil fertility than land cover type. Elevated concentrations of a few nutrients (NO(3) and K) were, however detected in soils of swidden fields. Despite being fertile (higher CECe, Ca and P) compared to Oxisols and Ultisols in the Amazon lowland, the Subandean soils frequently showed deficiencies in several nutrients (e.g. P, K, NO(3), Cu and Zn), and high levels of free Al at acidic sites. This paper concludes that deforestation and agricultural land-use has not introduced lasting chemical changes in the studied Subandean soils that are significant in comparison to the natural variability. Copyright 2009 Elsevier B.V. All rights reserved.

Paleomagnetism of the Grenville diabase dyke swarm and implications for the mid Vendian paleolatitude of Laurentia

NASA Astrophysics Data System (ADS)

Buchan, K. L.; Ernst, R. E.; Kumarapeli, P. S.

2004-05-01

The Vendian-early Cambrian drift of Laurentia is important for theories of `Snowball Earth' and the continental breakup that formed the Iapetus Ocean. However, estimates of Laurentia's paleolatitude in this period differ widely. Some authors have proposed that Laurentia remained in low latitude throughout this period, whereas others have supported rapid drift of the continent from low to high and back to low latitude. To assist in evaluating these models, a paleomagnetic study was conducted on the mid Vendian Grenville dyke swarm of southeastern Laurentia. This 700 km long swarm was emplaced along the Ottawa graben, an aulacogen associated with rifting that preceded the opening of the Iapetus Ocean. The swarm was the subject of an early paleomagnetic study by Murthy (1971). More recently, U-Pb baddeleyite and zircon ages of ca. 590 Ma have been described for three Grenville dykes (Kamo et al. 1995). At one of these sites, on the `Mattawa' dyke, a positive paleomagnetic baked contact test was also reported (Hyodo and Dunlop 1993). In that detailed test thermoremanent overprinting in the zone of hybrid magnetization was shown to match that expected from heat conduction for a cooling dyke. Nevertheless, Hyodo and Dunlop suggested that the steep down remanence in the dyke, although primary, was likely acquired during a geomagnetic excursion because it did not appear to fit the then-available polar wander path. In our study, paleomagnetic sampling was carried out at 36 sites, including all three dated locations. A detailed analysis has been completed for the dated sites and preliminary analysis for the remaining sites. A stable steep down remanence was obtained for all samples in the Mattawa dyke, and in most samples from a second dated site. The third dated site is less stably magnetized and has not yielded a usable remanence direction. Ten additional sites yield stable steep down or occasionally steep up remanences. The presence of a steep remanence in two dated dykes and several others demonstrates that the remanence was not simply acquired during a short-term geomagnetic excursion. The positive baked contact test suggests that it is a primary remanence. If so, this would indicate that Laurentia was at high latitude 590 Ma ago. This would correspond to interpretations of steep magnetizations in the 577 Ma Callander Complex of the Ottawa graben (Symons and Chiasson 1991). However, other dykes in our study do not carry the steep down remanence. Six have an intermediate up WNW magnetization (or its reversal to the SE), suggesting that these dykes may not be 590 Ma in age. The WNW remanence is similar to that reported for the poorly-dated Buckingham volcanics of the Ottawa graben (Dankers and Lapointe 1981). Five additional sites carry other SE directions (both up and down) that are scattered along or near a great circle through the Mattawa and Buckingham volcanic directions, indicating that unresolved overprinting may have smeared the site directions. Therefore, caution should be exercised in interpreting the overall paleomagnetic data set until further U-Pb dating and paleomagnetic analysis have clarified whether more than one age of dyke swarm is present and whether significant overprinting has occurred. References: Dankers and Lapointe, 1981, Can. J. Earth Sci. 18: 1174; Hyodo and Dunlop, 1993, J. Geophys. Res. 98: 7997; Kamo, Krogh, and Kumarapeli, 1995, Can. J. Earth Sci. 32: 273; Murthy, 1971, Can. J. Earth Sci. 8: 802; Symons and Chiasson, 1991, Can. J. Earth Sci. 28: 355.

Compatible ecological niche signals between biological and archaeological datasets for late-surviving Neandertals.

PubMed

Bible, Rachael C; Peterson, A Townsend

2018-04-17

To assess ecological niche similarity for biological and archaeological samples representing late-surviving Neandertals in Europe to evaluate the validity of combining these two types of data in ecological niche modeling analyses. Tests of niche conservatism were used to assess niche similarity and niche identity of samples of morphologically diagnostic Neandertal remains and Middle Paleolithic (MP) archaeological sites dating to the time period leading up to Neandertal extinction. Paleoenvironmental reconstructions for the Pre-H4 (43.3-40.2 ky cal BP) were used as environmental space analyses. Null hypotheses of niche similarity and identity of the two types of samples could not be rejected. As primary and secondary evidence of Neandertal occurrence during the Pre-H4 show high levels of niche similarity and identity, combining the two types of occurrence data to create larger samples for niche analyses is justified without the concern that different environmental signals could complicate future research. © 2018 Wiley Periodicals, Inc.

Age dependency of primary tumor sites and metastases in patients with Ewing sarcoma.

PubMed

Worch, Jennifer; Ranft, Andreas; DuBois, Steven G; Paulussen, Michael; Juergens, Heribert; Dirksen, Uta

2018-06-01

The median age of patients with Ewing sarcoma (EwS) at diagnosis is around 14-15 years. Older age is associated with a worse outcome. The correlation of age at diagnosis on sites of disease has not been fully described. The goal of this study was to evaluate the differences in sites of primary tumor and metastatic tumor involvement according to age groups. EwS data from the Gesellschaft für Pädiatrische Onkologie und Hämatology (GPOH) database of the Cooperative Ewing Sarcoma Study (CESS) 81/86 and the European Intergroup Cooperative Ewing's Sarcoma Study EICESS 92 and the EUROpean Ewing tumor Working Initiative of National Groups-99-Protocol (EURO-E.W.I.N.G.-99) study were analyzed. Patient and tumor characteristics were evaluated statistically using chi square tests. The study population included 2,635 patients with bone EwS. Sites of primary and metastatic tumors differed according to the age groups of young children (0-9 years), early adolescence (10-14 years), late adolescence (15-19 years), young adults (20-24 years), and adults (more than 24 years). Young children demonstrated the most striking differences in site of disease with a lower proportion of pelvic primary and axial tumors. They presented less often with metastatic disease at diagnosis. Site of primary and metastatic tumor involvement in EwS differs according to patient age. The biological and developmental etiology for these differences requires further investigations. © 2018 Wiley Periodicals, Inc.

40 CFR 761.247 - Sample site selection for pipe segment removal.

Code of Federal Regulations, 2010 CFR

2010-07-01

... Natural Gas Pipeline: Selecting Sample Sites, Collecting Surface Samples, and Analyzing Standard PCB Wipe Samples § 761.247 Sample site selection for pipe segment removal. (a) General. (1) Select the pipe... 40 Protection of Environment 30 2010-07-01 2010-07-01 false Sample site selection for pipe segment...

40 CFR 761.247 - Sample site selection for pipe segment removal.

Code of Federal Regulations, 2011 CFR

2011-07-01

... 40 Protection of Environment 31 2011-07-01 2011-07-01 false Sample site selection for pipe segment... Natural Gas Pipeline: Selecting Sample Sites, Collecting Surface Samples, and Analyzing Standard PCB Wipe Samples § 761.247 Sample site selection for pipe segment removal. (a) General. (1) Select the pipe...

Influence of underpreparation on primary stability of implants inserted in poor quality bone sites: an in vitro study.

PubMed

Degidi, Marco; Daprile, Giuseppe; Piattelli, Adriano

2015-06-01

The purpose of this present study was to investigate the relation between implant site underpreparation and primary stability in the presence of poor-quality bone. A study was performed on fresh humid bovine bone; samples presented no cortical layer with a cancellous structure inside and were obtained from the hip. The bones were firmly attached to a base device. Sixty sites were prepared according to the protocol provided by the manufacturer: a 2-mm pilot drill was introduced to the proper depth and then twist drills of 3 and 3.4 mm were used. After site preparation, 20 3.4- × 11-mm (standard protocol group), 20 3.8- × 11-mm (10% undersized group), and 20 4.5- × 11-mm (25% undersized group) implants were inserted at a calibrated maximum torque of 70 N-cm at the predetermined speed of 30 rpm. After implant insertion, variable torque work (VTW), maximum insertion torque (peak IT), and resonance frequency analysis (RFA) values were recorded. The standard protocol group showed a mean VTW of 565.77 ± 219.12 N-cm, a peak IT of 11.3 ± 4.44 N-cm, and an RFA of 69.35 ± 7.35 implant stability quotient (ISQ). The 10% undersized group showed a mean VTW of 1,240.24 ± 407.78 N-cm, a peak IT of 20.26 ± 7.03 N-cm, and an RFA of 73.40 ± 2.33 ISQ. The 25% undersized group showed a mean VTW of 1,254.96 ± 727.49 N-cm, a peak IT of 17.15 ± 10.39 N-cm, and an RFA of 72.30 ± 6.70 ISQ. For VTW, the difference between the standard and undersized protocol values was statistically significant; for peak IT, the difference between the standard and 10% undersized protocol values was statistically significant; no other statistical differences were found between mean values. In the presence of poor-bone quality, a 10% undersized protocol is sufficient to improve the primary stability of the implant; additional decreases do not seem to enhance primary stability values. Copyright © 2015 American Association of Oral and Maxillofacial Surgeons. Published by Elsevier Inc. All rights reserved.

Perchlorate and selected metals in water and soil within Mount Rushmore National Memorial, South Dakota, 2011–15

USGS Publications Warehouse

Hoogestraat, Galen K.; Rowe, Barbara L.

2016-04-14

Mount Rushmore National Memorial is located in the east-central part of the Black Hills area of South Dakota and is challenged to provide drinking water to about 3 million annual visitors and year-round park personnel. An environmental concern to water resources within Mount Rushmore National Memorial has been the annual aerial fireworks display at the memorial for the Independence Day holiday during 1998–2009. A major concern of park management is the contamination of groundwater and surface water by perchlorate, which is used as an oxidizing agent in firework displays. A study by the U.S. Geological Survey, in cooperation with the National Park Service, was completed to characterize the occurrence of perchlorate and selected metals (constituents commonly associated with fireworks) in groundwater and surface water within and adjacent to Mount Rushmore National Memorial during 2011–15. Concentrations of perchlorate and metals in 106 water samples (collected from 6 groundwater sites and 14 surface-water sites) and 11 soil samples (collected from 11 soil sites) are reported.Within the Mount Rushmore National Memorial boundary, perchlorate concentrations were greatest in the Lafferty Gulch drainage basin, ranging from less than 0.20 to 38 micrograms per liter (μg/L) in groundwater samples and from 2.2 to 54 μg/L in surface-water samples. Sites within the Starling Gulch drainage basin also had some evidence of perchlorate contamination, with concentrations ranging from 0.61 to 19 μg/L. All groundwater and surface-water samples within the unnamed tributary to Grizzly Bear Creek drainage basin and reference sites outside the park boundary had concentrations less than 0.20 μg/L. Perchlorate concentrations in samples collected at the 200-foot-deep production well (Well 1) ranged from 17 to 38 μg/L with a median of 23 μg/L, whereas perchlorate concentrations in samples from the 500-foot-deep production well (Well 2) ranged from 2.1 to 17 μg/L, with a median of 6.1 μg/L. Perchlorate concentrations in samples of the treated groundwater were similar to the concentrations from Well 1, which was the predominant source of the water supply at Mount Rushmore National Memorial during the study period (2011–15). Springflow upstream from the production wells in the West Fork Lafferty Gulch drainage had the greatest perchlorate concentrations, ranging from 21 to 54 μg/L. The groundwater site within Lafferty Gulch drainage basin but downstream from the park boundary also had a perchlorate concentration less than 0.20 μg/L in the one sample collected at the site. Water samples collected at reference sites generally had concentrations of metals within the same range of those sites within the Mount Rushmore National Memorial boundary, presenting little evidence of metal contamination due to anthropogenic factors within the park boundary. Soil samples were collected near most water sampling sites and within the Hall of Records Canyon where fireworks were launched. Perchlorate concentrations in soil were greatest in the West Fork Lafferty Gulch drainage and Hall of Records Canyon, which are topographically higher than the two groundwater wells.The perchlorate concentrations in groundwater and surface water within Lafferty Gulch drainage basin during 2011–15 were greater than the U.S. Environmental Protection Agency’s Interim Drinking Water Health Advisory benchmark of 15 μg/L. The perchlorate concentrations in the Mount Rushmore water supply relative to this benchmark are of concern; however, this health advisory is based on the assumption that consumers are using the supply as their primary water source and currently is not a regulated standard. The groundwater system at West Fork Lafferty Gulch is highly susceptible to contamination by way of recharge and is isolated from downstream movement by an intrusive body acting as a dam, which may explain why a contamination problem is not likely to disappear or disperse, as could happen in larger aquifer systems. The observed deposition of firework debris within Lafferty Gulch drainage basin coupled with the lack of alternative perchlorate sources indicates that past firework displays are the most probable source of perchlorate contamination.

Comparison of HER-2 overexpression in primary breast cancer and metastatic sites and its effect on biological targeting therapy of metastatic disease

PubMed Central

Zidan, J; Dashkovsky, I; Stayerman, C; Basher, W; Cozacov, C; Hadary, A

2005-01-01

HER-2 overexpression, a predictive marker of tumour aggressiveness and responsiveness to therapy, occurs in 20–30% of breast cancer. Although breast cancer is a heterogeneous disease, HER-2 measurement is carried out in primary tumour. This study aims to evaluate HER-2 overexpression in primary and metastases and its effect on treatment decisions. Biopsies from primary breast cancer and corresponding metastases from 58 patients were studied. HER-2 overexpression was evaluated immunohistochemically in all primary and metastatic sites. Positive overexpression in primary and/or metastases was confirmed by fluorescence in situ hybridisation (FISH). Discordance in HER-2 overexpression between primary and metastatic sites was 14% (eight of 58 patients). Concordance was found in 50 (86%) of patients (95% CI: 77–95). In one patient (2%), HER-2 was negative in metastasis but positive in primary. In seven (12%) patients, HER-2 was positive in metastases and negative in primary (95% CI: 3.7–20), and three of them responded to trastuzumab. Gene amplification by FISH was found in all cases with HER-2 positive (+2 and +3) by immunohistochemistry. Our data suggest that a possible discordance of HER-2 overexpression between primary and metastases should be considered when making treatment decisions in patients with primary HER-2-negative tumours. PMID:16106267

Mars Science Laboratory Mission and Science Investigation

NASA Astrophysics Data System (ADS)

Grotzinger, John P.; Crisp, Joy; Vasavada, Ashwin R.; Anderson, Robert C.; Baker, Charles J.; Barry, Robert; Blake, David F.; Conrad, Pamela; Edgett, Kenneth S.; Ferdowski, Bobak; Gellert, Ralf; Gilbert, John B.; Golombek, Matt; Gómez-Elvira, Javier; Hassler, Donald M.; Jandura, Louise; Litvak, Maxim; Mahaffy, Paul; Maki, Justin; Meyer, Michael; Malin, Michael C.; Mitrofanov, Igor; Simmonds, John J.; Vaniman, David; Welch, Richard V.; Wiens, Roger C.

2012-09-01

Scheduled to land in August of 2012, the Mars Science Laboratory (MSL) Mission was initiated to explore the habitability of Mars. This includes both modern environments as well as ancient environments recorded by the stratigraphic rock record preserved at the Gale crater landing site. The Curiosity rover has a designed lifetime of at least one Mars year (˜23 months), and drive capability of at least 20 km. Curiosity's science payload was specifically assembled to assess habitability and includes a gas chromatograph-mass spectrometer and gas analyzer that will search for organic carbon in rocks, regolith fines, and the atmosphere (SAM instrument); an x-ray diffractometer that will determine mineralogical diversity (CheMin instrument); focusable cameras that can image landscapes and rock/regolith textures in natural color (MAHLI, MARDI, and Mastcam instruments); an alpha-particle x-ray spectrometer for in situ determination of rock and soil chemistry (APXS instrument); a laser-induced breakdown spectrometer to remotely sense the chemical composition of rocks and minerals (ChemCam instrument); an active neutron spectrometer designed to search for water in rocks/regolith (DAN instrument); a weather station to measure modern-day environmental variables (REMS instrument); and a sensor designed for continuous monitoring of background solar and cosmic radiation (RAD instrument). The various payload elements will work together to detect and study potential sampling targets with remote and in situ measurements; to acquire samples of rock, soil, and atmosphere and analyze them in onboard analytical instruments; and to observe the environment around the rover. The 155-km diameter Gale crater was chosen as Curiosity's field site based on several attributes: an interior mountain of ancient flat-lying strata extending almost 5 km above the elevation of the landing site; the lower few hundred meters of the mountain show a progression with relative age from clay-bearing to sulfate-bearing strata, separated by an unconformity from overlying likely anhydrous strata; the landing ellipse is characterized by a mixture of alluvial fan and high thermal inertia/high albedo stratified deposits; and a number of stratigraphically/geomorphically distinct fluvial features. Samples of the crater wall and rim rock, and more recent to currently active surface materials also may be studied. Gale has a well-defined regional context and strong evidence for a progression through multiple potentially habitable environments. These environments are represented by a stratigraphic record of extraordinary extent, and insure preservation of a rich record of the environmental history of early Mars. The interior mountain of Gale Crater has been informally designated at Mount Sharp, in honor of the pioneering planetary scientist Robert Sharp. The major subsystems of the MSL Project consist of a single rover (with science payload), a Multi-Mission Radioisotope Thermoelectric Generator, an Earth-Mars cruise stage, an entry, descent, and landing system, a launch vehicle, and the mission operations and ground data systems. The primary communication path for downlink is relay through the Mars Reconnaissance Orbiter. The primary path for uplink to the rover is Direct-from-Earth. The secondary paths for downlink are Direct-to-Earth and relay through the Mars Odyssey orbiter. Curiosity is a scaled version of the 6-wheel drive, 4-wheel steering, rocker bogie system from the Mars Exploration Rovers (MER) Spirit and Opportunity and the Mars Pathfinder Sojourner. Like Spirit and Opportunity, Curiosity offers three primary modes of navigation: blind-drive, visual odometry, and visual odometry with hazard avoidance. Creation of terrain maps based on HiRISE (High Resolution Imaging Science Experiment) and other remote sensing data were used to conduct simulated driving with Curiosity in these various modes, and allowed selection of the Gale crater landing site which requires climbing the base of a mountain to achieve its primary science goals. The Sample Acquisition, Processing, and Handling (SA/SPaH) subsystem is responsible for the acquisition of rock and soil samples from the Martian surface and the processing of these samples into fine particles that are then distributed to the analytical science instruments. The SA/SPaH subsystem is also responsible for the placement of the two contact instruments (APXS, MAHLI) on rock and soil targets. SA/SPaH consists of a robotic arm and turret-mounted devices on the end of the arm, which include a drill, brush, soil scoop, sample processing device, and the mechanical and electrical interfaces to the two contact science instruments. SA/SPaH also includes drill bit boxes, the organic check material, and an observation tray, which are all mounted on the front of the rover, and inlet cover mechanisms that are placed over the SAM and CheMin solid sample inlet tubes on the rover top deck.

Molecular detection of airborne Coccidioides in Tucson, Arizona

USGS Publications Warehouse

Chow, Nancy A.; Griffin, Dale W.; Barker, Bridget M.; Loparev, Vladimir N.; Litvintseva, Anastasia P.

2016-01-01

Environmental surveillance of the soil-dwelling fungus Coccidioides is essential for the prevention of Valley fever, a disease primarily caused by inhalation of the arthroconidia. Methods for collecting and detectingCoccidioides in soil samples are currently in use by several laboratories; however, a method utilizing current air sampling technologies has not been formally demonstrated for the capture of airborne arthroconidia. In this study, we collected air/dust samples at two sites (Site A and Site B) in the endemic region of Tucson, Arizona, and tested a variety of air samplers and membrane matrices. We then employed a single-tube nested qPCR assay for molecular detection. At both sites, numerous soil samples (n = 10 at Site A and n = 24 at Site B) were collected and Coccidioides was detected in two samples (20%) at Site A and in eight samples (33%) at Site B. Of the 25 air/dust samples collected at both sites using five different air sampling methods, we detected Coccidioides in three samples from site B. All three samples were collected using a high-volume sampler with glass-fiber filters. In this report, we describe these methods and propose the use of these air sampling and molecular detection strategies for environmental surveillance of Coccidioides.

Large mass affecting retroperitoneal great vessels: a rare presentation of a cancer of unknown primary with diagnostic dilemma and challenged surgical intervention.

PubMed

Stakia, Paraskevi; Lagos, Panagiotis; Gourgiotis, Stavros; Tzilalis, Vasilios D; Aloizos, Stavros; Salemis, Nikolaos S

2009-01-01

Cancers of unknown primary site (CUPs) consist of a clinical entity which accounts for 3-5% of all solid tumor patients. They are metastatic solid tumors whose fundamental characteristic is the absence of identifiable site of the primary tumor. We report the case of a completely asymptomatic 34-year-old man with a palpated huge mass found incidentally in the left abdomen. All the investigations were normal. During the operation, a large mass was identified 2 cm below the left renal artery which was displacing and encompassing the great retroperitoneal vessels and the left ureter. A complete resection of the mass was performed while the histological examination revealed a solitary retroperitoneal lymph node categorized as metastatic adenocarcinoma of unknown primary site. It is essential to assess the high incidence of patients with cancer who present with CUP. Early surgical excision of the metastatic lesion followed by adjuvant combination chemotherapy should be considered for patients with only a single site of malignancy.

