Comparison of oral fluid collection methods for the molecular detection of hepatitis B virus.

PubMed

Portilho, M M; Mendonça, Acf; Marques, V A; Nabuco, L C; Villela-Nogueira, C A; Ivantes, Cap; Lewis-Ximenez, L L; Lampe, E; Villar, L M

2017-11-01

This study aims to compare the efficiency of four oral fluid collection methods (Salivette, FTA Card, spitting and DNA-Sal) to detect HBV DNA by qualitative PCR. Seventy-four individuals (32 HBV reactive and 42 with no HBV markers) donated serum and oral fluid. In-house qualitative PCR to detect HBV was used for both samples and commercial quantitative PCR for serum. HBV DNA was detected in all serum samples from HBV-infected individuals, and it was not detected in control group. HBV DNA from HBV group was detected in 17 samples collected with Salivette device, 16 samples collected by FTA Card device, 16 samples collected from spitting and 13 samples collected by DNA-Sal device. Samples that corresponded to a higher viral load in their paired serum sample could be detected using all oral fluid collection methods, but Salivette collection device yielded the largest numbers of positive samples and had a wide range of viral load that was detected. It was possible to detect HBV DNA using all devices tested, but higher number of positive samples was observed when samples were collected using Salivette device, which shows high concordance to viral load observed in the paired serum samples. © 2017 John Wiley & Sons A/S. Published by John Wiley & Sons Ltd. All rights reserved.

Water- and air-quality monitoring of the Sweetwater Reservoir Watershed, San Diego County, California - Phase One results, continued, 2001-2003

USGS Publications Warehouse

Mendez, Gregory O.; Foreman, William T.; Morita, Andrew; Majewski, Michael S.

2008-01-01

In 1998, the U.S. Geological Survey, in cooperation with the Sweetwater Authority, began a study to monitor water, air, and sediment at the Sweetwater and Loveland Reservoirs in San Diego County, California. The study includes regular sampling of water and air at Sweetwater Reservoir for chemical constituents, including volatile organic compounds (VOC), polynuclear aromatic hydrocarbons (PAH), pesticides, and major and trace elements. The purpose of this study is to monitor changes in contaminant composition and concentration during the construction and operation of State Route 125. To accomplish this, the study was divided into two phases. Phase One sampling (water years 1998–2004) determined baseline conditions for the detection frequency and the concentrations of target compounds in air and water. Phase Two sampling (starting water year 2005) continues at selected monitoring sites during and after construction of State Route 125 to assess the chemical impact this roadway alignment may have on water quality in the reservoir. Water samples were collected for VOCs and pesticides at Loveland Reservoir during Phase One and will be collected during Phase Two for comparison purposes. Air samples collected to monitor changes in VOCs, PAHs, and pesticides were analyzed by adapting methods used to analyze water samples. Bed-sediment samples have been and will be collected three times during the study; at the beginning of Phase One, at the start of Phase Two, and near the end of the study. In addition to the ongoing data collection, several special studies were initiated to assess the occurrence of specific chemicals of concern, such as trace metals, anthropogenic indicator compounds, and pharmaceuticals. This report describes the study design, and the sampling and analytical methods, and presents data from water and air samples collected during the fourth and fifth years of Phase One of the study (October 2001 to September 2003). Data collected during the first three years has been previously published. Three types of quality-control samples were used in this study: blanks, spikes, and replicates. Blanks and spikes are used to estimate result bias, and replicates are used to estimate result variability. Additionally, surrogate compounds were added at the laboratory to samples of VOCs, PAHs, pesticides, anthropogenic indicator compounds, and pharmaceuticals to monitor sample-specific performance of the analytical method.

Streamflow and suspended-sediment transport in Garvin Brook, Winona County, southeastern Minnesota: Hydrologic data for 1982

USGS Publications Warehouse

Payne, G.A.