Radioimmunoguided surgery using iodine 125 B72. 3 in patients with colorectal cancer

DOE Office of Scientific and Technical Information (OSTI.GOV)

Cohen, A.M.; Martin, E.W. Jr.; Lavery, I.

1991-03-01

Preliminary data using B72.3 murine monoclonal antibody labeled with iodine 125 suggested that both clinically apparent as well as occult sites of colorectal cancer could be identified intraoperatively using a hand-held gamma detecting probe. We report the preliminary data of a multicenter trial of this approach in patients with primary or recurrent colorectal cancer. One hundred four patients with primary, suspected, or known recurrent colorectal cancer received an intravenous infusion of 1 mg of B72.3 monoclonal antibody radiolabeled with 7.4 x 10 Bq of iodine 125. Twenty-six patients with primary colorectal cancer and 72 patients with recurrent colorectal cancer weremore » examined. Using the gamma detecting probe, 78% of the patients had localization of the antibody in their tumor; this included 75% of primary tumor sites and 63% of all recurrent tumor sites; 9.2% of all tumor sites identified represented occult sites detected only with the gamma detecting probe. The overall sensitivity was 77% and a predictive value of a positive detection was 78%. A total of 30 occult sites in 26 patients were identified. In patients with recurrent cancer, the antibody study provided unique data that precluded resection in 10 patients, and in another eight patients it extended the potentially curative procedure.« less

Impact of an Interprofessional Primary Care Training on Fear of Cancer Recurrence on Clinicians' Knowledge, Self-Efficacy, Anticipated Practice Behaviors, and Attitudes Toward Survivorship Care.

PubMed

Berrett-Abebe, Julie; Cadet, Tamara; Nekhlyudov, Larissa; Vitello, Joan; Maramaldi, Peter

2018-02-10

There are an estimated 15.5 million cancer survivors in the United States, with numbers projected to increase. Many cancer survivors are receiving survivorship care in primary care settings, yet primary care providers report a need for additional training on addressing medical and psychosocial concerns of cancer survivors. This paper presents findings from a pilot study on the effectiveness of a novel training for interprofessional primary care providers on the clinically significant issue of fear of cancer recurrence. The on-site training was provided to a total of 46 participants, including physicians (61%), physician assistants (11%), nurse practitioners (7%), nurses (17%), and social workers (4%) in six different primary care practices. The average number of years of professional experience was 18.8, with standard deviation of 10.9. Results of paired-sample t tests indicated that the training increased knowledge and self-efficacy of providers in identifying and addressing FCR. The training was well-received by participants, who had high confidence in implementing practice behavior changes, although they also identified barriers. Results suggest the feasibility of a brief training for continuing education and have implications for models of care delivery in cancer survivorship.

Radioelements and their occurrence with secondary minerals in heated and unheated tuff at the Nevada Test Site

DOE Office of Scientific and Technical Information (OSTI.GOV)

Flexser, S.; Wollenberg, H.A.

1992-06-01

Samples of devitrified welded tuff near and away from the site of a heater test in Rainier Mesa were examined with regard to whole-rock radioelement abundances, microscopic distribution of U, and oxygen isotope ratios. Wholerock U averages between 4 and 5 ppM, and U is concentrated at higher levels secondary opaque minerals as well as in accessory grains. U in primary and secondary sites is most commonly associated with Mn phases, which average {approximately}30 ppM U in more uraniferous occurrences. This average is consistent and apparently unaffected by proximity to the heater. The Mn phases differ compositionally from Mn mineralsmore » in other NTS tuffs, usually containing abundant Fe, Ti, and sometimes Ce, and are often poorly crystalline. Oxygen isotope ratios show some depletion in {delta}{sup 18}O in tuff samples very close to the heater; this depletion is consistent with isotopic exchange between the tuff and interstitial water, but it may also reflect original heterogeneity in isotopic ratios of the tuff unrelated to the heater test. Seismic properties of several tuff samples were measured. Significant differences correlating with distance from the heater occur in P- and S-wave amplitudes; these may be due to loss of bound water. Seismic velocities are nearly constant and indicate a lack of significant microcracking. The absence of clearer signs of heater-induced U mobilization or isotopic variations may be due to the short duration of the heater test, and to insufficient definition of pre-heater-test heterogeneities in the tuff.« less

Characterising variation in five genetic loci of cytomegalovirus during treatment for congenital infection.

PubMed

Kadambari, Seilesh; Atkinson, Claire; Luck, Suzanne; Macartney, Malcolm; Conibear, Tim; Harrison, Ian; Booth, Clare; Sharland, Mike; Griffiths, Paul D

2017-03-01

Cytomegalovirus (CMV) is the most common congenital infection in humans and a leading cause of sensorineural hearing loss. Ganciclovir (6 mg/kg twice daily for 42 days) has been shown to reduce hearing deterioration and is used in clinical practice. Vaccines and passive administration of antibody are being evaluated in randomized controlled trials in allograft candidates, women of childbearing age, and pregnant women with primary CMV infection. To help define genetic variation in each of the targets of these therapeutic interventions, we amplified and sequenced genes UL97 (site utilised for ganciclovir phosphorylation), UL55 (glycoprotein B (gB) vaccine target) and UL128, UL130, and UL131a (specific monoclonal antibody targets). Serial blood, saliva, and urine samples (total 120) obtained from nine infants with symptomatic congenital CMV treated with 42 days' ganciclovir were analyzed. All samples tested were UL97 wild type at baseline and none developed mutations during treatment, showing no selection of resistance. The prevalences of UL55 genotypes were 28% gB1, 22% gB2, 1% gB3, and mixed in 20% samples. No mutations were noted in UL128-131a. Phylogenetic tree analysis showed that sequences with variations were found in multiple body sites of individual patients, so there was no evidence of body site compartmentalization of particular strains of CMV. The significance of these results for changes in diagnostic practices and therapeutic interventions against CMV are discussed. J. Med. Virol. 89:502-507, 2017. © 2016 Wiley Periodicals, Inc. © 2016 Wiley Periodicals, Inc.

Molecular Characterization of the Human Stomach Microbiota in Gastric Cancer Patients.

PubMed

Yu, Guoqin; Torres, Javier; Hu, Nan; Medrano-Guzman, Rafael; Herrera-Goepfert, Roberto; Humphrys, Michael S; Wang, Lemin; Wang, Chaoyu; Ding, Ti; Ravel, Jacques; Taylor, Philip R; Abnet, Christian C; Goldstein, Alisa M

2017-01-01

Helicobacter pylori ( Hp ) is the primary cause of gastric cancer but we know little of its relative abundance and other microbes in the stomach, especially at the time of gastric cancer diagnosis. Here we characterized the taxonomic and derived functional profiles of gastric microbiota in two different sets of gastric cancer patients, and compared them with microbial profiles in other body sites. Paired non-malignant and tumor tissues were sampled from 160 gastric cancer patients with 80 from China and 80 from Mexico. The 16S rRNA gene V3-V4 region was sequenced using MiSeq platform for taxonomic profiles. PICRUSt was used to predict functional profiles. Human Microbiome Project was used for comparison. We showed that Hp is the most abundant member of gastric microbiota in both Chinese and Mexican samples (51 and 24%, respectively), followed by oral-associated bacteria. Taxonomic (phylum-level) profiles of stomach microbiota resembled oral microbiota, especially when the Helicobacter reads were removed. The functional profiles of stomach microbiota, however, were distinct from those found in other body sites and had higher inter-subject dissimilarity. Gastric microbiota composition did not differ by Hp colonization status or stomach anatomic sites, but did differ between paired non-malignant and tumor tissues in either Chinese or Mexican samples. Our study showed that Hp is the dominant member of the non-malignant gastric tissue microbiota in many gastric cancer patients. Our results provide insights on the gastric microbiota composition and function in gastric cancer patients, which may have important clinical implications.

Molecular Characterization of the Human Stomach Microbiota in Gastric Cancer Patients

PubMed Central

Yu, Guoqin; Torres, Javier; Hu, Nan; Medrano-Guzman, Rafael; Herrera-Goepfert, Roberto; Humphrys, Michael S.; Wang, Lemin; Wang, Chaoyu; Ding, Ti; Ravel, Jacques; Taylor, Philip R.; Abnet, Christian C.; Goldstein, Alisa M.

2017-01-01

Helicobacter pylori (Hp) is the primary cause of gastric cancer but we know little of its relative abundance and other microbes in the stomach, especially at the time of gastric cancer diagnosis. Here we characterized the taxonomic and derived functional profiles of gastric microbiota in two different sets of gastric cancer patients, and compared them with microbial profiles in other body sites. Paired non-malignant and tumor tissues were sampled from 160 gastric cancer patients with 80 from China and 80 from Mexico. The 16S rRNA gene V3–V4 region was sequenced using MiSeq platform for taxonomic profiles. PICRUSt was used to predict functional profiles. Human Microbiome Project was used for comparison. We showed that Hp is the most abundant member of gastric microbiota in both Chinese and Mexican samples (51 and 24%, respectively), followed by oral-associated bacteria. Taxonomic (phylum-level) profiles of stomach microbiota resembled oral microbiota, especially when the Helicobacter reads were removed. The functional profiles of stomach microbiota, however, were distinct from those found in other body sites and had higher inter-subject dissimilarity. Gastric microbiota composition did not differ by Hp colonization status or stomach anatomic sites, but did differ between paired non-malignant and tumor tissues in either Chinese or Mexican samples. Our study showed that Hp is the dominant member of the non-malignant gastric tissue microbiota in many gastric cancer patients. Our results provide insights on the gastric microbiota composition and function in gastric cancer patients, which may have important clinical implications. PMID:28730144

Relapsed cervicomediastinal lymph node carcinoma with an unknown primary site treated with TS-1 alone: a case report.

PubMed

Yajima, Toshiki; Onozato, Ryoichi; Shitara, Yoshinori; Mogi, Akira; Tanaka, Shigebumi; Kuwano, Hiroyuki

2013-12-27

Cervicomediastinal lymph node carcinoma with an unknown primary site is quite rare, and useful treatment of these diseases has not been established. We report here the case of a patient successfully treated with TS-1 alone after the relapse of cervicomediastinal lymph node carcinoma with an unknown primary site. A 62-year-old man was referred to our hospital because of cervicomediastinal lymph node swelling and high serum levels of carbohydrate antigen 19-9 and carcinoembryonic antigen. Fluorodeoxyglucose-positron emission tomography/computed tomography revealed an accumulation of fluorodeoxyglucose in the left supraclavicular lymph nodes, mediastinal lymph nodes, and the pelvic cavity. Colonoscopy revealed rectal cancer, which was diagnosed by biopsy as a tubular adenocarcinoma. Because metastases from rectal cancer to the cervicomediastinal lymph nodes are rare, the patient underwent thoracoscopic mediastinal lymphadenectomy. A biopsy specimen from the paraaortic lymph nodes demonstrated papillary adenocarcinoma that was pathologically different from the rectal cancer; therefore, a diagnosis of mediastinal carcinoma with an unknown primary site was established. The patient underwent low anterior resection of the rectum for the rectal cancer, and no abdominal lymph node metastasis (pMP, N0/stage I) was found. Although radiotherapy was performed for the cervicomediastinal lymph nodes, the mediastinal carcinoma relapsed after 6 months. Because the patient desired oral chemotherapy on an outpatient basis, TS-1 was administered at a dosage of 80 mg/day for 2 weeks, followed by a 1-week rest. TS-1 treatment resulted in a decrease in the size of the cervicomediastinal lymph nodes, and the serum tumor marker levels decreased to normal after the fourth course. The patient continued TS-1 treatment without adverse events and is currently alive without recurrence or identification of the primary site at the 32nd month after TS-1 treatment. This is the first reported case of relapsed cervicomediastinal lymph node carcinoma with an unknown primary site treated by TS-1 alone. TS-1 treatment for the carcinoma with an unknown primary site may be useful in patients who are not candidates for systemic platinum-based chemotherapy.

Concentration data for anthropogenic organic compounds in groundwater, surface water, and finished water of selected community water systems in the United States, 2002-10

USGS Publications Warehouse

Carter, Janet M.; Kingsbury, James A.; Hopple, Jessica A.; Delzer, Gregory C.

2010-01-01

The National Water-Quality Assessment Program of the U.S. Geological Survey began implementing Source Water-Quality Assessments (SWQAs) in 2001 that focus on characterizing the quality of source water and finished water of aquifers and major rivers used by some of the larger community water systems in the United States. As used in SWQA studies, source water is the raw (ambient) water collected at the supply well before water treatment (for groundwater) or the raw (ambient) water collected from the river near the intake (for surface water), and finished water is the water that has been treated and is ready to be delivered to consumers. Finished-water samples are collected before the water enters the distribution system. The primary objective of SWQAs is to determine the occurrence of more than 250 anthropogenic organic compounds in source water used by community water systems, many of which currently are unregulated in drinking water by the U.S. Environmental Protection Agency. A secondary objective is to understand recurrence patterns in source water and determine if these patterns also occur in finished water before distribution. SWQA studies were conducted in two phases for most studies completed by 2005, and in one phase for most studies completed since 2005. Analytical results are reported for a total of 295 different anthropogenic organic compounds monitored in source-water and finished-water samples collected during 2002-10. The 295 compounds were classified according to the following 13 primary use or source groups: (1) disinfection by-products; (2) fumigant-related compounds; (3) fungicides; (4) gasoline hydrocarbons, oxygenates, and oxygenate degradates; (5) herbicides and herbicide degradates; (6) insecticides and insecticide degradates; (7) manufacturing additives; (8) organic synthesis compounds; (9) pavement- and combustion-derived compounds; (10) personal-care and domestic-use products; (11) plant- or animal-derived biochemicals; (12) refrigerants and propellants; and (13) solvents. This report presents the analytical results of source- water samples from 448 community water system wells and 21 surface-water sites. This report also presents the analytical results of finished-water samples from 285 wells and 20 surface-water sites from community water systems. Results of quality-assurance/quality-control samples also are presented including data for equipment blanks, field blanks, source solution blanks, and replicate samples.

78 FR 45989 - Vogtle Electric Generating Station, Units 3 and 4; Southern Nuclear Operating Company; Change to...

Federal Register 2010, 2011, 2012, 2013, 2014

2013-07-30

... Generating Station, Units 3 and 4; Southern Nuclear Operating Company; Change to the Primary Sampling System.... The amendment requests to modify the Primary Sampling System (PSS) design, including changes to Tier 1....13-1 ``Primary Sampling System,'' and Subsection 2.3.13, ``Primary Sampling System'' of the Updated...

78 FR 45987 - Vogtle Electric Generating Station, Units 3 and 4; Southern Nuclear Operating Company; Change to...

Federal Register 2010, 2011, 2012, 2013, 2014

2013-07-30

... Generating Station, Units 3 and 4; Southern Nuclear Operating Company; Change to the Primary Sampling System.... The amendment requests to modify the Primary Sampling System (PSS) design, including changes to Tier 1....13-1 ``Primary Sampling System,'' and Subsection 2.3.13, ``Primary Sampling System'' of the Updated...

Gastroenteropancreatic Neuroendocrine Tumors with Liver Metastases in Korea: A Clinicopathological Analysis of 72 Cases in a Single Institute

PubMed Central

Shin, Yooju; Ha, Sang Yun; Hyeon, Jiyeon; Lee, Boram; Lee, Jeeyun; Jang, Kee-Taek; Kim, Kyoung-Mee; Park, Young Suk; Park, Cheol-Keun

2015-01-01

Purpose Management of gastroenteropancreatic (GEP) neuroendocrine tumors with liver metastases (NETLM) presents many clinical challenges. Assessment of the extent of disease and primary tumor site is crucial for management. In this study, we investigated the primary tumor sites and prognostic factors in GEP NETLM among Korean patients. Materials and Methods We reviewed the medical records of 72 Korean patients diagnosed with GEP NETLM between January 1999 and May 2013, focusing on their clinical and pathologic characteristics. Results The most frequently encountered primary tumor sites were the pancreas (n=25, 35%), stomach (n=8, 11%), gall bladder (n=4, 6%) and rectum (n=3, 4%). Twenty-five patients (35%) had occult primary tumor. Twelve patients (17%) had histological grade G1 tumors, 30 patients (42%) had G2 tumors, and 30 patients (42%) had G3 tumors. The mean follow-up period after histological confirmation of hepatic metastases was 11.30±2.44 months for G3 tumors, 19.67±4.09 months for G2 tumors, and 30.67±6.51 months for G1 tumors. Multivariate analyses revealed that an unknown primary tumor site (p=0.001) and higher histological grade (p < 0.001) were independent prognostic indicators for shorter overall survival (OS). Most long-term survivors (OS > 24 months) had received antitumor treatment. Conclusion The primary tumor site most frequently associated with GEP NETLM was the pancreas. Unknown primary tumor and higher histological grade were independent prognostic indicators for shorter OS. Patients identified as being at a risk of shorter OS should be followed up closely. PMID:25687852

Quantitative passive soil vapor sampling for VOCs--part 1: theory.

PubMed

McAlary, Todd; Wang, Xiaomin; Unger, Andre; Groenevelt, Hester; Górecki, Tadeusz

2014-03-01

Volatile organic compounds are the primary chemicals of concern at many contaminated sites and soil vapor sampling and analysis is a valuable tool for assessing the nature and extent of contamination. Soil gas samples are typically collected by applying vacuum to a probe in order to collect a whole-gas sample, or by drawing gas through a tube filled with an adsorbent (active sampling). There are challenges associated with flow and vacuum levels in low permeability materials, and leak prevention and detection during active sample collection can be cumbersome. Passive sampling has been available as an alternative to conventional gas sample collection for decades, but quantitative relationships between the mass of chemicals sorbed, the soil vapor concentrations, and the sampling time have not been established. This paper presents transient and steady-state mathematical models of radial vapor diffusion to a drilled hole and considerations for passive sampler sensitivity and practical sampling durations. The results indicate that uptake rates in the range of 0.1 to 1 mL min(-1) will minimize the starvation effect for most soil moisture conditions and provide adequate sensitivity for human health risk assessment with a practical sampling duration. This new knowledge provides a basis for improved passive soil vapour sampler design.

Initial report for magnetostratigraphy of IODP Site U1490

NASA Astrophysics Data System (ADS)

Kumagai, Y.; Hatfield, R. G.; Nakamura, N.; Yamazaki, T.

2017-12-01

We report preliminary paleomagnetic results from between 175-296 meters composite depth (Miocene in age) of IODP Site U1490 recovered during Expedition 363. Site U1490 is located at 05°48.95´N, 142°39.27´E (the northern edge of the Eauripik Rise in the equatorial Pacific) in 2341 m water depth. A primary objective of Expedition 363 was to reconstruct the regional climate variability within the Western Pacific Warm Pool (WPWP) in a broad spatial coverage and different temporal resolutions through the time interval from the middle Miocene to late Pleistocene. The recovered pelagic sediments contains calcareous and siliceous nannofossils with varying proportions of clay and ash. It is also characterized by current-controlled mud waves with gradually decreasing amplitude upsection (Rosenthal et al., 2017). Since deep water is enriched in dissolved oxygen due to downwelling in polar regions, the mud waves were probably formed in an oxic environment by bottom currents, hindering the dissolution of magnetic minerals in the sediments. Shipboard analysis revealed that magnetic minerals between 20-175 m composite depth at Site U1490 have been dissolved by diagenetic alteration and the paleomagnetic data is uninterpretable. But the upper 20 m and below 175 m have a stable magnetization that spans from present to early Pleistocene (0-1.9 Ma) and middle to late Miocene period ( 9-19 Ma), respectively. The latter is an exceptionally long-time range continuous core sample, so it provides us an opportunity to reveal long-range variations of paleomagnetic field. We will show stepwise alternate-field (AF) demagnetization of the natural remanent magnetization on U-channel samples from the composite stratigraphic section to establish magnetostratigraphy at this site.

Atmospheric particulate matter in proximity to mountaintop coal mines: Sources and potential environmental and human health impacts

USGS Publications Warehouse

Kurth, Laura; Kolker, Allan; Engle, Mark A.; Geboy, Nicholas J.; Hendryx, Michael; Orem, William H.; McCawley, Michael; Crosby, Lynn M.; Tatu, Calin A.; Varonka, Matthew S.; DeVera, Christina A.

2015-01-01

Mountaintop removal mining (MTM) is a widely used approach to surface coal mining in the US Appalachian region whereby large volumes of coal overburden are excavated using explosives, removed, and transferred to nearby drainages below MTM operations. To investigate the air quality impact of MTM, the geochemical characteristics of atmospheric particulate matter (PM) from five surface mining sites in south central West Virginia, USA, and five in-state study control sites having only underground coal mining or no coal mining whatsoever were determined and compared. Epidemiologic studies show increased rates of cancer, respiratory disease, cardiovascular disease, and overall mortality in Appalachian surface mining areas compared to Appalachian non-mining areas. In the present study, 24-h coarse (>2.5 µm) and fine (≤2.5 µm) PM samples were collected from two surface mining sites in June 2011 showed pronounced enrichment in elements having a crustal affinity (Ga, Al, Ge, Rb, La, Ce) contributed by local sources, relative to controls. Follow-up sampling in August 2011 lacked this enrichment, suggesting that PM input from local sources is intermittent. Using passive samplers, dry deposition total PM elemental fluxes calculated for three surface mining sites over multi-day intervals between May and August 2012 were 5.8 ± 1.5 times higher for crustal elements than at controls. Scanning microscopy of 2,249 particles showed that primary aluminosilicate PM was prevalent at surface mining sites compared to secondary PM at controls. Additional testing is needed to establish any link between input of lithogenic PM and disease rates in the study area.