1983-01-01

Streamflow and suspended-sediment-transport data were collected in Garvin Brook watershed in Winona County, southeastern Minnesota, during 1982. The data collection was part of a study to determine the effectiveness of agricultural best-management practices designed to improve rural water quality. The study is part of a Rural Clean Water Program demonstration project undertaken by the U.S. Department of Agriculture. Continuous streamflow data were collected at three gaging stations during March through September 1982. Suspended-sediment samples were collected at two of the gaging stations. Samples were collected manually at weekly intervals. During periods of rapidly changing stage, samples were collected at 30-minute to 12-hour intervals by stage-activated automatic samplers. The samples were analyzed for suspendedsediment concentration and particle-size distribution. Particlesize distributions were also determined for one set of bedmaterial samples collected at each sediment-sampling site. The streamflow and suspended-sediment-concentration data were used to compute records of mean-daily flow, mean-daily suspended-sediment concentration, and daily suspended-sediment discharge. The daily records are documented and results of analyses for particle-size distribution and of vertical sampling in the stream cross sections are given.

Occurrence of organic wastewater compounds in effluent-dominated streams in Northeastern Kansas

USGS Publications Warehouse

Lee, C.J.; Rasmussen, T.J.

2006-01-01

Fifty-nine stream-water samples and 14 municipal wastewater treatment facility (WWTF) discharge samples in Johnson County, northeastern Kansas, were analyzed for 55 compounds collectively described as organic wastewater compounds (OWCs). Stream-water samples were collected upstream, in, and downstream from WWTF discharges in urban and rural areas during base-flow conditions. The effect of secondary treatment processes on OWC occurrence was evaluated by collecting eight samples from WWTF discharges using activated sludge and six from WWTFs samples using trickling filter treatment processes. Samples collected directly from WWTF discharges contained the largest concentrations of most OWCs in this study. Samples from trickling filter discharges had significantly larger concentrations of many OWCs (p-value < 0.05) compared to samples collected from activated sludge discharges. OWC concentrations decreased significantly in samples from WWTF discharges compared to stream-water samples collected from sites greater than 2000??m downstream. Upstream from WWTF discharges, base-flow samples collected in streams draining predominantly urban watersheds had significantly larger concentrations of cumulative OWCs (p-value = 0.03), caffeine (p-value = 0.01), and tris(2-butoxyethyl) phosphate (p-value < 0.01) than those collected downstream from more rural watersheds.

U.S.-MEXICO BORDER PROGRAM ARIZONA BORDER STUDY--STANDARD OPERATING PROCEDURE FOR COLLECTION, STORAGE, AND SHIPMENT OF URINE SAMPLES FOR METALS AND PESTICIDES ANALYSIS (UA-F-20.1)

EPA Science Inventory

The purpose of this SOP is to guide the collection, storage, and shipment of urine samples collected. This SOP provides a brief description of sample, collection, preservation, storage, shipping, and custody procedures. This procedure was followed to ensure consistent data retri...

U.S.-MEXICO BORDER PROGRAM ARIZONA BORDER STUDY--STANDARD OPERATING PROCEDURE FOR COLLECTION, STORAGE, AND SHIPMENT OF BLOOD SAMPLES FOR SELECTED METALS, PESTICIDES, AND VOCS (UA-F-19.1)

EPA Science Inventory

The purpose of this SOP is to guide the collection, storage, and shipment of blood samples collected. This SOP provides a brief description of sample collection, preservation, storage, and custody procedures. This procedure was followed to ensure consistent data retrieval during...

NHEXAS PHASE I ARIZONA STUDY--STANDARD OPERATING PROCEDURE FOR COLLECTION, STORAGE AND SHIPMENT OF BLOOD SAMPLES FOR SELECTED METALS AND VOCS (UA-F-19.1)

EPA Science Inventory

The purpose of this SOP is to guide the collection, storage, and shipment of blood samples collected for the NHEXAS Arizona project. This SOP provides a brief description of sample collection, preservation, storage, and custody procedures. This procedure was followed to ensure c...

Exposure to microbial components and allergens in population studies: a comparison of two house dust collection methods applied by participants and fieldworkers.