Atmospheric particulate matter in proximity to mountaintop coal mines: sources and potential environmental and human health impacts.

PubMed

Kurth, Laura; Kolker, Allan; Engle, Mark; Geboy, Nicholas; Hendryx, Michael; Orem, William; McCawley, Michael; Crosby, Lynn; Tatu, Calin; Varonka, Matthew; DeVera, Christina

2015-06-01

Mountaintop removal mining (MTM) is a widely used approach to surface coal mining in the US Appalachian region whereby large volumes of coal overburden are excavated using explosives, removed, and transferred to nearby drainages below MTM operations. To investigate the air quality impact of MTM, the geochemical characteristics of atmospheric particulate matter (PM) from five surface mining sites in south central West Virginia, USA, and five in-state study control sites having only underground coal mining or no coal mining whatsoever were determined and compared. Epidemiologic studies show increased rates of cancer, respiratory disease, cardiovascular disease, and overall mortality in Appalachian surface mining areas compared to Appalachian non-mining areas. In the present study, 24-h coarse (>2.5 µm) and fine (≤2.5 µm) PM samples were collected from two surface mining sites in June 2011 showed pronounced enrichment in elements having a crustal affinity (Ga, Al, Ge, Rb, La, Ce) contributed by local sources, relative to controls. Follow-up sampling in August 2011 lacked this enrichment, suggesting that PM input from local sources is intermittent. Using passive samplers, dry deposition total PM elemental fluxes calculated for three surface mining sites over multi-day intervals between May and August 2012 were 5.8 ± 1.5 times higher for crustal elements than at controls. Scanning microscopy of 2,249 particles showed that primary aluminosilicate PM was prevalent at surface mining sites compared to secondary PM at controls. Additional testing is needed to establish any link between input of lithogenic PM and disease rates in the study area.

Human papilloma virus status and chromosomal imbalances in primary cervical carcinomas and tumour cell lines.

PubMed

Hidalgo, A; Schewe, C; Petersen, S; Salcedo, M; Gariglio, P; Schlüns, K; Dietel, M; Petersen, I

2000-03-01

Human papilloma virus (HPV) infection is the crucial step in the initiation of cervical carcinomas. In addition, HPV18 has been implicated in tumour progression and adverse clinical outcome. We determined the HPV types in 12 primary cervical carcinomas and 12 cell lines and compared the findings with the comparative genetic hybridisation (CGH) pattern of chromosomal alterations. The most frequent alteration was the deletion at 3p14 followed by the loss of 2q34-q36 along with 3q gain. High risk HPV types were detected in all samples except one primary tumour. In contrast to the normal distribution, HPV18 was present in 75% of cases including all cell lines. The cell lines carried a higher number of genetic alterations and a different CGH pattern for several chromosomes than the primary tumours, despite microdissection. Purely HPV18 positive cases indicated a high incidence of imbalances at specific loci with peaks of the histogram coinciding with known HPV integration sites. The study suggests that HPV infection is associated with a recurrent pattern of chromosomal changes in cervical carcinomas and that the development and progression of these alterations is triggered by integration into the host genome.

Ethnic Differences in Caregiver Quality of Life in Pediatric Asthma

PubMed Central

Everhart, Robin S.; Mitchell, Daphne Koinis; McQuaid, Elizabeth L.; Kopel, Sheryl; Seifer, Ronald; Canino, Glorisa; Fritz, Gregory

2012-01-01

Objective The aim of this study was to determine ethnic and site differences in quality of life (QOL) in a sample of Latino (Puerto Rican and Dominican) and non-Latino White (NLW) caregivers of children with asthma in mainland US and Island PR. We also investigated ethnic and site differences in associations between caregiver QOL and indicators of asthma morbidity. Method Seven-hundred and eighty-seven children with asthma (7–16 years of age) and their primary caregivers participated. Primary caregivers completed a measure of QOL, child asthma control, and emergency department utilization, among other measures. Results Ethnic and site differences were found on total QOL scores (ΔF(1, 783) = 29.46, p < .001). Island PR caregivers reported worse QOL scores than RI Latino and NLW caregivers; RI Latino caregivers reported significantly worse QOL scores than NLW caregivers. In RI Latino and Island PR children, worse caregiver QOL was associated with asthma that was not in control and with 1 or more ED visits. Conclusion Latino caregivers may be experiencing a greater level of burden related to their child’s asthma than NLW caregivers. Caregiver QOL in pediatric asthma may be a reflection of broader, contextual stress that some Latino caregivers experience on a daily basis (e.g., cultural beliefs, acculturation). Future research should continue to investigate mechanisms that explain the burden associated with pediatric asthma in Latino families, as well as whether QOL assessments should consider the impact of everyday stressors on caregiver QOL in pediatric asthma. PMID:23027132

GEOSTATISTICAL SAMPLING DESIGNS FOR HAZARDOUS WASTE SITES

EPA Science Inventory

This chapter discusses field sampling design for environmental sites and hazardous waste sites with respect to random variable sampling theory, Gy's sampling theory, and geostatistical (kriging) sampling theory. The literature often presents these sampling methods as an adversari...

In Situ Analysis of Mars Soil and Rocks Sample with the Sam Gcms Instrumentation Onboard Curiosity : Interpretation and Comparison of Measurements Done during the First Martian Year of Curiosity on Mars

NASA Astrophysics Data System (ADS)

Szopa, C.; Coll, P. J.; Cabane, M.; Buch, A.; Coscia, D.; Millan, M.; Francois, P.; Belmahadi, I.; Teinturier, S.; Navarro-Gonzalez, R.; Glavin, D. P.; Freissinet, C.; Steele, A.; Eigenbrode, J. L.; Mahaffy, P. R.

2014-12-01

The characterisation of the chemical and mineralogical composition of solid surface samples collected with the Curiosity rover is a primary objective of the SAM experiment. These data should provide essential clues on the past habitability of Gale crater. Amongst the SAM suite of instruments [1], SAM-GC (Gas Chromatograph) is devoted to identify and quantify volatiles evolved from the thermal (heating up to about 900°C)/chemical (derivatization procedure) treatment of any soil sample collected by the Curiosity rover. With the aim to search for potential organic molecules outgassed from the samples, SAM-GC analytical channels composed of thermal-desorption injector, and a MXT-CLP or a MXT-Q chromatographic column was chosen to achieve all the measurements done up today, with the aim to separate of a wide range of volatile inorganic and organic molecules. Four solid samples have been analyzed with GCMS, one sand sample collected at the Rocknest site, two rock samples (John Klein and Cumberland respectively) collected at the Yellowknife Bay site using the Curiosity driller, and one rock sample collected at the Kimberly site. All the measurements were successful and they produced complex chromatograms with both detectors used for SAM GC, i.e. a thermal conductivity detector and the SAM quandrupole mass spectrometer. Their interpretation already revealed the presence of an oxychlorine phase present in the sample which is at the origin of chlorohydrocarbons clearly identified [2] but this represents only a fraction of the GCMS signal recorded [3,4]. This work presents a systematic comparison of the GCMS measurements done for the different samples collected, supported by reference data obtained in laboratory with different spare models of the gas chromatograph, with the aim to bring new elements of interpretation of the SAM measurements. References: [1] Mahaffy, P. et al. (2012) Space Sci Rev, 170, 401-478. [2] Glavin, D. et al. (2013), JGR. [3] Leshin L. et al. (2013), Science, [4] Ming D. et al. (2013), Science, 32, 64-67. Acknowledgements: SAM-GC team acknowledges support from the French Space Agency (CNES), French National Programme of Planetology (PNP), National French Council (CNRS), Pierre Simon Laplace Institute, Institut Universitaire de France (IUF) and ESEP Labex, and the great MSL team

Breast as an unusual site of metastasis- series of 3 cases and review of literature.

PubMed

Hebbar, Ashwin K; Shashidhar, K; S, Krishna Murthy; Kumar, Veerendra; Arjunan, Ravi

2014-09-01

Background and objectives Metastasis to the breast from extra mammary sites is uncommon with an incidence ranging from 1.2 to 2 % in clinical reports. Approximately 300 cases of breast metastasis from extra mammary sites have been reported, mostly in small series or as a single case report. Gastrointestinal adenocarcinoma metastasising to the breast is also very rare and only 30 cases have been reported in the literature. Metastatic deposits within the breast may be difficult to distinguish from primary breast carcinoma. Radiological features and immunohistochemistry especially for steroid hormone receptors (ER/PR) and expression of gross cystic disease fluid protein (GCDFP) and presence of other immunohistochemistry protein factors in breast metastasis which are specific to primary site may be helpful in differentiating these two conditions. Materials and methods In this series of 3 cases of breast as an unusual site of metastasis, we present different cases of adenocarcinoma of stomach, sigmoid colon and kidney with metastasis to the breast and discuss the differential diagnosis and management plans. Conclusion In conclusion, secondary tumors to the breast are rare and thus differentiating primary tumors from metastatic breast carcinoma is important for rational and optimum therapy and avoidance of unnecessary radical surgery. Palpable breast lump without typical radiological signs of primary breast carcinoma in patients with known primary should be suspected of representing metastasis.

Chemosynthetic trophic support for the benthic community at an intertidal cold seep site at Mocha Island off central Chile

NASA Astrophysics Data System (ADS)

Sellanes, Javier; Zapata-Hernández, Germán; Pantoja, Silvio; Jessen, Gerdhard L.

2011-12-01

We analyzed C and N stable isotope ratios of benthic fauna and their potential food sources at an intertidal methane seep site and a control site without emanation at Mocha Island (central Chile). The objective was to trace the origin of the main food sources used by the local heterotrophic fauna, based on the hypothesis that chemosynthetic production could be partially fueling the local food web at the seep site. Food sources sampled at both sites included macroalgae, particulate organic matter and bacteria-like filaments found growing over the red algae Gelidium lingulatum within the areas of active methane release. At the control site, located 11 km away from the gas emanation, fauna exhibited moderate δ 13C values ranging from -16.2‰ (in a nereid polychaete) to -14.8‰ (in a cirolanid isopod), which were consistent with those of the potential photosynthetic food sources sampled at this site (-20.2 to -16.5‰). δ 13C values of the photosynthetic food sources at the seep site similarly ranged between -25.4 and -17.9‰. However, a portion of the animals at this site were consistently more 13C-depleted, with δ 13C values close to that of the seeping methane (-43.8‰) and the bacteria-like filaments (-39.2 ± 2.5‰) also collected at this site. Specific examples were the Marphysa sp. polychaetes (δ 13C = -44.7 ± 0.6‰), the Schistomeringos sp. dorvilleid polychaetes (δ 13C = -42.9‰), and the tanaid crustacean Zeuxo marmoratus (δ 13C = -37.3 ± 0.2‰). The significantly higher δ 13C values of the herbivorous gastropod Tegula atra at the seep site (-29.3 ± 3.1‰) than at the control site (-12.6 ± 0.3‰) also indicated differences among sites of the preferred carbon sources of this species. Mixing model estimates indicate that at the seep site bacteria-like filaments could be contributing up to ˜60% of the assimilated diet of selected invertebrates. Furthermore, several indicators of trophic structure, based in isotopic niche metrics, indicate a considerably higher variety of basal resources used at the seep site and a consequent enhanced trophic diversity, compared with the non-seep site. The isotopic data gathered at the seep site clearly and unequivocally reflects the ingestion of a 13C-depleted primary food source, which could be the bacteria-like filaments observed at this site.

Primary succession seen through the shifted patterns of plant traits and soil macrofauna above/under-ground activity, a different ecological perspective towards post mining sites

NASA Astrophysics Data System (ADS)

Moradi, Jabbar; Mudrak, Ondrej; Frouz, Jan

2016-04-01

Using of trait distribution is becoming a promising field of ecology. Community weighted mean (CWM) values, in this regard, can summarize the shifts in the mean trait values within communities via environmental selection for a specific functional trait. Although traits have been widely used to describe relationships between plants and environmental variables, they are less used in study of interactions with other trophical levels. In 2013, we conducted a study to see the effect of plant community traits on soil and soil macrofauna epigeic/endogeic activity. We used sites of 10, 18, 28 and 55 years old in a succession sequence located at Sokolov post-mining site, Czech Republic. In each site we studied bare, grassy and woody patches. Vegetation traits, namely plant forms (i.e. grass, forb, legume, shrub and tree), canopy height, LDMC (leaf dry matter content), seed mass, and presence/absence of taproot during the whole life cycle were identified in 1-m×1-m quadrates. Soil fauna samples were collected from the same patches. Four patches were sampled in each plot and patch type. Fauna were extracted with a Tullgren apparatus, identified to family and counted. Their numbers were expressed per m2. CWM values of plan traits and faunal surface activity were calculated using the FD package in R. The computed values were transferred afterwards to CANOCO for further analyses. The effect of patches and age on dependent variables was determined with two-way ANOVAs. The higher LDMC in grassy and woody patches, particularly its correlation with 28 yrs site, can be related to higher reported P levels in 28 yrs site in specific, and generally higher nutrient return and C accumulation in vegetated sites. The absence of taproot in vegetated patches and 28 yrs site can be because of more competition with other species. It seems that the correlation between seed mass with oldest site and legume form is, roughly, a result of the change in community composition from forbs and grasses to "late succession species" of the oldest ages such as legumes.We infer that by time passing, thru soil development in older sites, soil medium became more favorable for larval stages and endogeic lifestyle of fauna, in other words, environmental selection and consequently the successful colonization of fauna holding the similar trait (i.e. epigeic activity) ended up in an endogeic community shift towards developed soils under older sites. The shift in CWM value of fauna community clearly shows importance of soil development for a stable colonization and regeneration of migrated communities. Traits related to life history of fauna, e.g. epigeic and endogeic, as well as correlated plant traits instead of plant species communities, i.e. LDMC and plant forms, can be of great value for an enhanced perception of the community pattern dynamics through time and space. The incorporation of trait diversity in primary and secondary successional studies seems to be promising in order to gain a better understanding of the successional changes.

Integrated Cryptosporidium Assay To Determine Oocyst Density, Infectivity, and Genotype for Risk Assessment of Source and Reuse Water

PubMed Central

King, Brendon; Fanok, Stella; Phillips, Renae; Swaffer, Brooke

2015-01-01

Cryptosporidium continues to be problematic for the water industry, with risk assessments often indicating that treatment barriers may fail under extreme conditions. However, risk analyses have historically used oocyst densities and not considered either oocyst infectivity or species/genotype, which can result in an overestimation of risk if the oocysts are not human infective. We describe an integrated assay for determining oocyst density, infectivity, and genotype from a single-sample concentrate, an important advance that overcomes the need for processing multiple-grab samples or splitting sample concentrates for separate analyses. The assay incorporates an oocyst recovery control and is compatible with standard primary concentration techniques. Oocysts were purified from primary concentrates using immunomagnetic separation prior to processing by an infectivity assay. Plate-based cell culture was used to detect infectious foci, with a monolayer washing protocol developed to allow recovery and enumeration of oocysts. A simple DNA extraction protocol was developed to allow typing of any wells containing infectious Cryptosporidium. Water samples from a variety of source water and wastewater matrices, including a semirural catchment, wastewater, an aquifer recharge site, and storm water, were analyzed using the assay. Results demonstrate that the assay can reliably determine oocyst densities, infectivity, and genotype from single-grab samples for a variety of water matrices and emphasize the varying nature of Cryptosporidium risk extant throughout source waters and wastewaters. This assay should therefore enable a more comprehensive understanding of Cryptosporidium risk for different water sources, assisting in the selection of appropriate risk mitigation measures. PMID:25769833

Integrated cryptosporidium assay to determine oocyst density, infectivity, and genotype for risk assessment of source and reuse water.

PubMed

King, Brendon; Fanok, Stella; Phillips, Renae; Swaffer, Brooke; Monis, Paul

2015-05-15

Cryptosporidium continues to be problematic for the water industry, with risk assessments often indicating that treatment barriers may fail under extreme conditions. However, risk analyses have historically used oocyst densities and not considered either oocyst infectivity or species/genotype, which can result in an overestimation of risk if the oocysts are not human infective. We describe an integrated assay for determining oocyst density, infectivity, and genotype from a single-sample concentrate, an important advance that overcomes the need for processing multiple-grab samples or splitting sample concentrates for separate analyses. The assay incorporates an oocyst recovery control and is compatible with standard primary concentration techniques. Oocysts were purified from primary concentrates using immunomagnetic separation prior to processing by an infectivity assay. Plate-based cell culture was used to detect infectious foci, with a monolayer washing protocol developed to allow recovery and enumeration of oocysts. A simple DNA extraction protocol was developed to allow typing of any wells containing infectious Cryptosporidium. Water samples from a variety of source water and wastewater matrices, including a semirural catchment, wastewater, an aquifer recharge site, and storm water, were analyzed using the assay. Results demonstrate that the assay can reliably determine oocyst densities, infectivity, and genotype from single-grab samples for a variety of water matrices and emphasize the varying nature of Cryptosporidium risk extant throughout source waters and wastewaters. This assay should therefore enable a more comprehensive understanding of Cryptosporidium risk for different water sources, assisting in the selection of appropriate risk mitigation measures. Copyright © 2015, American Society for Microbiology. All Rights Reserved.

Abnormal gel flotation caused by contrast media during adrenal vein sampling.

PubMed

Lima-Oliveira, Gabriel; Lippi, Giuseppe; Salvagno, Gian Luca; Gelati, Matteo; Bassi, Antonella; Contro, Alberto; Pizzolo, Francesca; Guidi, Gian Cesare

2016-10-15

During adrenal venous sampling (AVS) procedure, radiologists administer a contrast agent via the catheter to visualize the proper catheter position. A patient with primary aldosteronism diagnostic-hypothesis was admitted for AVS. A venogram was performed to
confirm the catheter's position with 2mL of Iopamidol 300 mg/mL. Samples were collected with syringe connected to a hydrophilic coated catheter by low-pressure aspiration from each of the four collection sites: inferior vena cava in the suprarenal portion, inferior vena cava in the infrarenal portion, left adrenal vein, and right adrenal vein; then immediately transferred from syringe to tubes with gel separator. All tubes were centrifuged at 1200 x g for 10 minutes. At the end of centrifugation process, primary blood tubes containing blood from inferior vena cava and left adrenal vein exhibited the standard gel separator barrier, while tubes from right adrenal vein showed abnormal flotation of gel separator. The radiologist confirmed the usage of 2.6 mL instead of 2.0 mL of Iopamidol 300 mg/mL. This iodinated contrast media, with 1.33 g/cm 3 of density, was used close to the right adrenal vein due to some difficulty to access it. The abnormal flotation of gel separator in samples taken from right adrenal vein can be explained by the usage of the iodinated
contrast media. We suggest using plain-tubes (without gel separator) for AVS in order to avoid preanalytical nonconformities. Moreover, a blood volume equivalent to twice the catheter extension should be discarded to eliminate residual contrast media before collection of samples for laboratory assays.

Capacity for Cancer Care Delivery Research in National Cancer Institute Community Oncology Research Program Community Practices: Availability of Radiology and Primary Care Research Partners.

PubMed

Carlos, Ruth C; Sicks, JoRean D; Chang, George J; Lyss, Alan P; Stewart, Teresa L; Sung, Lillian; Weaver, Kathryn E

2017-12-01

Cancer care spans the spectrum from screening and diagnosis through therapy and into survivorship. Delivering appropriate care requires patient transitions across multiple specialties, such as primary care, radiology, and oncology. From the program's inception, the National Cancer Institute Community Oncology Research Program (NCORP) sites were tasked with conducting cancer care delivery research (CCDR) that evaluates structural, organizational, and social factors, including care transitions that determine patient outcomes. The aim of this study is to describe the capacity of the NCORP to conduct multidisciplinary CCDR that includes radiology and primary care practices. The NCORP includes 34 community and 12 minority and underserved community sites. The Landscape Capacity Assessment was conducted in 2015 across these 46 sites, composed of the 401 components and subcomponents designated to conduct CCDR. Each respondent had the opportunity to designate an operational practice group, defined as a group of components and subcomponents with common care practices and resources. The primary outcomes were the proportion of adult oncology practice groups with affiliated radiology and primary care practices. The secondary outcomes were the proportion of those affiliated radiology and primary care groups that participate in research. Eighty-seven percent of components and subcomponents responded to at least some portion of the assessment, representing 230 practice groups. Analyzing the 201 adult oncology practice groups, 85% had affiliated radiologists, 69% of whom participate in research. Seventy-nine percent had affiliated primary care practitioners, 31% of whom participate in research. Institutional size, multidisciplinary group practice, and ownership by large regional or multistate health systems was associated with research participation by affiliated radiology and primary care groups. Research participation by these affiliated specialists was not significantly different between the community and the minority and underserved community sites. Research relationships exist between the majority of community oncology sites and affiliated radiology practices. Research relationships with affiliated primary care practices lagged. NCORP as a whole has the opportunity to encourage continued and expanded engagement where relationships exist. Where no relationship exists, the NCORP can encourage recruitment, particularly of primary care practices as partners. Copyright © 2017. Published by Elsevier Inc.

Health information technology interventions enhance care completion, engagement in HIV care and treatment, and viral suppression among HIV-infected patients in publicly funded settings.