PubMed

Schram-Bijkerk, D; Doekes, G; Boeve, M; Douwes, J; Riedler, J; Ublagger, E; von Mutius, E; Benz, M; Pershagen, G; Wickman, M; Alfvén, T; Braun-Fahrländer, C; Waser, M; Brunekreef, B

2006-12-01

Dust collection by study participants instead of fieldworkers would be a practical and cost-effective alternative in large-scale population studies estimating exposure to indoor allergens and microbial agents. We aimed to compare dust weights and biological agent levels in house dust samples taken by study participants with nylon socks, with those in samples taken by fieldworkers using the sampling nozzle of the Allergology Laboratory Copenhagen (ALK). In homes of 216 children, parents and fieldworkers collected house dust within the same year. Dust samples were analyzed for levels of allergens, endotoxin, (1-->3)-beta-D-glucans and fungal extracellular polysaccharides (EPS). Socks appeared to yield less dust from mattresses at relatively low dust amounts and more dust at high dust amounts than ALK samples. Correlations between the methods ranged from 0.47-0.64 for microbial agents and 0.64-0.87 for mite and pet allergens. Cat allergen levels were two-fold lower and endotoxin levels three-fold higher in socks than in ALK samples. Levels of allergens and microbial agents in sock samples taken by study participants are moderately to highly correlated to levels in ALK samples taken by fieldworkers. Absolute levels may differ, probably because of differences in the method rather than in the person who performed the sampling. Practical Implications Dust collection by participants is a reliable and practical option for allergen and microbial agent exposure assessment. Absolute levels of biological agents are not (always) comparable between studies using different dust collection methods, even when expressed per gram dust, because of potential differences in particle-size constitution of the collected dust.

Field guide for collecting and processing stream-water samples for the National Water-Quality Assessment Program

USGS Publications Warehouse

Shelton, Larry R.

1994-01-01

The U.S. Geological Survey's National Water-Quality Assessment program includes extensive data- collection efforts to assess the quality of the Nations's streams. These studies require analyses of stream samples for major ions, nutrients, sediments, and organic contaminants. For the information to be comparable among studies in different parts of the Nation, consistent procedures specifically designed to produce uncontaminated samples for trace analysis in the laboratory are critical. This field guide describes the standard procedures for collecting and processing samples for major ions, nutrients, organic contaminants, sediment, and field analyses of conductivity, pH, alkalinity, and dissolved oxygen. Samples are collected and processed using modified and newly designed equipment made of Teflon to avoid contamination, including nonmetallic samplers (D-77 and DH-81) and a Teflon sample splitter. Field solid-phase extraction procedures developed to process samples for organic constituent analyses produce an extracted sample with stabilized compounds for more accurate results. Improvements to standard operational procedures include the use of processing chambers and capsule filtering systems. A modified collecting and processing procedure for organic carbon is designed to avoid contamination from equipment cleaned with methanol. Quality assurance is maintained by strict collecting and processing procedures, replicate sampling, equipment blank samples, and a rigid cleaning procedure using detergent, hydrochloric acid, and methanol.

Mass load estimation errors utilizing grab sampling strategies in a karst watershed

USGS Publications Warehouse

Fogle, A.W.; Taraba, J.L.; Dinger, J.S.

2003-01-01

Developing a mass load estimation method appropriate for a given stream and constituent is difficult due to inconsistencies in hydrologic and constituent characteristics. The difficulty may be increased in flashy flow conditions such as karst. Many projects undertaken are constrained by budget and manpower and do not have the luxury of sophisticated sampling strategies. The objectives of this study were to: (1) examine two grab sampling strategies with varying sampling intervals and determine the error in mass load estimates, and (2) determine the error that can be expected when a grab sample is collected at a time of day when the diurnal variation is most divergent from the daily mean. Results show grab sampling with continuous flow to be a viable data collection method for estimating mass load in the study watershed. Comparing weekly, biweekly, and monthly grab sampling, monthly sampling produces the best results with this method. However, the time of day the sample is collected is important. Failure to account for diurnal variability when collecting a grab sample may produce unacceptable error in mass load estimates. The best time to collect a sample is when the diurnal cycle is nearest the daily mean.

Modulation of Biomarker Expression by Osimertinib: Results of the Paired Tumor Biopsy Cohorts of the AURA Phase I Trial.