PubMed

Shade, Starley B; Steward, Wayne T; Koester, Kimberly A; Chakravarty, Deepalika; Myers, Janet J

2015-04-01

The National HIV/AIDS Strategy (NHAS) emphasizes the use of technology to facilitate coordination of comprehensive care for people with HIV. We examined the effect of six health information technology (HIT) interventions in a Ryan White-funded Special Projects of National Significance (SPNS) on care completion services, engagement in HIV care, and viral suppression. Interventions included use of surveillance data to identify out-of-care individuals, extending access to electronic health records to support service providers, use of electronic laboratory ordering and prescribing, and development of a patient portal. Data from a sample of electronic patient records from each site were analyzed to assess changes in utilization of comprehensive care (prevention screening, support service utilization), engagement in primary HIV medical care (receipt of services and use of antiretroviral therapy), and viral suppression. We used weighted generalized estimating equations to estimate outcomes while accounting for the unequal contribution of data and differences in the distribution of patient characteristics across sites and over time. We observed statistically significant changes in the desired direction in comprehensive care utilization and engagement in primary care outcomes targeted by each site. Five of six sites experienced statistically significant increases in viral suppression. These results provide additional support for the use of HIT as a valuable tool for achieving the NHAS goal of providing comprehensive care for all people living with HIV. HIT has the potential to increase utilization of services, improve health outcomes for people with HIV, and reduce community viral load and subsequent transmission of HIV. © The Author 2014. Published by Oxford University Press on behalf of the American Medical Informatics Association. All rights reserved. For Permissions, please email: journals.permissions@oup.com For affiliation see end of article.

A systematic random sampling scheme optimized to detect the proportion of rare synapses in the neuropil.

PubMed

da Costa, Nuno Maçarico; Hepp, Klaus; Martin, Kevan A C

2009-05-30

Synapses can only be morphologically identified by electron microscopy and this is often a very labor-intensive and time-consuming task. When quantitative estimates are required for pathways that contribute a small proportion of synapses to the neuropil, the problems of accurate sampling are particularly severe and the total time required may become prohibitive. Here we present a sampling method devised to count the percentage of rarely occurring synapses in the neuropil using a large sample (approximately 1000 sampling sites), with the strong constraint of doing it in reasonable time. The strategy, which uses the unbiased physical disector technique, resembles that used in particle physics to detect rare events. We validated our method in the primary visual cortex of the cat, where we used biotinylated dextran amine to label thalamic afferents and measured the density of their synapses using the physical disector method. Our results show that we could obtain accurate counts of the labeled synapses, even when they represented only 0.2% of all the synapses in the neuropil.

Transport and fate of organic wastes in groundwater at the Stringfellow hazardous waste disposal site, southern California

USGS Publications Warehouse

Leenheer, J.A.; Hsu, J.; Barber, L.B.

2001-01-01

In January 1999, wastewater influent and effluent from the pretreatment plant at the Stringfellow hazardous waste disposal site were sampled along with groundwater at six locations along the groundwater contaminant plume. The objectives of this sampling and study were to identify at the compound class level the unidentified 40-60% of wastewater organic contaminants, and to determine what organic compound classes were being removed by the wastewater pretreatment plant, and what organic compound classes persisted during subsurface waste migration. The unidentified organic wastes are primarily chlorinated aromatic sulfonic acids derived from wastes from DDT manufacture. Trace amounts of EDTA and NTA organic complexing agents were discovered along with carboxylate metabolites of the common alkylphenolpolyethoxylate plasticizers and nonionic surfactants. The wastewater pretreatment plant removed most of the aromatic chlorinated sulfonic acids that have hydrophobic neutral properties, but the p-chlorobenzenesulfonic acid which is the primary waste constituent passed through the pretreatment plant and was discharged in the treated wastewaters transported to an industrial sewer. During migration in groundwater, p-chlorobenzenesulfonic acid is removed by natural remediation processes. Wastewater organic contaminants have decreased 3- to 45-fold in the groundwater from 1985 to 1999 as a result of site remediation and natural remediation processes. The chlorinated aromatic sulfonic acids with hydrophobic neutral properties persist and have migrated into groundwater that underlies the adjacent residential community. Copyright ?? 2001 .

Comparison of electrofishing techniques to detect larval lampreys in wadeable streams in the Pacific Northwest

USGS Publications Warehouse

Dunham, Jason B.; Chelgren, Nathan D.; Heck, Michael P.; Clark, Steven M.

2013-01-01

We evaluated the probability of detecting larval lampreys using different methods of backpack electrofishing in wadeable streams in the U.S. Pacific Northwest. Our primary objective was to compare capture of lampreys using electrofishing with standard settings for salmon and trout to settings specifically adapted for capture of lampreys. Field work consisted of removal sampling by means of backpack electrofishing in 19 sites in streams representing a broad range of conditions in the region. Captures of lampreys at these sites were analyzed with a modified removal-sampling model and Bayesian estimation to measure the relative odds of capture using the lamprey-specific settings compared with the standard salmonid settings. We found that the odds of capture were 2.66 (95% credible interval, 0.87–78.18) times greater for the lamprey-specific settings relative to standard salmonid settings. When estimates of capture probability were applied to estimating the probabilities of detection, we found high (>0.80) detectability when the actual number of lampreys in a site was greater than 10 individuals and effort was at least two passes of electrofishing, regardless of the settings used. Further work is needed to evaluate key assumptions in our approach, including the evaluation of individual-specific capture probabilities and population closure. For now our results suggest comparable results are possible for detection of lampreys by using backpack electrofishing with salmonid- or lamprey-specific settings.

Analysis of chromium status in the revegetated flora of a tannery waste site and microcosm studies using earthworm E. fetida.

PubMed

Nirola, Ramkrishna; Megharaj, Mallavarapu; Subramanian, Avudainayagam; Thavamani, Palanisami; Ramadass, Kavitha; Aryal, Rupak; Saint, Christopher

2018-02-01

Chromium from tannery waste dump site causes significant environmental pollution affecting surrounding flora and fauna. The primary aims of this study were to survey vegetation, investigate the degree of soil pollution occurring near tannery waste dump site and make a systematic evaluation of soil contamination based on the chromium levels found in plants and earthworms from the impacted areas. This paper presents the pollution load of toxic heavy metals, and especially chromium, in 10 soil samples and 12 species of plants. Soil samples were analysed for heavy metals by using ICP-MS/ICP-OES method. Results indicated that Cr in soils exceeded soil quality guideline limits (SQGL). The total chromium present in the above ground parts of plants ranged from 1.7 mg kg -1 in Casuarina sp. to 1007 mg kg -1 in Sonchus asper. The Cr bioaccumulation in Eisenia fetida from tannery waste soil ranged from 5 to 194 mg kg -1 . The high enrichment factor of Cr in S. asper and bioaccumulation factor in earthworms indicate that there is a steady increase of toxic chromium risk in this area, which could be correlated with the past dumping activity. Emphasis needs to be put on control measures of pollution and remediation techniques in such areas to achieve an ecologically sustainable industrialisation.

Malignant Melanoma Presenting as a Mediastinal Malignant Melanoma Presenting as a Mediastinal Unknown Primary Origin?

PubMed

Pujani, Mukta; Hassan, Mohd Jaseem; Jetley, Sujata; Raina, Prabhat Kumar; Kumar, Mukesh

2017-01-01

The most common site of primary malignant melanoma is the skin, however, virtually any organ system may be involved. Metastatic melanoma of unknown primary origin accounts for approximately 2-6% of all melanoma cases. The mediastinum as the site for malignant melanoma is extremely rare, both as a primary or metastatic lesion. Primary malignant melanoma of mediastinum is very rare with only a handful of reports in the literature. We hereby report a rare case of malignant melanoma of mediastinum in a 31 year old male who was initially misdiagnosed on fine needle aspiration cytology as adenocarcinoma for which he received chemotherapy with clinical deterioration. Even on extensive meticulous search, no primary was discovered.

Trends in major-ion constituents and properties for selected sampling sites in the Tongue and Powder River watersheds, Montana and Wyoming, based on data collected during water years 1980-2010

USGS Publications Warehouse

Sando, Steven K.; Vecchia, Aldo V.; Barnhart, Elliott P.; Sando, Thomas R.; Clark, Melanie L.; Lorenz, David L.

2014-01-01

The primary purpose of this report is to present information relating to flow-adjusted temporal trends in major-ion constituents and properties for 16 sampling sites in the Tongue and Powder River watersheds based on data collected during 1980–2010. In association with this primary purpose, the report presents background information on major-ion characteristics (including specific conductance, calcium, magnesium, potassium, sodium adsorption ratio, sodium, alkalinity, chloride, fluoride, dissolved sulfate, and dissolved solids) of the sampling sites and coal-bed methane (CBM) produced water (groundwater pumped from coal seams) in the site watersheds, trend analysis methods, streamflow conditions, and factors that affect trend results. The Tongue and Powder River watersheds overlie the Powder River structural basin (PRB) in northeastern Wyoming and southeastern Montana. Limited extraction of coal-bed methane (CBM) from the PRB began in the early 1990’s, and increased dramatically during the late 1990’s and early 2000’s. CBM-extraction activities produce discharges of water with high concentrations of dissolved solids (particularly sodium and bicarbonate ions) relative to most stream water in the Tongue and Powder River watersheds. Water-quality of CBM produced water is of concern because of potential effects of sodium on agricultural soils and potential effects of bicarbonate on aquatic biota. Two parametric trend-analysis methods were used in this study: the time-series model (TSM) and ordinary least squares regression (OLS) on time, streamflow, and season. The TSM was used to analyze trends for 11 of the 16 study sites. For five sites, data requirements of the TSM were not met and OLS was used to analyze trends. Two primary 10-year trend-analysis periods were selected. Trend-analysis period 1 (water years 1986–95; hereinafter referred to as period 1) was selected to represent variability in major-ion concentrations in the Tongue and Powder River watersheds before potential effects of CBM-extraction activities. Trend analysis period 2 (water years 2001–10; hereinafter referred to as period 2) was selected because it encompassed substantial CBM-extraction activities and therefore might indicate potential effects of CBM-extraction activities on water quality of receiving streams in the Tongue and Powder River watersheds. For sites that did not satisfy data requirements for the TSM, OLS was used to analyze trends for period 2 (if complete data were available) or a 6-year period (2005–10). Flow-rate characteristics of CBM-produced water were estimated to allow general comparisons with streamflow characteristics of the sampling sites. The information on flow-rate characteristics of CBM-produced water in relation to streamflow does not account for effects of disposal, treatment, or other remediation activities on the potential quantitative effects of CBM-produced water on receiving streams. In many places, CBM-produced water is discharged into impoundments or channels in upper reaches of tributary watersheds where water infiltrates and does not directly contribute to streamflow. For Tongue River at State line (site 4) mean annual pumping rate of CBM-produced water during water years 2001–10 (hereinafter referred to as mean CBM pumping rate) was 6 percent of the mean of annual median streamflows during water years 2001–10 (hereinafter referred to as 2001–10 median streamflow). For main-stem Tongue River sites 5, 7, and 10, mean CBM pumping rate was 8–12 percent of 2001–10 median streamflow. For main-stem Powder River sites (sites 12, 13, and 16), mean CBM pumping rates were 26, 28, and 34 percent of 2001–10 median streamflows, respectively. For main-stem Tongue River sites analyzed by using the TSM and downstream from substantial CBM-extraction activities [Tongue River at State line (site 4), Tongue River at Tongue River Dam (site 5), Tongue River at Birney Day School (site 7), and Tongue River at Miles City (site 10)], generally small significant or nonsignificant decreases in most constituents are indicated for period 1. For period 2 for these sites, the TSM trend results do not allow confident conclusions concerning detection of effects of CBM-extraction activities on stream water quality. Detection of significant trends in major-ion constituents and properties for period 2 generally was infrequent, and direction, magnitudes, and significance of fitted trends were not strongly consistent with relative differences in water quality between stream water and CBM-produced water. The TSM indicated significant or generally large magnitude increases in median values of sodium adsorption ratio (SAR), sodium, and alkalinity for period 2 for sites 5 and 7, which might indicate potential effects of CBM-extraction activities on stream water. However, other factors, including operations of Tongue River Reservoir, irrigation activities, contributions of saline groundwater, and operations of the Decker coal mine, confound confident determination of causes of detected significant trends for sites 5 and 7. For all mainstem Tongue River sites, trends for period 2 generally are within ranges of those for period 1 before substantial CBM-extraction activities. For main-stem Powder River sites analyzed by using the TSM [Powder River at Sussex (site 11), Powder River at Arvada (site 12), Powder River at Moorhead (site 13), and Powder River near Locate (site 16)], significant or generally large magnitude decreases in median values of SAR, sodium, estimated alkalinity, chloride, fluoride, specific conductance, and dissolved solids are indicated for period 1. Patterns in trend results for period 1 for main-stem Powder River sites are consistent with effects of Salt Creek oil-brine reinjection that started in 1990. Trend results for all main-stem Powder River sites downstream from substantial CBM-extraction activities (sites 12, 13, and 16) indicate evidence of potential effects of CBM-extraction activities on stream water quality, although evidence is stronger for sites 12 and 13 than for site 16. Evidence in support of potential CBM effects includes significant increases in median values of SAR, sodium, and estimated alkalinity for period 2 for sites 12, 13, and 16 that are consistent with relative differences between stream water and CBM-produced water. Significant increases in median values of these constituents for period 2 are not indicated for Powder River at Sussex (site 11) upstream from substantial CBM-extraction activities. In interpreting the trend results, it is notable that the fitted trends evaluate changes in median concentrations and also notable that changes in median concentrations that might be attributed to CBM-extraction activities probably are more strongly evident during low to median streamflow conditions than during mean to high streamflow conditions. This observation is relevant in assessing trend results in relation to specific water-quality concerns, including effects of water-quality changes on irrigators and effects on stream biota and ecology.

Using lot quality-assurance sampling and area sampling to identify priority areas for trachoma control: Viet Nam.

PubMed

Myatt, Mark; Mai, Nguyen Phuong; Quynh, Nguyen Quang; Nga, Nguyen Huy; Tai, Ha Huy; Long, Nguyen Hung; Minh, Tran Hung; Limburg, Hans

2005-10-01

To report on the use of lot quality-assurance sampling (LQAS) surveys undertaken within an area-sampling framework to identify priority areas for intervention with trachoma control activities in Viet Nam. The LQAS survey method for the rapid assessment of the prevalence of active trachoma was adapted for use in Viet Nam with the aim of classifying individual communes by the prevalence of active trachoma among children in primary school. School-based sampling was used; school sites to be sampled were selected using an area-sampling approach. A total of 719 communes in 41 districts in 18 provinces were surveyed. Survey staff found the LQAS survey method both simple and rapid to use after initial problems with area-sampling methods were identified and remedied. The method yielded a finer spatial resolution of prevalence than had been previously achieved in Viet Nam using semiquantitative rapid assessment surveys and multistage cluster-sampled surveys. When used with area-sampling techniques, the LQAS survey method has the potential to form the basis of survey instruments that can be used to efficiently target resources for interventions against active trachoma. With additional work, such methods could provide a generally applicable tool for effective programme planning and for the certification of the elimination of trachoma as a blinding disease.

The Strategy to Survive Primary Malaria Infection: An Experimental Study on Behavioural Changes in Parasitized Birds

PubMed Central

Mukhin, Andrey; Palinauskas, Vaidas; Platonova, Elena; Kobylkov, Dmitry; Vakoliuk, Irina; Valkiūnas, Gediminas

2016-01-01

Avian malaria parasites (Haemosporida, Plasmodium) are of cosmopolitan distribution, and they have a significant impact on vertebrate host fitness. Experimental studies show that high parasitemia often develops during primary malaria infections. However, field studies only occasionally reveal high parasitemia in free-living birds sampled using the traditional methods of mist-netting or trapping, and light chronic infections predominate. The reason for this discrepancy between field observation and experimental data remains insufficiently understood. Since mist-netting is a passive capture method, two main parameters determine its success in sampling infected birds in wildlife, i. e. the presence of parasitized birds at a study site and their mobility. In other words, the trapping probability depends on the survival rate of birds and their locomotor activity during infection. Here we test (1) the mortality rate of wild birds infected with Plasmodium relictum (the lineage pSGS1), (2) the changes in their behaviour during presence of an aerial predator, and (3) the changes in their locomotor activity at the stage of high primary parasitemia.We show that some behavioural features which might affect a bird's survival during a predator attack (time of reaction, speed of flush flight and take off angle) did not change significantly during primary infection. However, the locomotor activity of infected birds was almost halved compared to control (non-infected) birds during the peak of parasitemia. We report (1) the markedly reduced mobility and (2) the 20% mortality rate caused by P. relictum and conclude that these factors are responsible for the underrepresentation of birds in mist nets and traps during the stage of high primary parasitemia in wildlife. This study indicates that the widespread parasite, P. relictum (pSGS1) influences the behaviour of birds during primary parasitemia. Experimental studies combined with field observations are needed to better understand the mechanisms of pathogenicity of avian malaria parasites and their influence on bird populations. PMID:27434058

Asymmetric responses of primary productivity to altered precipitation simulated by ecosystem models across three long-term grassland sites

NASA Astrophysics Data System (ADS)

Wu, Donghai; Ciais, Philippe; Viovy, Nicolas; Knapp, Alan K.; Wilcox, Kevin; Bahn, Michael; Smith, Melinda D.; Vicca, Sara; Fatichi, Simone; Zscheischler, Jakob; He, Yue; Li, Xiangyi; Ito, Akihiko; Arneth, Almut; Harper, Anna; Ukkola, Anna; Paschalis, Athanasios; Poulter, Benjamin; Peng, Changhui; Ricciuto, Daniel; Reinthaler, David; Chen, Guangsheng; Tian, Hanqin; Genet, Hélène; Mao, Jiafu; Ingrisch, Johannes; Nabel, Julia E. S. M.; Pongratz, Julia; Boysen, Lena R.; Kautz, Markus; Schmitt, Michael; Meir, Patrick; Zhu, Qiuan; Hasibeder, Roland; Sippel, Sebastian; Dangal, Shree R. S.; Sitch, Stephen; Shi, Xiaoying; Wang, Yingping; Luo, Yiqi; Liu, Yongwen; Piao, Shilong

2018-06-01

Field measurements of aboveground net primary productivity (ANPP) in temperate grasslands suggest that both positive and negative asymmetric responses to changes in precipitation (P) may occur. Under normal range of precipitation variability, wet years typically result in ANPP gains being larger than ANPP declines in dry years (positive asymmetry), whereas increases in ANPP are lower in magnitude in extreme wet years compared to reductions during extreme drought (negative asymmetry). Whether the current generation of ecosystem models with a coupled carbon-water system in grasslands are capable of simulating these asymmetric ANPP responses is an unresolved question. In this study, we evaluated the simulated responses of temperate grassland primary productivity to scenarios of altered precipitation with 14 ecosystem models at three sites: Shortgrass steppe (SGS), Konza Prairie (KNZ) and Stubai Valley meadow (STU), spanning a rainfall gradient from dry to moist. We found that (1) the spatial slopes derived from modeled primary productivity and precipitation across sites were steeper than the temporal slopes obtained from inter-annual variations, which was consistent with empirical data; (2) the asymmetry of the responses of modeled primary productivity under normal inter-annual precipitation variability differed among models, and the mean of the model ensemble suggested a negative asymmetry across the three sites, which was contrary to empirical evidence based on filed observations; (3) the mean sensitivity of modeled productivity to rainfall suggested greater negative response with reduced precipitation than positive response to an increased precipitation under extreme conditions at the three sites; and (4) gross primary productivity (GPP), net primary productivity (NPP), aboveground NPP (ANPP) and belowground NPP (BNPP) all showed concave-down nonlinear responses to altered precipitation in all the models, but with different curvatures and mean values. Our results indicated that most models overestimate the negative drought effects and/or underestimate the positive effects of increased precipitation on primary productivity under normal climate conditions, highlighting the need for improving eco-hydrological processes in those models in the future.

Source apportionments of PM2.5 organic carbon using molecular marker Positive Matrix Factorization and comparison of results from different receptor models

NASA Astrophysics Data System (ADS)

Heo, Jongbae; Dulger, Muaz; Olson, Michael R.; McGinnis, Jerome E.; Shelton, Brandon R.; Matsunaga, Aiko; Sioutas, Constantinos; Schauer, James J.

2013-07-01

Four hundred fine particulate matter (PM2.5) samples collected over a 1-year period at two sites in the Los Angeles Basin were analyzed for organic carbon (OC), elemental carbon (EC), water soluble organic carbon (WSOC) and organic molecular markers. The results were used in a Positive Matrix Factorization (PMF) receptor model to obtain daily, monthly and annual average source contributions to PM2.5 OC. Results of the PMF model showed similar source categories with comparable year-long contributions to PM2.5 OC across the sites. Five source categories providing reasonably stable profiles were identified: mobile, wood smoke, primary biogenic, and two types of secondary organic carbon (SOC) (i.e., anthropogenic and biogenic emissions). Total primary emission factors and total SOC factors contributed approximately 60% and 40%, respectively, to the annual-average OC concentrations. Primary sources showed strong seasonal patterns with high winter peaks and low summer peaks, while SOC showed a reverse pattern with highs in the spring and summer in the region. Interestingly, smoke from forest fires which occurred episodically in California during the summer and fall of 2009 was identified and combined with the primary biogenic source as one distinct factor to the OC budget. The PMF resolved factors were further investigated and compared to a chemical mass balance (CMB) model and a second multi-variant receptor model (UNMIX) using molecular markers considered in the PMF. Good agreement between the source contribution from mobile sources and biomass burning for three models were obtained, providing additional weight of evidence that these source apportionment techniques are sufficiently accurate for policy development. However, the CMB model did not quantify primary biogenic emissions, which were included in other sources with the SOC. Both multivariate receptor models, the PMF and the UNMIX, were unable to separate source contributions from diesel and gasoline engines.

Early Hg mobility in cultivated tropical soils one year after slash-and-burn of the primary forest, in the Brazilian Amazon.

PubMed

Béliveau, Annie; Lucotte, Marc; Davidson, Robert; Lopes, Luis Otávio do Canto; Paquet, Serge

2009-07-15

In the Brazilian Amazon, forest conversion to agricultural lands (slash-and-burn cultivation) contributes to soil mercury (Hg) release and to aquatic ecosystem contamination. Recent studies have shown that soil Hg loss occurs rapidly after deforestation, suggesting that Hg mobility could be related to the massive cation input resulting from biomass burning. The objective of this research was to determine the effects of the first year of slash-and-burn agriculture on soil Hg levels at the regional scale of the Tapajós River, in the state of Pará, Brazilian Amazon. A total of 429 soil samples were collected in 26 farms of five riparian communities of the Tapajós basin. In September 2004, soil samples were collected from primary forest sites planned for slash-and-burn cultivation. In August 2005, one year after the initial burning, a second campaign was held and the exact same sites were re-sampled. Our results showed that total Hg levels in soils did not change significantly during the first year following slash-and-burn, suggesting no immediate release of soil Hg at that point in time. However, an early Hg mobility was detected near the surface (0-5 cm), reflected by a significant shift in Hg distribution in soil fractions. Indeed, a transfer of Hg from fine to coarser soil particles was observed, indicating that chemical bonds between Hg and fine particles could have been altered. A correspondence analysis (CA) showed that this process could be linked to a chemical competition caused by cation enrichment. The regional dimension of the study highlighted the prevailing importance of soil types in Hg dynamics, as shown by differentiated soil responses following deforestation according to soil texture. Confirming an early Hg mobility and indicating an eventual Hg release out of the soil, our results reinforce the call for the development of more sustainable agricultural practices in the Amazon.

A DNA methylation fingerprint of 1628 human samples

PubMed Central

Fernandez, Agustin F.; Assenov, Yassen; Martin-Subero, Jose Ignacio; Balint, Balazs; Siebert, Reiner; Taniguchi, Hiroaki; Yamamoto, Hiroyuki; Hidalgo, Manuel; Tan, Aik-Choon; Galm, Oliver; Ferrer, Isidre; Sanchez-Cespedes, Montse; Villanueva, Alberto; Carmona, Javier; Sanchez-Mut, Jose V.; Berdasco, Maria; Moreno, Victor; Capella, Gabriel; Monk, David; Ballestar, Esteban; Ropero, Santiago; Martinez, Ramon; Sanchez-Carbayo, Marta; Prosper, Felipe; Agirre, Xabier; Fraga, Mario F.; Graña, Osvaldo; Perez-Jurado, Luis; Mora, Jaume; Puig, Susana; Prat, Jaime; Badimon, Lina; Puca, Annibale A.; Meltzer, Stephen J.; Lengauer, Thomas; Bridgewater, John; Bock, Christoph; Esteller, Manel

2012-01-01

Most of the studies characterizing DNA methylation patterns have been restricted to particular genomic loci in a limited number of human samples and pathological conditions. Herein, we present a compromise between an extremely comprehensive study of a human sample population with an intermediate level of resolution of CpGs at the genomic level. We obtained a DNA methylation fingerprint of 1628 human samples in which we interrogated 1505 CpG sites. The DNA methylation patterns revealed show this epigenetic mark to be critical in tissue-type definition and stemness, particularly around transcription start sites that are not within a CpG island. For disease, the generated DNA methylation fingerprints show that, during tumorigenesis, human cancer cells underwent a progressive gain of promoter CpG-island hypermethylation and a loss of CpG methylation in non-CpG-island promoters. Although transformed cells are those in which DNA methylation disruption is more obvious, we observed that other common human diseases, such as neurological and autoimmune disorders, had their own distinct DNA methylation profiles. Most importantly, we provide proof of principle that the DNA methylation fingerprints obtained might be useful for translational purposes by showing that we are able to identify the tumor type origin of cancers of unknown primary origin (CUPs). Thus, the DNA methylation patterns identified across the largest spectrum of samples, tissues, and diseases reported to date constitute a baseline for developing higher-resolution DNA methylation maps and provide important clues concerning the contribution of CpG methylation to tissue identity and its changes in the most prevalent human diseases. PMID:21613409

Occurrence and fate of pesticides in four contrasting agricultural settings in the United States

USGS Publications Warehouse

Steele, G.V.; Johnson, H.M.; Sandstrom, M.W.; Capel, P.D.; Barbash, J.E.

2008-01-01

Occurrence and fate of 45 pesticides and 40 pesticide degradates were investigated in four contrasting agricultural settings—in Maryland, Nebraska, California, and Washington. Primary crops included corn at all sites, soybeans in Maryland, orchards in California and Washington, and vineyards in Washington. Pesticides and pesticide degradates detected in water samples from all four areas were predominantly from two classes of herbicides—triazines and chloroacetanilides; insecticides and fungicides were not present in the shallow ground water. In most samples, pesticide degradates greatly exceeded the concentrations of parent pesticide. In samples from Nebraska, the parent pesticide atrazine [6-chloro-N-ethyl-N′-(1-methylethyl)-1,3,5-triazine-2,4-diamine] was about the same concentration as the degradate, but in samples from Maryland and California atrazine concentrations were substantially smaller than its degradate. Simazine [6-chloro-N,N′-diethyl-1,3,5-triazine-2,4-diamine], the second most detected triazine, was detected in ground water from Maryland, California, and Washington. Metolachlor [2-chloro-N-(2-ethyl-6-methylphenyl)-N-(2-methoxy-1-methylethyl)acetamide] rarely was detected without its degradates, and when they were detected in the same sample metolachlor always had smaller concentrations. The Root-Zone Water-Quality Model was used to examine the occurrence and fate of metolachlor at the Maryland site. Simulations accurately predicted which metolachlor degradate would be predominant in the unsaturated zone. In analyses of relations among redox indicators and pesticide variance, apparent age, concentrations of dissolved oxygen, and excess nitrogen gas (from denitrification) were important indicators of the presence and concentration of pesticides in these ground water systems.

Molecular Subgroup of Primary Prostate Cancer Presenting with Metastatic Biology.

PubMed

Walker, Steven M; Knight, Laura A; McCavigan, Andrena M; Logan, Gemma E; Berge, Viktor; Sherif, Amir; Pandha, Hardev; Warren, Anne Y; Davidson, Catherine; Uprichard, Adam; Blayney, Jaine K; Price, Bethanie; Jellema, Gera L; Steele, Christopher J; Svindland, Aud; McDade, Simon S; Eden, Christopher G; Foster, Chris; Mills, Ian G; Neal, David E; Mason, Malcolm D; Kay, Elaine W; Waugh, David J; Harkin, D Paul; Watson, R William; Clarke, Noel W; Kennedy, Richard D

2017-10-01

Approximately 4-25% of patients with early prostate cancer develop disease recurrence following radical prostatectomy. To identify a molecular subgroup of prostate cancers with metastatic potential at presentation resulting in a high risk of recurrence following radical prostatectomy. Unsupervised hierarchical clustering was performed using gene expression data from 70 primary resections, 31 metastatic lymph nodes, and 25 normal prostate samples. Independent assay validation was performed using 322 radical prostatectomy samples from four sites with a mean follow-up of 50.3 months. Molecular subgroups were identified using unsupervised hierarchical clustering. A partial least squares approach was used to generate a gene expression assay. Relationships with outcome (time to biochemical and metastatic recurrence) were analysed using multivariable Cox regression and log-rank analysis. A molecular subgroup of primary prostate cancer with biology similar to metastatic disease was identified. A 70-transcript signature (metastatic assay) was developed and independently validated in the radical prostatectomy samples. Metastatic assay positive patients had increased risk of biochemical recurrence (multivariable hazard ratio [HR] 1.62 [1.13-2.33]; p=0.0092) and metastatic recurrence (multivariable HR=3.20 [1.76-5.80]; p=0.0001). A combined model with Cancer of the Prostate Risk Assessment post surgical (CAPRA-S) identified patients at an increased risk of biochemical and metastatic recurrence superior to either model alone (HR=2.67 [1.90-3.75]; p<0.0001 and HR=7.53 [4.13-13.73]; p<0.0001, respectively). The retrospective nature of the study is acknowledged as a potential limitation. The metastatic assay may identify a molecular subgroup of primary prostate cancers with metastatic potential. The metastatic assay may improve the ability to detect patients at risk of metastatic recurrence following radical prostatectomy. The impact of adjuvant therapies should be assessed in this higher-risk population. Copyright © 2017 European Association of Urology. Published by Elsevier B.V. All rights reserved.

Epidemiology of neuroendocrine cancers in an Australian population.

PubMed

Luke, Colin; Price, Timothy; Townsend, Amanda; Karapetis, Christos; Kotasek, Dusan; Singhal, Nimit; Tracey, Elizabeth; Roder, David

2010-06-01

The aim was to explore incidence, mortality and case survivals for invasive neuroendocrine cancers in an Australian population and consider cancer control implications. Directly age-standardised incidence and mortality rates were investigated from 1980 to 2006, plus disease-specific survivals. Annual incidence per 100,000 increased from 1.7 in 1980-1989 to 3.3 in 2000-2006. A corresponding mortality increase was not observed, although numbers of deaths were low, reducing statistical power. Increases in incidence affected both sexes and were more evident for female lung, large bowel (excluding appendix), and unknown primary site. Common sites were lung (25.9%), large bowel (23.3%) (40.9% were appendix), small intestine (20.6%), unknown primary (15.0%), pancreas (6.5%), and stomach (3.7%). Site distribution did not vary by sex (p = 0.260). Younger ages at diagnosis applied for lung (p = 0.002) and appendix (p < 0.001) and older ages for small intestine (p < 0.001) and unknown primary site (p < 0.001). Five-year survival was 68.5% for all sites combined, with secular increases (p < 0.001). After adjusting for age and diagnostic period, survivals were higher for appendix and lower for unknown primary site, pancreas, and colon (excluding appendix). Incidence rates are increasing. Research is needed into possible aetiological factors for lung and large-bowel sites, including tobacco smoking, and excess body weight and lack of exercise, respectively; and Crohn's disease as a possible precursor condition.

Effects of open burning of rice straw on concentrations of atmospheric polycyclic aromatic hydrocarbons in central Taiwan.

PubMed

Chen, Kang-Shin; Wang, Hsin-Kai; Peng, Yen-Ping; Wang, Wen-Cheng; Chen, Chia-Hsiu; Lai, Chia-Hsiang

2008-10-01

The sizes and concentrations of 21 atmospheric polycyclic aromatic hydrocarbons (PAHs) were measured at Jhu-Shan (a rural site) and Sin-Gang (a town site) in central Taiwan in October and December 2005. Air samples were collected using semi-volatile sampling trains (PS-1 sampler) over 16 days for rice-straw burning and nonburning periods. These samples were then analyzed using a gas chromatograph with a flame-ionization detector (GC/FID). Particle-size distributions in the particulate phase show a bimode, peaking at 0.32-0.56 microm and 3.2-5.6 microm at the two sites during the nonburning period. During the burning period, peaks also appeared at 0.32-0.56 microm and 3.2-5.6 microm at Jhu-Shan, with the accumulation mode (particle size between 0.1 and 3.2 microm) accounting for approximately 74.1% of total particle mass. The peaks at 0.18-0.32 microm and 1.8-3.2 microm at Shin-Gang had an accumulation mode accounting for approximately 70.1% of total particle mass. The mass median diameter (MMD) of 3.99-4.35 microm in the particulate phase suggested that rice-straw burning generated increased numbers of coarse particles. The concentrations of total PAHs (sum of 21 gases + particles) at the Jhu-Shan site (Sin-Gang site) were 522.9 +/- 111.4 ng/ml (572.0 +/- 91.0 ng/ml) and 330.1 +/- 17.0 ng/ml (or 427.5 +/- 108.0 ng/ml) during burning and nonburning periods, respectively, accounting for a roughly 58% (or 34%) increase in the concentrations of total PAHs due to rice-straw burning. On average, low-weight PAHs (about 87.0%) represent the largest proportion of total PAHs, followed by medium-weight PAHs (7.1%), and high-weight PAHs (5.9%). Combustion-related PAHs during burning periods were 1.54-2.57 times higher than those during nonburning periods. The results of principal component analysis (PCA)/absolute principal component scores (APCS) suggest that the primary pollution sources at the two sites are similar and include vehicle exhaust, coal/wood combustion, incense burning, and incineration emissions. Open burning of rice straw was estimated to contribute approximately 5.0-33.5% to the total atmospheric PAHs at the two sites.

Learning environment: the impact of clerkship location on instructional quality.

PubMed

Prunuske, Jacob P; Deci, David M

2013-03-01

Students provide variable feedback on instructional quality at ambulatory training sites. We hypothesized several strengths and weaknesses of placing students at resident and non-resident training sites, including differences in faculty behaviors, patient characteristics, work environment, learning opportunities, and levels of student engagement. We systematically assessed for differences in learning quality between clerkship sites with and without residents. Students completed the MedED IQ, a validated survey assessing four domains of instructional quality, after completing a required primary care rotation. We calculated descriptive and summary statistics and two sample tests of proportion analyzing student agreement with each MedEd IQ item with respect to the presence or absence of resident learners. Of 149 total, 113 (75.8%) students completed the MedEd IQ site survey. A greater percentage of students at resident training sites (25.8%) than at non-resident sites (7.3%) agreed with the statement "The opportunities were too diverse, preventing me from developing proficiency." A greater percentage of students at resident training sites (19.4%) than at non-resident sites (1.2%) agreed with the statement "The health care team was not supportive of my learning." There were no differences between sites with or without residents on 14 items measuring preceptor actions or seven items measuring student involvement. Ambulatory clerkship sites with and without residents provide comparable quality learning experiences and precepting. Students placed at resident training sites may be overwhelmed with diverse opportunities and have a less supportive learning environment than students placed at non-resident sites. Future research should evaluate the impact of health care team development programs designed to foster a more supportive training environment for medical students. Ways of aligning residency and medical student education goals within the training setting should be explored.

RCRA Facility Investigation report for Waste Area Grouping 6 at Oak Ridge National Laboratory, Oak Ridge, Tennessee. Volume 1. Sections 1 through 3

DOE Office of Scientific and Technical Information (OSTI.GOV)

None

1991-09-01

WAG 6 comprises a shallow land burial facility used for disposal of low-level radioactive wastes (LLW) and, until recently, chemical wastes. As such, the site is subject to regulation under RCRA and the Comprehensive Environmental Response Compensation and Liability Act (CERCLA). To comply with these regulations, DOE, in conjunction with the Environmental Protection Agency (EPA) and the Tennessee Department of Environment and Conservation (TDEC), developed a strategy for closure and remediation of WAG 6 by 1997. A key component of this strategy was to complete an RFI by September 1991. The primary objectives of the RFI were to evaluate themore » site's potential human health and environmental impacts and to develop a preliminary list of alternatives to mitigate these impacts. The WAG 6 one of three solid waste management units evaluated Oak Ridge National Laboratory (ORNL) existing waste disposal records and sampling data and performed the additional sampling and analysis necessary to: describe the nature and extent of contamination; characterize key contaminant transport pathways; and assess potential risks to human health and the environment by developing and evaluating hypothetical receptor scenarios. Estimated excess lifetime cancer risks as a result for exposure to radionuclides and chemicals were quantified for each hypothetical human receptor. For environmental receptors, potential impacts were qualitatively assessed. Taking into account regulatory requirements and base line risk assessment results, preliminary site closure and remediation objectives were identified, and a preliminary list of alternatives for site closure and remediation was developed.« less

Investigation of off-site airborne transport of lead from a superfund removal action site using lead isotope ratios and concentrations

USGS Publications Warehouse

Pribil, Michael J.; Maddaloni, Mark A.; Staiger, Kimberly; Wilson, Eric; Magriples, Nick; Ali, Mustafa; Santella, Dennis

2014-01-01

Lead (Pb) concentration and Pb isotopic composition of surface and subsurface soil samples were used to investigate the potential for off-site air transport of Pb from a former white Pb processing facility to neighboring residential homes in a six block area on Staten Island, NY. Surface and subsurface soil samples collected on the Jewett White Pb site were found to range from 1.122 to 1.138 for 206Pb/207Pb and 2.393 to 2.411 for 208Pb/207Pb. The off-site surface soil samples collected from residential backyards, train trestle, near site grass patches and background areas varied from 1.144 to 1.196 for 206Pb/207Pb and 2.427 to 2.464 for 208Pb/207Pb. Two soil samples collected along Richmond Terrace, where Jewett site soils accumulated after major rain events, varied from 1.136 to 1.147 for 206Pb/207Pb and 2.407 to 2.419 for 208Pb/207Pb. Lead concentration for on-site surface soil samples ranged from 450 to 8000 ug/g, on-site subsurface soil samples ranged from 90,000 to 240,000 ug/g and off-site samples varied from 380 to 3500 ug/g. Lead concentration and isotopic composition for the Staten Island off-site samples were similar to previously published data for other northeastern US cities and reflect re-suspension and re-mobilization of local accumulated Pb. The considerable differences in both the Pb isotopic composition and Pb concentration of on-site and off-site samples resulted in the ability to geochemically trace the transport of particulate Pb. Data in this study indicate minimal off-site surface transport of Pb from the Jewett site into the neighboring residential area.

Design tradeoffs for trend assessment in aquatic biological monitoring programs

USGS Publications Warehouse

Gurtz, Martin E.; Van Sickle, John; Carlisle, Daren M.; Paulsen, Steven G.

2013-01-01

Assessments of long-term (multiyear) temporal trends in biological monitoring programs are generally undertaken without an adequate understanding of the temporal variability of biological communities. When the sources and levels of variability are unknown, managers cannot make informed choices in sampling design to achieve monitoring goals in a cost-effective manner. We evaluated different trend sampling designs by estimating components of both short- and long-term variability in biological indicators of water quality in streams. Invertebrate samples were collected from 32 sites—9 urban, 6 agricultural, and 17 relatively undisturbed (reference) streams—distributed throughout the United States. Between 5 and 12 yearly samples were collected at each site during the period 1993–2008, plus 2 samples within a 10-week index period during either 2007 or 2008. These data allowed calculation of four sources of variance for invertebrate indicators: among sites, among years within sites, interaction among sites and years (site-specific annual variation), and among samples collected within an index period at a site (residual). When estimates of these variance components are known, changes to sampling design can be made to improve trend detection. Design modifications that result in the ability to detect the smallest trend with the fewest samples are, from most to least effective: (1) increasing the number of years in the sampling period (duration of the monitoring program), (2) decreasing the interval between samples, and (3) increasing the number of repeat-visit samples per year (within an index period). This order of improvement in trend detection, which achieves the greatest gain for the fewest samples, is the same whether trends are assessed at an individual site or an average trend of multiple sites. In multiple-site surveys, increasing the number of sites has an effect similar to that of decreasing the sampling interval; the benefit of adding sites is greater when a new set of different sites is selected for each sampling effort than when the same sites are sampled each time. Understanding variance components of the ecological attributes of interest can lead to more cost-effective monitoring designs to detect trends.

Spatial and Temporal Variations in CHLORINE-36 Deposition in the Northern United States

NASA Astrophysics Data System (ADS)

Hainsworth, Laura J.

Chlorine-36, a cosmogenic radioisotope, has been developed for use as a tracer in hydrological systems. The deposition of atmospheric ^{36} Cl, although of primary importance to hydrological applications, has not been well studied. To begin to address this problem, ^{36}Cl has been measured in monthly, wet-only, precipitation samples collected from February, 1991, to January, 1993, at the Elms Environmental Education Center in St. Mary's County, Maryland. In addition, bulk deposition samples were collected over a 1 y period at seven sites across the Northern United States and analyzed for ^{36} Cl. The mean, wet-only ^{36} Cl/Cl ratio for the 2 y sampling period is 68 +/- 19 (x10^{-15} ) and the mean ^{36}Cl concentration is 1.2 +/- 0.1 (x10 ^6) atoms/L. The ^ {36}Cl wet deposition flux data reveal a distinct seasonal deposition pattern, with peaks occurring in March and April. This pattern is attributed to stratospheric/tropospheric exchange. The mean ^{36}Cl wet deposition flux is 38.2 +/- 5 atoms/m^2s. Comparison between wet-only and bulk deposition samples indicates that the difference accounts for approximately 25% of the total ^{36}Cl deposition flux at the Elms site. A new model, using ^{90} Sr to predict the ^{36} Cl deposition pattern, is developed to predict ^{36}Cl/Cl ratios across the United States. Chlorine-36/Cl ratios in bulk deposition samples collected across the northern United States agree well with the model predictions. A mean global ^{36}Cl production rate of approximately 28 to 38 atoms/m^2s is indicated by these samples. A comparison between ^{36 }Cl concentrations in the Aquia and Magothy aquifers in southern Maryland and bulk deposition samples collected at the Elms, MD, site indicated that modern precipitation can account for the ^{36}Cl content in the youngest water in these aquifers. Surface water samples from the Susquehanna River basin reveal ^{36}Cl and stable chloride concentrations an order of magnitude higher than in bulk deposition samples collected at State College, PA. The source of excess ^{36}Cl in the Susquehanna is not known. Possible explanations include 'bomb-pulse' ^{36}Cl and in-situ ^{36}Cl production in surface rocks.