PubMed

Thress, Kenneth S; Jacobs, Vivien; Angell, Helen K; Yang, James Chih-Hsin; Sequist, Lecia V; Blackhall, Fiona; Su, Wu-Chou; Schuler, Martin; Wolf, Jürgen; Gold, Kathryn A; Cantarini, Mireille; Barrett, J Carl; Jänne, Pasi A

2017-10-01

Osimertinib is an oral, potent, irreversible EGFR tyrosine kinase inhibitor (TKI) selective for EGFR TKI and T790M resistance mutations. To enhance understanding of osimertinib's mechanism of action, we aimed to evaluate the modulation of key molecular biomarkers after osimertinib treatment in paired clinical samples from the phase I AURA trial. Paired tumor biopsy samples were collected before the study and after 15 plus or minus 7 days of osimertinib treatment (80 or 160 mg daily). Clinical efficacy outcomes were assessed according to whether viable paired biopsy samples could be collected; safety was also assessed. Immunohistochemical analyses assessed key pathway and tumor/immune-relevant markers (phospho-EGFR, phospho-S6, phospho-AKT, programmed death ligand 1, and CD8), with samples scored by image analysis or a pathologist blinded to treatment allocation. Predose tumor biopsy samples were collected from 61 patients with EGFR T790M tumors; 29 patients had no viable postdose biopsy sample because of tumor regression or insufficient tumor sample. Evaluable predose and postdose tumor biopsy samples were collected from 24 patients. Objective response rate (ORR) and median progression-free survival (mPFS) were improved in patients from whom a postdose biopsy sample could not be collected (ORR 62% and mPFS 9.7 months [p = 0.027]) compared with those from whom paired samples were collected (ORR 29% and mPFS 6.6 months). Osimertinib modulated key EGFR signaling pathways and led to increased immune cell infiltration. Collection of paired biopsy samples was challenging because of rapid tumor regression after osimertinib treatment, highlighting the difficulties of performing on-study biopsies in patients treated with highly active drugs. Copyright © 2017 International Association for the Study of Lung Cancer. Published by Elsevier Inc. All rights reserved.

A large volume particulate and water multi-sampler with in situ preservation for microbial and biogeochemical studies

NASA Astrophysics Data System (ADS)

Breier, J. A.; Sheik, C. S.; Gomez-Ibanez, D.; Sayre-McCord, R. T.; Sanger, R.; Rauch, C.; Coleman, M.; Bennett, S. A.; Cron, B. R.; Li, M.; German, C. R.; Toner, B. M.; Dick, G. J.

2014-12-01

A new tool was developed for large volume sampling to facilitate marine microbiology and biogeochemical studies. It was developed for remotely operated vehicle and hydrocast deployments, and allows for rapid collection of multiple sample types from the water column and dynamic, variable environments such as rising hydrothermal plumes. It was used successfully during a cruise to the hydrothermal vent systems of the Mid-Cayman Rise. The Suspended Particulate Rosette V2 large volume multi-sampling system allows for the collection of 14 sample sets per deployment. Each sample set can include filtered material, whole (unfiltered) water, and filtrate. Suspended particulate can be collected on filters up to 142 mm in diameter and pore sizes down to 0.2 μm. Filtration is typically at flowrates of 2 L min-1. For particulate material, filtered volume is constrained only by sampling time and filter capacity, with all sample volumes recorded by digital flowmeter. The suspended particulate filter holders can be filled with preservative and sealed immediately after sample collection. Up to 2 L of whole water, filtrate, or a combination of the two, can be collected as part of each sample set. The system is constructed of plastics with titanium fasteners and nickel alloy spring loaded seals. There are no ferrous alloys in the sampling system. Individual sample lines are prefilled with filtered, deionized water prior to deployment and remain sealed unless a sample is actively being collected. This system is intended to facilitate studies concerning the relationship between marine microbiology and ocean biogeochemistry.