A retrospective cross-sectional quantitative molecular approach in biological samples from patients with syphilis.

PubMed

Pinto, Miguel; Antelo, Minia; Ferreira, Rita; Azevedo, Jacinta; Santo, Irene; Borrego, Maria José; Gomes, João Paulo

2017-03-01

Syphilis is the sexually transmitted disease caused by Treponema pallidum, a pathogen highly adapted to the human host. As a multistage disease, syphilis presents distinct clinical manifestations that pose different implications for diagnosis. Nevertheless, the inherent factors leading to diverse disease progressions are still unknown. We aimed to assess the association between treponemal loads and dissimilar disease outcomes, to better understand syphilis. We retrospectively analyzed 309 DNA samples distinct anatomic sites associated with particular syphilis manifestations. All samples had previously tested positive by a PCR-based diagnostic kit. An absolute quantitative real-time PCR procedure was used to precisely quantify the number of treponemal and human cells to determine T. pallidum loads in each sample. In general, lesion exudates presented the highest T. pallidum loads in contrast with blood-derived samples. Within the latter, a higher dispersion of T. pallidum quantities was observed for secondary syphilis. T. pallidum was detected in substantial amounts in 37 samples of seronegative individuals and in 13 cases considered as syphilis-treated. No association was found between treponemal loads and serological results or HIV status. This study suggests a scenario where syphilis may be characterized by: i) heterogeneous and high treponemal loads in primary syphilis, regardless of the anatomic site, reflecting dissimilar duration of chancres development and resolution; ii) high dispersion of bacterial concentrations in secondary syphilis, potentially suggesting replication capability of T. pallidum while in the bloodstream; and iii) bacterial evasiveness, either to the host immune system or antibiotic treatment, while remaining hidden in privileged niches. This work highlights the importance of using molecular approaches to study uncultivable human pathogens, such as T. pallidum, in the infection process. Copyright © 2017 Elsevier Ltd. All rights reserved.

Microbiological water quality in a large irrigation system: El Valle del Yaqui, Sonora México.

PubMed

Gortáres-Moroyoqui, Pablo; Castro-Espinoza, L; Naranjo, Jaime E; Karpiscak, Martin M; Freitas, Robert J; Gerba, Charles P

2011-01-01

The primary objective of this study was to determine the microbial water quality of a large irrigation system and how this quality varies with respect to canal size, impact of near-by communities, and the travel distance from the source in the El Valle del Yaqui, Sonora, México. In this arid region, 220,000 hectares are irrigated with 80% of the irrigation water being supplied from an extensive irrigation system including three dams on the Yaqui River watershed. The stored water flows to the irrigated fields through two main canal systems (severing the upper and lower Yaqui Valley) and then through smaller lateral canals that deliver the water to the fields. A total of 146 irrigation water samples were collected from 52 sample sites during three sampling events. Not all sites could be accessed on each occasion. All of the samples contained coliform bacteria ranging from 1,140 to 68,670 MPN/100 mL with an arithmetic mean of 11,416. Ninety-eight percent of the samples contained less than 1,000 MPN/100 mL Escherichia coli, with an arithmetic mean of 291 MPN/100 mL. Coliphage were detected in less than 30% of the samples with an arithmetic average equal to 141 PFU/100 mL. Enteroviruses, Cryptosporidium oocysts, and Giardia cysts were also detected in the canal systems. No significant difference was found in the water quality due to canal system (upper or lower Yaqui Valley), canal-size (main vs. lateral), distance from source, and the vicinity of human habitation (presence of various villages and towns along the length of the canals). There was a significant decrease in coliforms (p < 0.011) and E. coli (< 0.022) concentrations as travel distance increased from the City of Obregón.

Mineralization, watershed geochemistry, and metals in fish from a Subarctic River, Alaska

USGS Publications Warehouse

Gough, L.P.; Wang, B.; Crock, J.G.; Seal, R.R.; Weber-Scannell, P.

2005-01-01

We report on the levels of trace metals and metalloids in Arctic grayling (Thymallus arcticus), an important freshwater sport and subsistence fish in the Fortymile River, east-central Alaska. Functional biogeochemical baseline values and (or) ranges are presented for 38 major- and trace-elements in the muscle (fillet) and liver of 34 fish collected from 11 sampling sites in the watershed. In addition, we present N-, C-, and S-isotopic data for muscle samples. These data are the first to be reported for Arctic grayling in this region of Alaska. Geometric means for total Hg in muscle and liver tissue are 0.069 and 0.062 ppm, respectively. These levels are more than an order of magnitude below the FDA permissible value for methylmercury in fish fillets. In general, we noted little variation in the elemental concentrations in muscle tissue among samples at each of the 11 fish-sampling sites. No definitive link could be attributed between biogeochemical patterns and regional lithology. Stomach-content chemistry varied widely (relative muscle tissue or liver) and generally reflected sediment chemistry - a component of the ingested material. Stomach-content material was examined for the occurrence and frequency of macroinvertebrates and their chemical composition in three fish. Results showed considerable diversity, with 9 to 15 invertebrate taxa of which both aquatic and terrestrial individuals were found. The N-isotopic compositions of muscle fillet samples are homogeneous (??15N = 7.6 - 9.7 permil), reflecting a restricted, low trophic (primary predator) position for the grayling. C and S isotopic compositions (??13C and ??34S) of fillet samples range from -33.1 to -25.8 permil and -8.4 to 8.2 permil, respectively, suggesting heterogeneity of food sources (both aquatic and terrestrial). Copyright ASCE 2005.

Winter movement dynamics of Black Brant

USGS Publications Warehouse

Lindberg, Mark S.; Ward, David H.; Tibbitts, T. Lee; Roser, John

2007-01-01

Although North American geese are managed based on their breeding distributions, the dynamics of those breeding populations may be affected by events that occur during the winter. Birth rates of capital breeding geese may be influenced by wintering conditions, mortality may be influenced by timing of migration and wintering distribution, and immigration and emigration among breeding populations may depend on winter movement and timing of pair formation. We examined factors affecting movements of black brant (Branta bernicla nigricans) among their primary wintering sites in Mexico and southern California, USA, (Mar 1998-Mar 2000) using capture-recapture models. Although brant exhibited high probability (>0.85) of monthly and annual fidelity to the wintering sites we sampled, we observed movements among all wintering sites. Movement probabilities both within and among winters were negatively related to distance between sites. We observed a higher probability both of southward movement between winters (Mar to Dec) and northward movement between months within winters. Between-winter movements were probably most strongly affected by spatial and temporal variation in habitat quality as we saw movement patterns consistent with contrasting environmental conditions (e.g., La Niña and El Niño southern oscillation cycles). Month-to-month movements were related to migration patterns and may also have been affected by differences in habitat conditions among sites. Patterns of winter movements indicate that a network of wintering sites may be necessary for effective conservation of brant.

Winter movement dynamics of black brant

USGS Publications Warehouse

Lindberg, Mark S.; Ward, David H.; Tibbitts, T. Lee; Roser, John

2007-01-01

Although North American geese are managed based on their breeding distributions, the dynamics of those breeding populations may be affected by events that occur during the winter. Birth rates of capital breeding geese may be influenced by wintering conditions, mortality may be influenced by timing of migration and wintering distribution, and immigration and emigration among breeding populations may depend on winter movement and timing of pair formation. We examined factors affecting movements of black brant (Branta bernicla nigricans) among their primary wintering sites in Mexico and southern California, USA, (Mar 1998–Mar 2000) using capture–recapture models. Although brant exhibited high probability (>0.85) of monthly and annual fidelity to the wintering sites we sampled, we observed movements among all wintering sites. Movement probabilities both within and among winters were negatively related to distance between sites. We observed a higher probability both of southward movement between winters (Mar to Dec) and northward movement between months within winters. Between-winter movements were probably most strongly affected by spatial and temporal variation in habitat quality as we saw movement patterns consistent with contrasting environmental conditions (e.g., La Niña and El Niño southern oscillation cycles). Month-to-month movements were related to migration patterns and may also have been affected by differences in habitat conditions among sites. Patterns of winter movements indicate that a network of wintering sites may be necessary for effective conservation of brant.

Data Validation Package June 2016 Groundwater and Surface Water Sampling at the Old and New Rifle, Colorado, Processing Sites September 2016

DOE Office of Scientific and Technical Information (OSTI.GOV)

Bush, Richard; Lemke, Peter

Sampling Period: June 14–17 and July 7, 2016. Water samples were collected from 36 locations at New Rifle and Old Rifle, Colorado, Disposal/Processing Sites. Planned monitoring locations are shown in Attachment 1, Sampling and Analysis Work Order. Duplicate samples were collected from New Rifle locations 0216 and 0855, and Old Rifle location 0655. One equipment blank was collected after decontamination of non-dedicated equipment used to collect one surface water sample. See Attachment 2, Trip Report for additional details. Sampling and analyses were conducted as specified in the Sampling and Analysis Plan for U.S. Department of Energy Office of Legacy Managementmore » Sites (LMS/PRO/S04351, continually updated, http://energy.gov/lm/downloads/sampling-and- analysis-plan-us-department-energy-office-legacy-management-sites). New Rifle Site Samples were collected at the New Rifle site from 16 monitoring wells and 7 surface locations in compliance with the December 2008 Groundwater Compliance Action Plan [GCAP] for the New Rifle, Colorado, Processing Site (LMS/RFN/S01920). Monitoring well 0216 could not be sampled in June because it was surrounded by standing water due to the high river stage from spring runoff, it was later sampled in July. Monitoring well 0635 and surface location 0322 could not be sampled because access through the elk fence along Interstate 70 has not been completed at this time. Old Rifle Site Samples were collected at the Old Rifle site from eight monitoring wells and five surface locations in compliance with the December 2001 Ground Water Compliance Action Plan for the Old Rifle, Colorado, UMTRA Project Site (GJ0-2000-177-TAR).« less

Gulf of Mexico Gas Hydrate Joint Industry Project Leg II: Results from the Alaminos Canyon 21 Site

NASA Astrophysics Data System (ADS)

Godfriaux, P. D.; Shedd, W.; Frye, M.; Collett, T. S.; Lee, M. W.; Boswell, R. M.; Cook, A.; Mrozewski, S.; Guerin, G.; McConnell, D.; Dufrene, R.; Jones, E.

2009-12-01

The Gulf of Mexico Gas Hydrate Joint Industry Project Leg II drilling program visited three sites in the Gulf of Mexico during a 21 day drilling program in April and May, 2009. Using both petroleum systems and seismic stratigraphic approaches, the exploration focus for Leg II was to identify sites with the potential for gas hydrate-saturated sand reservoirs. Two holes were drilled at the AC 21 site in the Diana Basin located in the western Gulf of Mexico. The data acquired consist of a comprehensive suite of high resolution LWD logs including gamma ray, density, porosity, sonic, and resistivity tools. No physical samples were taken in the field. The primary objective of each well was to determine the presence or absence of gas hydrate from the log data at the predetermined primary targets in a Pleistocene basin floor turbidite complex approximately 500 ft below seafloor. At the AC 21-A location, two high net to gross target sands were encountered that measured 15 ft and 60 ft, respectively. The AC 21-A well was drilled through the interpreted base of gas hydrate stability to a depth approximately 1500 ft below sea floor. The AC 21-B well encountered a single high net to gross target sand measuring over 120 ft thick. At both AC 21 well locations, all target sand intervals had elevated formation resistivity measurements relative to clearly wet, stratigraphically equivalent sands encountered in the region, interpreted to indicate low to moderate levels of gas hydrate saturation. The likely discovery of thick gas hydrate-filled sands at the AC 21 site validates the exploration approach, and strongly indicates that gas hydrate can be found in reservoir quality sands. The LWD acquired data provided unprecedented information on the nature of the sediments and the occurrence of gas hydrate in the Gulf of Mexico.

Oral Microbiome of Deep and Shallow Dental Pockets In Chronic Periodontitis

PubMed Central

Ge, Xiuchun; Rodriguez, Rafael; Trinh, My; Gunsolley, John; Xu, Ping

2013-01-01

We examined the subgingival bacterial biodiversity in untreated chronic periodontitis patients by sequencing 16S rRNA genes. The primary purpose of the study was to compare the oral microbiome in deep (diseased) and shallow (healthy) sites. A secondary purpose was to evaluate the influences of smoking, race and dental caries on this relationship. A total of 88 subjects from two clinics were recruited. Paired subgingival plaque samples were taken from each subject, one from a probing site depth >5 mm (deep site) and the other from a probing site depth ≤3mm (shallow site). A universal primer set was designed to amplify the V4–V6 region for oral microbial 16S rRNA sequences. Differences in genera and species attributable to deep and shallow sites were determined by statistical analysis using a two-part model and false discovery rate. Fifty-one of 170 genera and 200 of 746 species were found significantly different in abundances between shallow and deep sites. Besides previously identified periodontal disease-associated bacterial species, additional species were found markedly changed in diseased sites. Cluster analysis revealed that the microbiome difference between deep and shallow sites was influenced by patient-level effects such as clinic location, race and smoking. The differences between clinic locations may be influenced by racial distribution, in that all of the African Americans subjects were seen at the same clinic. Our results suggested that there were influences from the microbiome for caries and periodontal disease and these influences are independent. PMID:23762384

Identifying diabetes knowledge network nodes as sites for a diabetes prevention program.

PubMed

Gesler, Wilbert M; Arcury, Thomas A; Skelly, Anne H; Nash, Sally; Soward, April; Dougherty, Molly

2006-12-01

This paper reports on the methods used and results of a study that identified specific places within a community that have the potential to be sites for a diabetes prevention program. These sites, termed diabetes knowledge network nodes (DKNNs), are based on the concept of socio-spatial knowledge networks (SSKNs), the web of social relationships within which people obtain knowledge about type 2 diabetes. The target population for the study was working poor African Americans, Latinos, and European Americans of both sexes in a small rural southern town who had not been diagnosed with diabetes. Information was collected from a sample of 121 respondents on the places they visited in carrying out their daily activities. Data on number of visits to specific sites, degree of familiarity with these sites, and ratings of sites as places to receive diabetes information were used to develop three categories of DKNNs for six subgroups based on ethnicity and sex. Primary potential sites of importance to one or more subgroups included churches, grocery stores, drugstores, the local library, a beauty salon, laundromats, a community service agency, and a branch of the County Health Department. Secondary potential sites included gas stations, restaurants, banks, and post offices. Latent potential sites included three medical facilities. Most of the DKNNs were located either in the downtown area or in one of two shopping areas along the most used highway that passed through the town. The procedures used in this study can be generalized to other communities and prevention programs for other chronic diseases.

Long-term experimental warming alters nitrogen-cycling communities but site factors remain the primary drivers of community structure in high arctic tundra soils.

PubMed

Walker, Jennifer K M; Egger, Keith N; Henry, Gregory H R

2008-09-01

Arctic air temperatures are expected to rise significantly over the next century. Experimental warming of arctic tundra has been shown to increase plant productivity and cause community shifts and may also alter microbial community structure. Hence, the objective of this study was to determine whether experimental warming caused shifts in soil microbial communities by measuring changes in the frequency, relative abundance and/or richness of nosZ and nifH genotypes. Five sites at a high arctic coastal lowland were subjected to a 13-year warming experiment using open-top chambers (OTCs). Sites differed by dominant plant community, soil parent material and/or moisture regimen. Six soil cores were collected from each of four replicate OTC and ambient plots at each site and subdivided into upper and lower samples. Differences in frequency and relative abundance of terminal restriction fragments were assessed graphically by two-way cluster analysis and tested statistically with permutational multivariate analysis of variance (ANOVA). Genotypic richness was compared using factorial ANOVA. The genotype frequency, relative abundance and genotype richness of both nosZ and nifH communities differed significantly by site, and by OTC treatment and/or depth at some sites. The site that showed the most pronounced treatment effect was a wet sedge meadow, where community structure and genotype richness of both nosZ and nifH were significantly affected by warming. Although warming was an important factor affecting these communities at some sites at this high arctic lowland, overall, site factors were the main determinants of community structure.

Trauma-Informed Medical Care: Patient Response to a Primary Care Provider Communication Training

PubMed Central

Green, Bonnie L.; Saunders, Pamela A.; Power, Elizabeth; Dass-Brailsford, Priscilla; Schelbert, Kavitha Bhat; Giller, Esther; Wissow, Larry; Hurtado de Mendoza, Alejandra; Mete, Mihriye

2016-01-01

Trauma exposure predicts mental disorders and health outcomes; yet there is little training of primary care providers about trauma’s effects, and how to better interact with trauma survivors. This study adapted a theory-based approach to working with trauma survivors, Risking Connection, into a 6-hour CME course, Trauma-Informed Medical Care (TI-Med), to evaluate its feasibility and preliminary efficacy. We randomized four primary care sites to training or wait-list conditions; PCPs at wait-list sites were trained after reassessment. Primary care providers (PCPs) were Family Medicine residents (n = 17; 2 sites) or community physicians (n = 13; 2 sites). Outcomes reported here comprised a survey of 400 actual patients seen by the PCPs in the study. Patients, mostly minority, completed surveys before or after their provider received training. Patients rated PCPs significantly higher after training on a scale encompassing partnership issues. Breakdowns showed lower partnership scores for those with trauma or posttraumatic stress symptoms. Future studies will need to include more specific trauma-related outcomes. Nevertheless, this training is a promising initial approach to teaching trauma-informed communication skills to PCPs. PMID:27721673

Recovery of Methane Consumption by Secondary Forests in the Amazon River Basin

NASA Astrophysics Data System (ADS)

Webster, K. D.; Meredith, L. K.; Piccini, W.; Pedrinho, A.; Nüsslein, K.; Van Haren, J. L. M.; Camargo, P. B. D.; Mui, T. S.; Saleska, S. R.

2017-12-01

Methane (CH4) is a major greenhouse gas in Earth's atmosphere and its atmospheric global mole fraction has roughly doubled since the start of the industrial revolution. The tropics are thought to be a major CH4 emitter, with the Amazon River Basin estimated to contribute 7 % of the annual flux to the atmosphere. The Amazon has experienced extensive land use change during the past 30 years, but we lack an understanding of the qualitative and quantitative effects of land use change on CH4 flux from the Amazon and the associated reasons. To illuminate the factors controlling CH4 flux across land use gradients in the Amazon we measured the CH4 fluxes and will measure the associated stable isotopic composition from pastures, primary forests, and secondary forests, at Ariquemes (Western Amazon, more deforested), and Santarem (Eastern Amazon, less deforested), Brazil. The sites near Santarem were sampled in June of 2016 and the sites near Ariquemes were sampled in March and April of 2017, both at the end of the wet season. Little difference was observed between land use types in Santarem with each land use type slightly consuming atmospheric CH4. However, pasture fluxes at Ariquemes were higher (+520 μg-C m-2 hr-1) than in primary (0 μg-C m-2 hr-1) and secondary forests (-20 μg-C m-2 hr-1; p = 6*10-4). CH4 flux from individual Santarem sites was not correlated with environmental variables. CH4 flux from Airquemes was correlated with several parameters across all samples including soil temperature (p = 7*10-4), and soil humidity (p = 0.02). Despite the fact that pastures experienced higher soil temperatures than forest soils this appears to be a low predictor of CH4 flux from these environments as it was seen at both Santarem and Ariquemes. The analysis of the stable isotopic composition of CH4 from these chambers will aid in understanding the competing processes of microbial CH4 consumption and production in these soils and why pastures may become CH4 sources and secondary forests are able to regain the function as a CH4 sink in some instances. Support: NSF, FAPESP-Biota, CNPq, CAPES.

The role of physical habitat and sampling effort on estimates of benthic macroinvertebrate taxonomic richness at basin and site scales.

PubMed

Silva, Déborah R O; Ligeiro, Raphael; Hughes, Robert M; Callisto, Marcos

2016-06-01

Taxonomic richness is one of the most important measures of biological diversity in ecological studies, including those with stream macroinvertebrates. However, it is impractical to measure the true richness of any site directly by sampling. Our objective was to evaluate the effect of sampling effort on estimates of macroinvertebrate family and Ephemeroptera, Plecoptera, and Trichoptera (EPT) genera richness at two scales: basin and stream site. In addition, we tried to determine which environmental factors at the site scale most influenced the amount of sampling effort needed. We sampled 39 sites in the Cerrado biome (neotropical savanna). In each site, we obtained 11 equidistant samples of the benthic assemblage and multiple physical habitat measurements. The observed basin-scale richness achieved a consistent estimation from Chao 1, Jack 1, and Jack 2 richness estimators. However, at the site scale, there was a constant increase in the observed number of taxa with increased number of samples. Models that best explained the slope of site-scale sampling curves (representing the necessity of greater sampling effort) included metrics that describe habitat heterogeneity, habitat structure, anthropogenic disturbance, and water quality, for both macroinvertebrate family and EPT genera richness. Our results demonstrate the importance of considering basin- and site-scale sampling effort in ecological surveys and that taxa accumulation curves and richness estimators are good tools for assessing sampling efficiency. The physical habitat explained a significant amount of the sampling effort needed. Therefore, future studies should explore the possible implications of physical habitat characteristics when developing sampling objectives, study designs, and calculating the needed sampling effort.