Evaluation of Existing Methods for Human Blood mRNA Isolation and Analysis for Large Studies

PubMed Central

Meyer, Anke; Paroni, Federico; Günther, Kathrin; Dharmadhikari, Gitanjali; Ahrens, Wolfgang; Kelm, Sørge; Maedler, Kathrin

2016-01-01

Aims Prior to implementing gene expression analyses from blood to a larger cohort study, an evaluation to set up a reliable and reproducible method is mandatory but challenging due to the specific characteristics of the samples as well as their collection methods. In this pilot study we optimized a combination of blood sampling and RNA isolation methods and present reproducible gene expression results from human blood samples. Methods The established PAXgeneTM blood collection method (Qiagen) was compared with the more recent TempusTM collection and storing system. RNA from blood samples collected by both systems was extracted on columns with the corresponding Norgen and PAX RNA extraction Kits. RNA quantity and quality was compared photometrically, with Ribogreen and by Real-Time PCR analyses of various reference genes (PPIA, β-ACTIN and TUBULIN) and exemplary of SIGLEC-7. Results Combining different sampling methods and extraction kits caused strong variations in gene expression. The use of PAXgeneTM and TempusTM collection systems resulted in RNA of good quality and quantity for the respective RNA isolation system. No large inter-donor variations could be detected for both systems. However, it was not possible to extract sufficient RNA of good quality with the PAXgeneTM RNA extraction system from samples collected by TempusTM collection tubes. Comparing only the Norgen RNA extraction methods, RNA from blood collected either by the TempusTM or PAXgeneTM collection system delivered sufficient amount and quality of RNA, but the TempusTM collection delivered higher RNA concentration compared to the PAXTM collection system. The established Pre-analytix PAXgeneTM RNA extraction system together with the PAXgeneTM blood collection system showed lowest CT-values, i.e. highest RNA concentration of good quality. Expression levels of all tested genes were stable and reproducible. Conclusions This study confirms that it is not possible to mix or change sampling or extraction strategies during the same study because of large variations of RNA yield and expression levels. PMID:27575051

NHEXAS PHASE I REGION 5 STUDY--STANDARD OPERATING PROCEDURE FOR COLLECTION, STORAGE, AND SHIPMENT OF HAIR SAMPLES FOR TRACE METALS AND ARSENIC (RTI/ACS-209-046)

EPA Science Inventory

This protocol describes the procedures for the collection, storage, and shipping of human scalp hair samples for trace metals and arsenic or potential adduct analysis. Scalp hair samples were collected from each participant that agreed to provide the sample. Thinning shears were ...

Evaluation of a novel dried blood spot collection device (HemaSpot™) to test blood samples collected from dogs for antibodies to Leishmania infantum.

PubMed

Rosypal, Alexa C; Pick, Leanne D; Hernandez, Jaime O Esquivel; Lindsay, David S

2014-09-15

Collection of blood samples from veterinary and wildlife patients is often challenging because the samples have to be collected on farm or in the wild under various environmental conditions. This poses many technical problems associated with venipuncture materials, their safe use and disposal, transportation and processing of collected samples. Dried blood spot (DBS) sample collection techniques offer a simple and practical alternative to traditional blood collection methods to obtain blood samples from animals for parasite antibody evaluation. The DBS collection devices are compact, simple to use, and are particularly useful for large number of samples. Additionally, DBS samples take up less space and they are easier to transport than traditional venipuncture-collected blood samples. Visceral leishmaniasis (VL) is a potentially fatal parasitic disease of dogs and humans and it is frequently diagnosed by antibody tests. Immunochromatographic tests (ICT) for antibodies to Leishmania infantum are commercially available for dogs and they produce qualitative results in minutes. Measurement of canine antibodies to L. infantum with the ICT using traditional venipuncture has been validated previously, but the use of DBS samples has not been evaluated using this method. The purpose of the present study was to determine the ability of DBS samples to detect antibodies to L. infantum in dogs using a commercial ICT assay. One hundred plasma samples from dogs experimentally infected with the LIVT-1 strain of L. infantum were collected by venipuncture and frozen. Individual samples were thawed, and then 80 μl plasma (2 drops) was aliquotted onto the 8-spoked disk pad on individual DBS sample collection devices (HemaSpot™, Spot-On Sciences, Austin, TX), dried, and stored in the dark at room temperature. After one month and six months, respectively, 2 spokes of the 8 spokes of the disk pad of each DBS sample were removed and eluted in 200 μl PBS. The eluate was used to test for antibodies in the ICT and compared to ICT results using thawed plasma (same initial source). Sensitivity and specificity of the ICT using DBS were determined by using ICT results from traditional blood collection samples for comparison. After 1 month, DBS samples showed 100% sensitivity and specificity when compared to ICT results on thawed plasma samples collected by traditional venipuncture. After six months storage at room temperature, DBS samples demonstrated 79% sensitivity and 100% specificity compared to traditional blood collection. Results from this study indicate that dried blood spot collection may be a useful tool for screening dogs for antibodies to L. infantum with the ICT assay. Copyright © 2014 Elsevier B.V. All rights reserved.