Text Messaging, Teen Outreach Program, and Sexual Health Behavior: A Cluster Randomized Trial.

PubMed

Bull, Sheana; Devine, Sharon; Schmiege, Sarah J; Pickard, Leslie; Campbell, Jon; Shlay, Judith C

2016-09-01

To consider whether Youth All Engaged! (a text message intervention) intensified the effects of the adolescent pregnancy prevention Teen Outreach Program (control) for youths. In this trial performed in Denver, Colorado, from 2011 to 2014, we randomized 8 Boys & Girls Clubs each of 4 years into 32 clubs per year combinations to ensure each club would serve as a treatment site for 2 years and a control site for 2 years. Control intervention consisted of the Teen Outreach Program only. We enrolled 852 youths (aged 14-18 years), and 632 were retained at follow-up, with analytic samples ranging from 50 to 624 across outcomes. We examined program costs, and whether the intervention increased condom and contraceptive use, access to care, and pregnancy prevention. Control program costs were $1184 per participant, and intervention costs were an additional $126 per participant (+10.6%). There were no statistically significant differences in primary outcomes for the full sample. Hispanic participants in the intervention condition had fewer pregnancies at follow-up (1.79%) than did those in the control group (6.72%; P = .02). Youth All Engaged is feasible, low cost, and could have potential benefits for Hispanic youths.

Adequate Funding for Primary Education in the Artibonite Department of Haiti

NASA Astrophysics Data System (ADS)

Nylund, Clayton Carl

Since its formation following a slave revolution in 1804, the Republic of Haiti has a long history of political instability, civil unrest and poverty. As of 2015, Haiti's gross domestic product (GDP) was US1,732, per capita, making it the poorest country in the Western Hemisphere. Haiti's education sector was no exception to this sparsity, receiving only 2.5 percent of the nation's overall GDP. The purpose of this study was to determine adequate funding for Haitian primary schools based upon mathematical achievement levels and the professional judgment of site-based administrators. A Florida Comprehensive Assessment Test (FCAT), originally administered to Florida's third-grade students in 2006, was utilized to determine mathematical achievement. In 2015, the translated FCAT was administered to 207 students, enrolled in four schools, located in the lower Artibonite department of Haiti. The results indicated that the sample answered sixteen of the forty mathematics questions correctly, on average. Based on these results, the four site-based administrators recommended the funding amounts necessary to increase mathematical achievement by 15 percent. The average annual amounts, in US dollars, included 461 per teacher salary, a 540 administrative salary, 40 per student for instructional materials, 367 per student for meals, and 37 per student for uniforms.

Ground-based grasslands data to support remote sensing and ecosystem modeling of terrestrial primary production

NASA Technical Reports Server (NTRS)

Olson, R. J.; Scurlock, J. M. O.; Turner, R. S.; Jennings, S. V.

1995-01-01

Estimating terrestrial net primary production (NPP) using remote-sensing tools and ecosystem models requires adequate ground-based measurements for calibration, parameterization, and validation. These data needs were strongly endorsed at a recent meeting of ecosystem modelers organized by the International Geosphere-Biosphere Program's (IGBP's) Data and Information System (DIS) and its Global Analysis, Interpretation, and Modelling (GAIM) Task Force. To meet these needs, a multinational, multiagency project is being coordinated by the IGBP DIS to compile existing NPP data from field sites and to regionalize NPP point estimates to various-sized grid cells. Progress at Oak Ridge National Laboratory (ORNL) on compiling NPP data for grasslands as part of the IGBP DIS data initiative is described. Site data and associated documentation from diverse field studies are being acquired for selected grasslands and are being reviewed for completeness, consistency, and adequacy of documentation, including a description of sampling methods. Data are being compiled in a database with spatial, temporal, and thematic characteristics relevant to remote sensing and global modeling. NPP data are available from the ORNL Distributed Active Archive Center (DAAC) for biogeochemical dynamics. The ORNL DAAC is part of the Earth Observing System Data and Information System, of the US National Aeronautics and Space Administration.

Site-directed introduction of disulfide groups on antibodies for highly sensitive immunosensors.

PubMed

Acero Sánchez, Josep Ll; Fragoso, Alex; Joda, Hamdi; Suárez, Guillaume; McNeil, Calum J; O'Sullivan, Ciara K

2016-07-01

The interface between the sample and the transducer surface is critical to the performance of a biosensor. In this work, we compared different strategies for covalent self-assembly of antibodies onto bare gold substrates by introducing disulfide groups into the immunoglobulin structure, which acted as anchor molecules able to chemisorb spontaneously onto clean gold surfaces. The disulfide moieties were chemically introduced to the antibody via the primary amines, carboxylic acids, and carbohydrates present in its structure. The site-directed modification via the carbohydrate chains exhibited the best performance in terms of analyte response using a model system for the detection of the stroke marker neuron-specific enolase. SPR measurements clearly showed the potential for creating biologically active densely packed self-assembled monolayers (SAMs) in a one-step protocol compared to both mixed SAMs of alkanethiol compounds and commercial immobilization layers. The ability of the carbohydrate strategy to construct an electrochemical immunosensor was investigated using electrochemical impedance spectroscopy (EIS) and differential pulse voltammetry (DPV) transduction. Graphical Abstract Left: Functionalization strategies of bare gold substrates via direct bio-SAM using disulfide-containing antibody chemically modified via their primary amines (A), carbohydrates (B) and carboxylic acids (C). Right: Dependence of the peak height with NSE concentration at NSE21-CHO modified electrochemical immunosensor. Inset: Logarithmic calibration plot.

An exploratory study of air emissions associated with shale gas development and production in the Barnett Shale.

PubMed

Rich, Alisa; Grover, James P; Sattler, Melanie L

2014-01-01

Information regarding air emissions from shale gas extraction and production is critically important given production is occurring in highly urbanized areas across the United States. Objectives of this exploratory study were to collect ambient air samples in residential areas within 61 m (200 feet) of shale gas extraction/production and determine whether a "fingerprint" of chemicals can be associated with shale gas activity. Statistical analyses correlating fingerprint chemicals with methane, equipment, and processes of extraction/production were performed. Ambient air sampling in residential areas of shale gas extraction and production was conducted at six counties in the Dallas/Fort Worth (DFW) Metroplex from 2008 to 2010. The 39 locations tested were identified by clients that requested monitoring. Seven sites were sampled on 2 days (typically months later in another season), and two sites were sampled on 3 days, resulting in 50 sets of monitoring data. Twenty-four-hour passive samples were collected using summa canisters. Gas chromatography/mass spectrometer analysis was used to identify organic compounds present. Methane was present in concentrations above laboratory detection limits in 49 out of 50 sampling data sets. Most of the areas investigated had atmospheric methane concentrations considerably higher than reported urban background concentrations (1.8-2.0 ppm(v)). Other chemical constituents were found to be correlated with presence of methane. A principal components analysis (PCA) identified multivariate patterns of concentrations that potentially constitute signatures of emissions from different phases of operation at natural gas sites. The first factor identified through the PCA proved most informative. Extreme negative values were strongly and statistically associated with the presence of compressors at sample sites. The seven chemicals strongly associated with this factor (o-xylene, ethylbenzene, 1,2,4-trimethylbenzene, m- and p-xylene, 1,3,5-trimethylbenzene, toluene, and benzene) thus constitute a potential fingerprint of emissions associated with compression. Information regarding air emissions from shale gas development and production is critically important given production is now occurring in highly urbanized areas across the United States. Methane, the primary shale gas constituent, contributes substantially to climate change; other natural gas constituents are known to have adverse health effects. This study goes beyond previous Barnett Shale field studies by encompassing a wider variety of production equipment (wells, tanks, compressors, and separators) and a wider geographical region. The principal components analysis, unique to this study, provides valuable information regarding the ability to anticipate associated shale gas chemical constituents.

Paleomagnetic results of Neogene strata in Eastern Vietnam and their paleogeographic Implications

NASA Astrophysics Data System (ADS)

Weiwei, C.; Zhao, X.; Liu, Z.; Dong Pha, P.

2017-12-01

Neogene paleomagnetic data from the Vietnam, southeastern margin of the Indochina Block, are essential to reconstruct post-collisional paleogeography. This is key to understanding the evolution of the western South China Sea and verifying the model of extrusion tectonic. Mid-Miocene siltstone of the Song Ba Formation and Pliocene basalt were sampled from Phu Tue area, eastern Vietnam. Paleomagnetic samples were collected using a gasoline-powered drill and a magnetic compass mounted on an orienting device. We corrected for the effect of local magnetic anomalies on magnetic orientation by taking solar azimuths using a sun compass. For most samples, the discrepancy between the two compass readings is within 3°. Remanent magnetization measurements were carried out with 2G-755-4K cryogenic magnetometers, installed in the Plaleomagnetism Laboratory, Tongji University, Shanghai. All the instruments are located in a shielded room with residual fields less than 200 nT. The anisotropy of magnetic susceptibility (AMS) results of four siltstone sites (sites 2, 6, 9, 10) indicate the siltstone preserve a normal sedimentary magnetic fabric. The other sites of the AMS (including basalt sites) show that the directions of K1, K2, K3 are scattered without any regulation. The thermal demagnetization and AF demagnetization were performed on specimens and stepwise demagnetization up to 600°C or 150 mT. ChRM directions were determined for all the specimens using principal component analysis. The directions obtained from Neogene rocks are far from the present geomagnetic field (PGF) and include antipodal dual polarities, suggesting a primary origin. A visible fluctuation in paleomagnetic direction from one site to another is evident from the results. Shallow inclination are obtained from most samples which range of 7.4° to 21.5°. The siltstone declination range of 16.8° to 34.5° while the basalt declination rang of 178.3° to 335.0°. This wide range of direction fluctuation suggests a long record of secular variation and has been sufficiently averaged out by formation mean calculations. The preliminary data suggest that that southern Indochina Block was at a mean paleolatitude of 5° 10° N during the Paleogene. The relative rotation should be caused by the local deformation and the motion of the entire lithospheric block.

Using maximum entropy modeling for optimal selection of sampling sites for monitoring networks

USGS Publications Warehouse

Stohlgren, Thomas J.; Kumar, Sunil; Barnett, David T.; Evangelista, Paul H.

2011-01-01

Environmental monitoring programs must efficiently describe state shifts. We propose using maximum entropy modeling to select dissimilar sampling sites to capture environmental variability at low cost, and demonstrate a specific application: sample site selection for the Central Plains domain (453,490 km2) of the National Ecological Observatory Network (NEON). We relied on four environmental factors: mean annual temperature and precipitation, elevation, and vegetation type. A “sample site” was defined as a 20 km × 20 km area (equal to NEON’s airborne observation platform [AOP] footprint), within which each 1 km2 cell was evaluated for each environmental factor. After each model run, the most environmentally dissimilar site was selected from all potential sample sites. The iterative selection of eight sites captured approximately 80% of the environmental envelope of the domain, an improvement over stratified random sampling and simple random designs for sample site selection. This approach can be widely used for cost-efficient selection of survey and monitoring sites.

Bone metastases of unknown origin: epidemiology and principles of management.

PubMed

Piccioli, Andrea; Maccauro, Giulio; Spinelli, Maria Silvia; Biagini, Roberto; Rossi, Barbara

2015-06-01

Metastases are the most common malignancies involving bone; breast, prostate, lung and thyroid are the main sites of primary cancer. However, up to 30 % of patients present with bone metastases of unknown origin, where the site of the primary neoplasm cannot be identified at the time of diagnosis despite a thorough history, physical examination, appropriate laboratory testing and modern imaging technology (CT, MRI, PET). Sometimes only extensive histopathological investigations on bone specimens from biopsy can suggest the primary malignancy. At other times, a bone lesion can have such a highly undifferentiated histological appearance that a precise pathological classification on routine hematoxylin-eosin-stained section is not possible. The authors reviewed the relevant literature in an attempt to investigate the epidemiology of the histological primaries finally identified in patients with bone metastases from occult cancer, and a strategy of management and treatment of bone metastases from occult carcinomas is suggested. Lung, liver, pancreas and gastrointestinal tract are common sites for primary occult tumors. Adenocarcinoma is the main histological type, accounting for 70 % of all cases, while undifferentiated cancer accounts for 20 %. Over the past 30 years, lung cancer is the main causative occult primary for bone metastases and has a poor prognosis with an average survival of 4-8 months. Most relevant literature focuses on the need for standardized diagnostic workup, as surgery for bone lesions should be aggressive only when they are solitary and/or the occult primaries have a good prognosis; in these cases, identification of the primary tumor may be important and warrants special diagnostic efforts. However, in most cases, the primary site remains unknown, even after autopsy. Thus, orthopedic surgery has a mainly palliative role in preventing or stabilizing pathological fractures, relieving pain and facilitating the care of the patient in an attempt to provide the most appropriate therapy for the primary tumor as soon as possible. 5.

Temporal and spatial variability in stable isotope compositions of a freshwater mussel: Implications for biomonitoring and ecological studies

USGS Publications Warehouse

Gustafson, L.; Showers, W.; Kwak, T.; Levine, J.; Stoskopf, M.

2007-01-01

Stable isotopes can be used to elucidate ecological relationships in community and trophic studies. Findings are calibrated against baselines, e.g. from a producer or primary consumer, assumed to act as a reference to the isotopic context created by spatio-temporal attributes such as geography, climate, nutrient, and energy sources. The ability of an organism to accurately represent a community base depends on how, and over what time-scale, it assimilates ambient materials. Freshwater mussels have served as references for trophic studies of freshwater communities and as indicators of change in nutrient pollution load or source. Their suitability as reference animals has not yet been fully explored, however. We conducted a series of studies examining the suitability of freshwater mussels as isotopic baselines, using their ability to reflect variation in ambient nutrient loads as a case scenario. (1) We analyzed bivalve foot tissue ??15N and ??13C from 22 stream reaches in the Piedmont region of North Carolina, USA to show that compositions varied substantially among locations. Site mean bivalve ??13C values correlated with site ambient particulate organic matter (POM) ??13C values, and site mean bivalve ??15N values correlated with site ambient water dissolved ??15N-NO3 values. (2) Similarity of results among sample types demonstrated that the minimally invasive hemolymph sample is a suitable substitute for foot tissue in ??15N analyses, and that small sample sizes generate means representative of a larger population. Both findings can help minimize the impact of sampling on imperiled freshwater mussel populations. (3) In a bivalve transplantation study we showed that hemolymph ??15N compositions responded to a shift in ambient dissolved ??15N-NO3, although slowly. The tissue turnover time for bivalve hemolymph was 113 days. We conclude that bivalves serve best as biomonitors of chronic, rather than acute, fluctuations in stream nutrient loads, and provide initial evidence of their suitability as time-integrated isotopic baselines for community studies. ?? 2006 Springer-Verlag.

Geothermal solute flux monitoring and the source and fate of solutes in the Snake River, Yellowstone National Park, WY

USGS Publications Warehouse

McCleskey, R. Blaine; Lowenstern, Jacob B.; Schaper, Jonas; Nordstrom, D. Kirk; Heasler, Henry P.; Mahony, Dan

2016-01-01

The combined geothermal discharge from over 10,000 features in Yellowstone National Park (YNP) can be can be estimated from the Cl flux in the Madison, Yellowstone, Falls, and Snake Rivers. Over the last 30 years, the Cl flux in YNP Rivers has been calculated using discharge measurements and Cl concentrations determined in discrete water samples and it has been determined that approximately 12% of the Cl flux exiting YNP is from the Snake River. The relationship between electrical conductivity and concentrations of Cl and other geothermal solutes was quantified at a monitoring site located downstream from the thermal inputs in the Snake River. Beginning in 2012, continuous (15 min) electrical conductivity measurements have been made at the monitoring site. Combining continuous electrical conductivity and discharge data, the Cl and other geothermal solute fluxes were determined. The 2013–2015 Cl fluxes (5.3–5.8 kt/yr) determined using electrical conductivity are comparable to historical data. In addition, synoptic water samples and discharge data were obtained from sites along the Snake River under low-flow conditions of September 2014. The synoptic water study extended 17 km upstream from the monitoring site. Surface inflows were sampled to identify sources and to quantify solute loading. The Lewis River was the primary source of Cl, Na, K, Cl, SiO2, Rb, and As loads (50–80%) in the Snake River. The largest source of SO4 was from the upper Snake River (50%). Most of the Ca and Mg (50–55%) originate from the Snake Hot Springs. Chloride, Ca, Mg, Na, K, SiO2, F, HCO3, SO4, B, Li, Rb, and As behave conservatively in the Snake River, and therefore correlate well with conductivity (R2 ≥ 0.97).

Characterization Report to Support the Phytoremediation Efforts for Southern Sector, Savannah River Site, Aiken, South Carolina

DOE Office of Scientific and Technical Information (OSTI.GOV)

Jerome, K.M.

1999-06-08

In February, 1999, we conducted a small-scale characterization effort to support future remediation decisions for the Southern Sector of the upper Three Runs watershed. The study concentrated on groundwater adjacent to the seepline at Tim's Branch above and below Steed's Pond. the primary compounds of interest were the volatile organic contaminants (VOCs), trichlorethylene (TCE) and tetrachloroethylene (PCE). Due to the site topography and hydrogeology, samples collected north of Steed's Pond were from the M-Area (water table) aquifer; while those locations south of Steed's Pond provided samples from the Lost Lake aquifer. Results of the study suggest that the leading edgemore » of the A/M Area plume in the Lost Lake aquifer may be approaching the seepline at Tim's Branch below Steed's Pond, south of Road 2. Neither TCE nor PCE were detected int he samples targeting the seepline of the water table aquifer. The concentrations found for both TCE and PCE associated with the Lost Lake aquifer outcrop region were slightly above the detection limit of the analytical instrument used. The findings of this study are consistent with the conceptual model for the organic contaminant plume in the A/M Area of the Savannah River Site (SRS) -- the plume in the Southern Sector is known to be depth discrete and primarily in the Lost lake Aquifer. The sites with detected VOCs are in the most upstream accessible reaches of Tim's Branch where water from the Lost Lake Aquifer crops out. Additional characterization efforts should be directed near this region to confirm the results and to support future planning for the dilute-distal portions of the A/M Area plume. These data, combined with existing groundwater plume data and future characterization results will provide key information to estimate potential contaminant flux to the seepline and to assess the effectiveness of potential clean-up activities such as phytoremediation.« less

Zinc isotope investigation of surface and pore waters in a mountain watershed impacted by acid rock drainage.

PubMed

Aranda, Suzan; Borrok, David M; Wanty, Richard B; Balistrieri, Laurie S

2012-03-15

The pollution of natural waters with metals derived from the oxidation of sulfide minerals like pyrite is a global environmental problem. However, the metal loading pathways and transport mechanisms associated with acid rock drainage reactions are often difficult to characterize using bulk chemical data alone. In this study, we evaluated the use of zinc (Zn) isotopes to complement traditional geochemical tools in the investigation of contaminated waters at the former Waldorf mining site in the Rocky Mountains, Colorado, U.S.A. Geochemical signatures and statistical analysis helped in identifying two primary metal loading pathways at the Waldorf site. The first was characterized by a circumneutral pH, high alkalinity, and high Zn/Cd ratios. The second was characterized by acidic pHs and low Zn/Cd ratios. Zinc isotope signatures in surface water samples collected across the site were remarkably similar (the δ(66)Zn, relative to JMC 3-0749-L, for most samples ranged from 0.20 to 0.30‰±0.09‰ 2σ). This probably suggests that the ultimate source of Zn is consistent across the Waldorf site, regardless of the metal loading pathway. The δ(66)Zn of pore water samples collected within a nearby metal-impacted wetland area, however, were more variable, ranging from 0.20 to 0.80‰±0.09‰ 2σ. Here the Zn isotopes seemed to reflect differences in groundwater flow pathways. However, a host of secondary processes might also have impacted Zn isotopes, including adsorption of Zn onto soil components, complexation of Zn with dissolved organic matter, uptake of Zn into plants, and the precipitation of Zn during the formation of reduced sulfur species. Zinc isotope analysis proved useful in this study; however, the utility of this isotopic tool would improve considerably with the addition of a comprehensive experimental foundation for interpreting the complex isotopic relationships found in soil pore waters. Copyright © 2012 Elsevier B.V. All rights reserved.

Biomonitoring of lead, zinc, and cadmium in streams draining lead-mining and non-mining areas, Southeast Missouri, USA

USGS Publications Warehouse

Besser, John M.; Brumbaugh, William G.; May, Thomas W.; Schmitt, Christopher J.

2007-01-01

We evaluated exposure of aquatic biota to lead (Pb), zinc (Zn), and cadmium (Cd) in streams draining a Pb-mining district in southeast Missouri. Samples of plant biomass (detritus, periphyton, and filamentous algae), invertebrates (snails, crayfish, and riffle benthos), and two taxa of fish were collected from seven sites closest to mining areas (mining sites), four sites further downstream from mining (downstream sites), and eight reference sites in fall 2001. Samples of plant biomass from mining sites had highest metal concentrations, with means 10- to 60-times greater than those for reference sites. Mean metal concentrations in over 90% of samples of plant biomass from mining sites were significantly greater than those from reference sites. Mean concentrations of Pb, Zn, and Cd in most invertebrate samples from mining sites, and mean Pb concentrations in most fish samples from mining sites, were also significantly greater than those from reference sites. Concentrations of all three metals were lower in samples from downstream sites, but several samples of plant biomass from downstream sites had metal concentrations significantly greater than those from reference sites. Analysis of supplemental samples collected in the fall of 2002, a year of above-average stream discharge, had lower Pb concentrations and higher Cd concentrations than samples collected in 2001, near the end of a multi-year drought. Concentrations of Pb measured in fish and invertebrates collected from mining sites during 2001 and 2002 were similar to those measured at nearby sites in the 1970s, during the early years of mining in the Viburnum Trend. Results of this study demonstrate that long-term Pb mining activity in southeast Missouri has resulted in significantly elevated concentrations of Pb, Cd, and Zn in biota of receiving streams, compared to biota of similar streams without direct influence of mining. Our results also demonstrate that metal exposure in the study area differed significantly among sample types, habitats, and years, and that these factors should be carefully considered in the design of biomonitoring studies.

Biomonitoring of lead, zinc, and cadmium in streams draining lead-mining and non-mining areas, Southeast Missouri, USA

USGS Publications Warehouse

Besser, J.M.; Brumbaugh, W.G.; May, T.W.; Schmitt, C.J.

2007-01-01

We evaluated exposure of aquatic biota to lead (Pb), zinc (Zn), and cadmium (Cd) in streams draining a Pb-mining district in southeast Missouri. Samples of plant biomass (detritus, periphyton, and filamentous algae), invertebrates (snails, crayfish, and riffle benthos), and two taxa of fish were collected from seven sites closest to mining areas (mining sites), four sites further downstream from mining (downstream sites), and eight reference sites in fall 2001. Samples of plant biomass from mining sites had highest metal concentrations, with means 10- to 60-times greater than those for reference sites. Mean metal concentrations in over 90% of samples of plant biomass from mining sites were significantly greater than those from reference sites. Mean concentrations of Pb, Zn, and Cd in most invertebrate samples from mining sites, and mean Pb concentrations in most fish samples from mining sites, were also significantly greater than those from reference sites. Concentrations of all three metals were lower in samples from downstream sites, but several samples of plant biomass from downstream sites had metal concentrations significantly greater than those from reference sites. Analysis of supplemental samples collected in the fall of 2002, a year of above-average stream discharge, had lower Pb concentrations and higher Cd concentrations than samples collected in 2001, near the end of a multi-year drought. Concentrations of Pb measured in fish and invertebrates collected from mining sites during 2001 and 2002 were similar to those measured at nearby sites in the 1970s, during the early years of mining in the Viburnum Trend. Results of this study demonstrate that long-term Pb mining activity in southeast Missouri has resulted in significantly elevated concentrations of Pb, Cd, and Zn in biota of receiving streams, compared to biota of similar streams without direct influence of mining. Our results also demonstrate that metal exposure in the study area differed significantly among sample types, habitats, and years, and that these factors should be carefully considered in the design of biomonitoring studies. ?? Springer Science+Business Media B.V. 2006.

Poor Prognosis of Lower Inner Quadrant in Lymph Node-negative Breast Cancer Patients Who Received No Chemotherapy: A Study Based on Nationwide Korean Breast Cancer Registry Database.

PubMed

Hwang, Ki-Tae; Kim, Jongjin; Kim, Eun-Kyu; Jung, Sung Hoo; Sohn, Guiyun; Kim, Seung Il; Jeong, Joon; Lee, Hyouk Jin; Park, Jin Hyun; Oh, Sohee

2017-07-01

We aimed to investigate the prognostic influence of primary tumor site on the survival of patients with breast cancer. Data of 63,388 patients with primary breast cancer from the Korean Breast Cancer Registry were analyzed. Primary tumor sites were classified into 5 groups: upper outer quadrant, lower outer quadrant, upper inner quadrant, lower inner quadrant (LIQ), and central portion. We analyzed overall survival (OS) and breast cancer-specific survival (BCSS) according to primary tumor site. Central portion and LIQ showed lower survival rates regarding both OS and BCSS compared with the other 3 quadrants (all P < .05) and hazard ratios were 1.267 (95% CI, 1.180-1.360, P < .001) and 1.215 (95% CI, 1.097-1.345, P < .001), respectively. Although central portion showed more unfavorable clinicopathologic features, LIQ showed more favorable features than the other 3 quadrants. Primary tumor site was a significant factor in univariate and multivariate analyses for OS and BCSS (all P < .001). For lymph node-negative patients, LIQ showed a worse OS than the other primary tumor sites in the subgroup with no chemotherapy (P < .001), but that effect disappeared in the subgroup with chemotherapy (P = .058). LIQ showed a worse prognosis despite having more favorable clinicopathologic features than other tumor locations and it was more prominent for lymph node-negative patients who received no chemotherapy. The hypothesis of possible hidden internal mammary node metastasis could be suggested to play a key role in LIQ lesions. Copyright © 2017 Elsevier Inc. All rights reserved.

Environmental survey in the Tuul and Orkhon River basins of north-central Mongolia, 2010: metals and other elements in streambed sediment and floodplain soi

USGS Publications Warehouse

Brumbaugh, William G.; Tillitt, Donald E.; May, Thomas W.; Choijil, J.; Komov, T.V.

2013-01-01

Streambed sediment and subsurface floodplain soil were sampled for elemental analyses from 15 locations in river basins of north-central Mongolia during August 2010. Our primary objective was to conduct a reconnaissance-level assessment of potential inputs of toxicologically important metals and metalloids to Lake Baikal, Russia, that might originate from mining and urban activities within tributaries of the Selenga River in Mongolia. Samples were collected in triplicate from all sites, then dried, and sieved to <2 mm for analysis by portable X-ray florescence spectroscopy and by inductively coupled plasma mass spectrometry after digestion with concentrated nitric and hydrochloric acids. Arsenic, copper, and mercury were greatly elevated in sediment and floodplain soil collected from tributary streams located near two major mining operations. Lead and zinc were moderately elevated in streambed sediment and in floodplain soil obtained from a small tributary in the capital city of Ulaanbaatar, but those concentrations were considerably less than probable effects benchmarks. Historical and possibly present mining activities have led to considerable metal contamination in certain tributaries of the Orkhon River in north-central Mongolia; however, metals originating from those sources did not appear to be accumulating in sediments at our downstream-most sampling sites located near the border between Mongolia and Russia.

Patterns of Ecosystem Metabolism in the Tonle Sap Lake, Cambodia with Links to Capture Fisheries

PubMed Central

Holtgrieve, Gordon W.; Arias, Mauricio E.; Irvine, Kim N.; Lamberts, Dirk; Ward, Eric J.; Kummu, Matti; Koponen, Jorma; Sarkkula, Juha; Richey, Jeffrey E.

2013-01-01

The Tonle Sap Lake in Cambodia is a dynamic flood-pulsed ecosystem that annually increases its surface area from roughly 2,500 km2 to over 12,500 km2 driven by seasonal flooding from the Mekong River. This flooding is thought to structure many of the critical ecological processes, including aquatic primary and secondary productivity. The lake also has a large fishery that supports the livelihoods of nearly 2 million people. We used a state-space oxygen mass balance model and continuous dissolved oxygen measurements from four locations to provide the first estimates of gross primary productivity (GPP) and ecosystem respiration (ER) for the Tonle Sap. GPP averaged 4.1±2.3 g O2 m−3 d−1 with minimal differences among sites. There was a negative correlation between monthly GPP and lake level (r = 0.45) and positive correlation with turbidity (r = 0.65). ER averaged 24.9±20.0 g O2 m−3 d−1 but had greater than six-fold variation among sites and minimal seasonal change. Repeated hypoxia was observed at most sampling sites along with persistent net heterotrophy (GPP

Atmospheric iron fluxes in the northern region of the Gulf of California: Implications for primary production and potential Fe limitation

NASA Astrophysics Data System (ADS)

Muñoz-Barbosa, Albino; Segovia-Zavala, José A.; Huerta-Diaz, Miguel Angel; Delgadillo-Hinojosa, Francisco; Torres-Delgado, Eunice V.; Lares, María L.; Marinone, Silvio G.; Gutiérrez-Galindo, Efraín A.

2017-11-01

To study the temporal variability of atmospheric mineral dust and Fe fluxes to the northern region of the Gulf of California, dust samples were collected at San Felipe, Baja California (Site 1) and Puerto Peñasco, Sonora (Site 2), from May 2010 to December 2011. Dust fluxes were partially associated with monsoon circulation, with highest (38 ± 20 mg m-2 d-1) and lowest (8.8 ± 4.9 mg m-2 d-1) fluxes linked to southwesterly winds (monsoon season) and north-northwesterly winds (non-monsoon season), respectively. Our analysis suggests that the surrounding deserts are the most probable source of dust arriving into the Gulf of California. However, analyses of Al and Fe concentrations in dusts showed no trends that could identify specific particulate Fe provenance. Average particulate Fe atmospheric fluxes (FeAtm) showed no clear temporal trends and their magnitudes (3.2 ± 3.4 and 6 ± 10 μmol m-2 d-1 for sites 1 and 2, respectively) could be considered medium-to-low in magnitude within a global context. An Fe limitation index (FeLI), calculated as the ratio of phytoplankton Fe requirements to atmospheric and upwelling Fe fluxes, is proposed to estimate the impact of atmospheric mineral dust on phytoplankton primary production in surface waters of the Gulf of California. On a seasonal time scale, FeLI results suggest that under winter conditions, there is no evidence of Fe limitation because upwelling Fe contribution (FeUp) is high enough to support primary production. In contrast, during summer conditions, when FeUp is very low or negligible, high FeAtm combined with high particulate Fe dissolution factors could prevent the northern Gulf of California from becoming Fe-limited. Finally, we postulate that at an interannual scale, conditions prevailing during ENSO events could increase atmospheric Fe fluxes to the Gulf of California, further contributing to prevent Fe limitation in this marginal sea.

Patterns of ecosystem metabolism in the Tonle Sap Lake, Cambodia with links to capture fisheries.

PubMed

Holtgrieve, Gordon W; Arias, Mauricio E; Irvine, Kim N; Lamberts, Dirk; Ward, Eric J; Kummu, Matti; Koponen, Jorma; Sarkkula, Juha; Richey, Jeffrey E

2013-01-01

The Tonle Sap Lake in Cambodia is a dynamic flood-pulsed ecosystem that annually increases its surface area from roughly 2,500 km(2) to over 12,500 km(2) driven by seasonal flooding from the Mekong River. This flooding is thought to structure many of the critical ecological processes, including aquatic primary and secondary productivity. The lake also has a large fishery that supports the livelihoods of nearly 2 million people. We used a state-space oxygen mass balance model and continuous dissolved oxygen measurements from four locations to provide the first estimates of gross primary productivity (GPP) and ecosystem respiration (ER) for the Tonle Sap. GPP averaged 4.1±2.3 g O2 m(-3) d(-1) with minimal differences among sites. There was a negative correlation between monthly GPP and lake level (r = 0.45) and positive correlation with turbidity (r = 0.65). ER averaged 24.9±20.0 g O2 m(-3) d(-1) but had greater than six-fold variation among sites and minimal seasonal change. Repeated hypoxia was observed at most sampling sites along with persistent net heterotrophy (GPP

Primary succession of Bistorta vivipara (L.) Delabre (Polygonaceae) root-associated fungi mirrors plant succession in two glacial chronosequences.

PubMed

Davey, Marie; Blaalid, Rakel; Vik, Unni; Carlsen, Tor; Kauserud, Håvard; Eidesen, Pernille B

2015-08-01

Glacier chronosequences are important sites for primary succession studies and have yielded well-defined primary succession models for plants that identify environmental resistance as an important determinant of the successional trajectory. Whether plant-associated fungal communities follow those same successional trajectories and also respond to environmental resistance is an open question. In this study, 454 amplicon pyrosequencing was used to compare the root-associated fungal communities of the ectomycorrhizal (ECM) herb Bistorta vivipara along two primary succession gradients with different environmental resistance (alpine versus arctic) and different successional trajectories in the vascular plant communities (directional replacement versus directional non-replacement). At both sites, the root-associated fungal communities were dominated by ECM basidiomycetes and community composition shifted with increasing time since deglaciation. However, the fungal community's successional trajectory mirrored the pattern observed in the surrounding plant community at both sites: the alpine site displayed a directional-replacement successional trajectory, and the arctic site displayed a directional-non-replacement successional trajectory. This suggests that, like in plant communities, environmental resistance is key in determining succession patterns in root-associated fungi. The need for further replicated study, including in other host species, is emphasized. © 2015 Society for Applied Microbiology and John Wiley & Sons Ltd.

Impact of Patient-Centered Care Innovations on Access to Providers, Ambulatory Care Utilization, and Patient Clinical Indicators in the Veterans Health Administration.

PubMed

Burkhart, Lisa; Sohn, Min-Woong; Jordan, Neil; Tarlov, Elizabeth; Gampetro, Pamela; LaVela, Sherri L

2016-01-01

The Veterans Health Administration piloted patient-centered care (PCC) innovations beginning in 2010 to improve patient and provider experience and environment in ambulatory care. We use secondary data to look at longitudinal trends, evaluate system redesign, and identify areas for further quality improvement. This was a retrospective, observational study using existing secondary data from multiple US Department of Veteran Affairs sources to evaluate changes in veteran and facility outcomes associated with PCC innovations at 2 innovation and matched comparison sites between FY 2008-2010 (pre-PCC innovations) and FY 2011-2012 (post-PCC innovations). Outcomes included access to primary care providers (PCPs); primary, specialty, and emergency care use; and clinical indicators for chronic disease. Longitudinal trends revealed a different story at each site. One site demonstrated better PCP access, decrease in emergency and primary care use, increase in specialty care use, and improvement in diabetic glucose control. The other site demonstrated a decrease in PCP access and primary care use, no change in specialty care use, and an increase in diastolic blood pressure in relation to the comparison site. Secondary data analysis can reveal longitudinal trends associated with system changes, thereby informing program evaluation and identifying opportunities for quality improvement.

Sampling effort affects multivariate comparisons of stream assemblages

USGS Publications Warehouse

Cao, Y.; Larsen, D.P.; Hughes, R.M.; Angermeier, P.L.; Patton, T.M.

2002-01-01

Multivariate analyses are used widely for determining patterns of assemblage structure, inferring species-environment relationships and assessing human impacts on ecosystems. The estimation of ecological patterns often depends on sampling effort, so the degree to which sampling effort affects the outcome of multivariate analyses is a concern. We examined the effect of sampling effort on site and group separation, which was measured using a mean similarity method. Two similarity measures, the Jaccard Coefficient and Bray-Curtis Index were investigated with 1 benthic macroinvertebrate and 2 fish data sets. Site separation was significantly improved with increased sampling effort because the similarity between replicate samples of a site increased more rapidly than between sites. Similarly, the faster increase in similarity between sites of the same group than between sites of different groups caused clearer separation between groups. The strength of site and group separation completely stabilized only when the mean similarity between replicates reached 1. These results are applicable to commonly used multivariate techniques such as cluster analysis and ordination because these multivariate techniques start with a similarity matrix. Completely stable outcomes of multivariate analyses are not feasible. Instead, we suggest 2 criteria for estimating the stability of multivariate analyses of assemblage data: 1) mean within-site similarity across all sites compared, indicating sample representativeness, and 2) the SD of within-site similarity across sites, measuring sample comparability.

Reducing risk and increasing confidence of decision making at a lower cost: In-situ pXRF assessment of metal-contaminated sites.

PubMed

Rouillon, Marek; Taylor, Mark P; Dong, Chenyin

2017-10-01

This study evaluates the in-situ use of field portable X-ray Fluorescence (pXRF) for metal-contaminated site assessments, and assesses the advantages of increased sampling to reduce risk, and increase confidence of decision making at a lower cost. Five metal-contaminated sites were assessed using both in-situ pXRF and ex-situ inductively coupled plasma mass spectrometry (ICP-MS) analyses at various sampling resolutions. Twenty second in-situ pXRF measurements of Mn, Zn and Pb were corrected using a subset of parallel ICP-MS measurements taken at each site. Field and analytical duplicates revealed sampling as the major contributor (>95% variation) to measurement uncertainties. This study shows that increased sampling led to several benefits including more representative site characterisation, higher soil-metal mapping resolution, reduced uncertainty around the site mean, and reduced sampling uncertainty. Real time pXRF data enabled efficient, on-site decision making for further judgemental sampling, without the need to return to the site. Additionally, in-situ pXRF was more cost effective than the current approach of ex-situ sampling and ICP-MS analysis, even with higher sampling at each site. Lastly, a probabilistic site assessment approach was applied to demonstrate the advantages of integrating estimated measurement uncertainties into site reporting. Copyright © 2017 Elsevier Ltd. All rights reserved.

Occurrence and concentrations of selected trace elements and halogenated organic compounds in stream sediments and potential sources of polychlorinated biphenyls, Leon Creek, San Antonio, Texas, 2012–14

USGS Publications Warehouse

Wilson, Jennifer T.

2016-06-23

Sediment samples collected from Leon Creek by the USGS during 2007–9 and 2012–14 at a total of eight sites following identical field and laboratory methods were evaluated to determine if potential PCB sources could be identified. Total PCB concentrations in the sediment samples collected upstream from the Joint Base site were low or nondetections; while concentrations in the samples collected on and downstream from the Joint Base site were greater. Congeners 180 and 138 constituted the greatest proportion of the PCB mixture in samples collected upstream from, on, and downstream from the Joint Base site. Upstream from the Joint Base site, congeners 180 and 138 constituted 50 percent and 35 percent respectively of the PCBs congeners found in the samples. On and downstream from the Joint Base site, congeners 180 and 138 constituted 80 percent and 13 percent respectively of the PCBs congeners found in the samples. Chi-square (C2) tests also indicate that samples collected from the Loop 410 site were statistically different from samples collected from the Joint Base site and sites downstream. The PCB congener pattern in the Leon Creek samples is most like the congener mixture in Aroclor 1260, which is chemically similar to the PCBs detected in the fish samples that resulted in the 2003 fish consumption advisory.

The Preservation and Recycling of Snow Pack Nitrate at the West Antarctic Ice Sheet (WAIS) Divide Ice Core Site from the Present Day to the Last Glacial Period.

NASA Astrophysics Data System (ADS)

Robinson, J. W.; Buffen, A.; Hastings, M. G.; Schauer, A. J.; Moore, L.; Isaacs, A.; Geng, L.; Savarino, J. P.; Alexander, B.

2017-12-01

We use observations of the nitrogen isotopic composition of nitrate (δ15N(NO3-)) from snow and ice collected at the West Antarctic ice sheet (WAIS) divide ice core site to quantify the preservation and recycling of snow nitrate. Ice-core samples cover a continuous section from 36 to 52 thousand years ago and discrete samples from the Holocene, the last glacial maximum (LGM), and the glacial-Holocene transition. Higher δ15N of nitrate is consistently associated with lower temperatures with δ15N(NO3-) varying from 26 to 45 ‰ during the last glacial period and from 1 to 45 ‰ between the Holocene and glacial periods, respectively. We attribute the higher δ15N in colder periods to lower snow accumulation rates which lead to greater loss of snow nitrate via photolysis before burial beneath the snow photic zone. Modeling of nitrate preservation in snow pack was performed for modern and LGM conditions. The model is used in conjunction with observations to estimate the fraction of snow nitrate that is photolyzed, re-oxidized, and re-deposited over WAIS divide versus the fraction of primary nitrate that is deposited via long range transport. We used these estimates of fractional loss of snow nitrate in different time periods to determine the variation in the deposition flux of primary nitrate at WAIS divide with climate. Our findings have implications for the climate sensitivity of the oxidizing capacity of the polar atmosphere and the interpretation of ice-core records of nitrate in terms of past atmospheric composition.

The Peritoneal Dialysis Outcomes and Practice Patterns Study (PDOPPS): Unifying Efforts to Inform Practice and Improve Global Outcomes in Peritoneal Dialysis

PubMed Central

Perl, Jeffrey; Davies, Simon J.; Lambie, Mark; Pisoni, Ronald L.; McCullough, Keith; Johnson, David W.; Sloand, James A.; Prichard, Sarah; Kawanishi, Hideki; Tentori, Francesca; Robinson, Bruce M.

2016-01-01

♦ Background: Extending technique survival on peritoneal dialysis (PD) remains a major challenge in optimizing outcomes for PD patients while increasing PD utilization. The primary objective of the Peritoneal Dialysis Outcomes and Practice Patterns Study (PDOPPS) is to identify modifiable practices associated with improvements in PD technique and patient survival. In collaboration with the International Society for Peritoneal Dialysis (ISPD), PDOPPS seeks to standardize PD-related data definitions and provide a forum for effective international collaborative clinical research in PD. ♦ Methods: The PDOPPS is an international prospective cohort study in Australia, Canada, Japan, the United Kingdom (UK), and the United States (US). Each country is enrolling a random sample of incident and prevalent patients from national samples of 20 to 80 sites with at least 20 patients on PD. Enrolled patients will be followed over an initial 3-year study period. Demographic, comorbidity, and treatment-related variables, and patient-reported data, will be collected over the study course. The primary outcome will be all-cause PD technique failure or death; other outcomes will include cause-specific technique failure, hospitalizations, and patient-reported outcomes. ♦ Results: A high proportion of the targeted number of study sites has been recruited to date in each country. Several ancillary studies have been funded with high momentum toward expansion to new countries and additional participation. ♦ Conclusion: The PDOPPS is the first large, international study to follow PD patients longitudinally to capture clinical practice. With data collected, the study will serve as an invaluable resource and research platform for the international PD community, and provide a means to understand variation in PD practices and outcomes, to identify optimal practices, and to ultimately improve outcomes for PD patients. PMID:26526049