A robust ambient temperature collection and stabilization strategy: Enabling worldwide functional studies of the human microbiome

PubMed Central

Anderson, Ericka L.; Li, Weizhong; Klitgord, Niels; Highlander, Sarah K.; Dayrit, Mark; Seguritan, Victor; Yooseph, Shibu; Biggs, William; Venter, J. Craig; Nelson, Karen E.; Jones, Marcus B.

2016-01-01

As reports on possible associations between microbes and the host increase in number, more meaningful interpretations of this information require an ability to compare data sets across studies. This is dependent upon standardization of workflows to ensure comparability both within and between studies. Here we propose the standard use of an alternate collection and stabilization method that would facilitate such comparisons. The DNA Genotek OMNIgene∙Gut Stool Microbiome Kit was compared to the currently accepted community standard of freezing to store human stool samples prior to whole genome sequencing (WGS) for microbiome studies. This stabilization and collection device allows for ambient temperature storage, automation, and ease of shipping/transfer of samples. The device permitted the same data reproducibility as with frozen samples, and yielded higher recovery of nucleic acids. Collection and stabilization of stool microbiome samples with the DNA Genotek collection device, combined with our extraction and WGS, provides a robust, reproducible workflow that enables standardized global collection, storage, and analysis of stool for microbiome studies. PMID:27558918

Review of sampling, sample and data collection procedures in nursing research--An example of research on ethical climate as perceived by nurses.

PubMed

Suhonen, Riitta; Stolt, Minna; Katajisto, Jouko; Leino-Kilpi, Helena

2015-12-01

To report a review of quality regarding sampling, sample and data collection procedures of empirical nursing research of ethical climate studies where nurses were informants. Surveys are needed to obtain generalisable information about topics sensitive to nursing. Methodological quality of the studies is of key concern, especially the description of sampling and data collection procedures. Methodological literature review. Using the electronic MEDLINE database, empirical nursing research articles focusing on ethical climate were accessed in 2013 (earliest-22 November 2013). Using the search terms 'ethical' AND ('climate*' OR 'environment*') AND ('nurse*' OR 'nursing'), 376 citations were retrieved. Based on a four-phase retrieval process, 26 studies were included in the detailed analysis. Sampling method was reported in 58% of the studies, and it was random in a minority of the studies (26%). The identification of target sample and its size (92%) was reported, whereas justification for sample size was less often given. In over two-thirds (69%) of the studies with identifiable response rate, it was below 75%. A variety of data collection procedures were used with large amount of missing data about the details of who distributed, recruited and collected the questionnaires. Methods to increase response rates were seldom described. Discussion about nonresponse, representativeness of the sample and generalisability of the results was missing in many studies. This review highlights the methodological challenges and developments that need to be considered in ensuring the use of valid information in developing health care through research findings. © 2015 Nordic College of Caring Science.

Geochemical results from stream-water and stream-sediment samples collected in Colorado and New Mexico

USGS Publications Warehouse

Hageman, Philip L.; Todd, Andrew S.; Smith, Kathleen S.; DeWitt, Ed; Zeigler, Mathew P.

2013-01-01

Scientists from the U.S. Geological Survey are studying the relationship between watershed lithology and stream-water chemistry. As part of this effort, 60 stream-water samples and 43 corresponding stream-sediment samples were collected in 2010 and 2011 from locations in Colorado and New Mexico. Sample sites were selected from small to midsize watersheds composed of a high percentage of one rock type or geologic unit. Stream-water and stream-sediment samples were collected, processed, preserved, and analyzed in a consistent manner. This report releases geochemical data for this phase of the study.

Comparison of Niskin vs. in situ approaches for analysis of gene expression in deep Mediterranean Sea water samples

NASA Astrophysics Data System (ADS)

Edgcomb, V. P.; Taylor, C.; Pachiadaki, M. G.; Honjo, S.; Engstrom, I.; Yakimov, M.

2016-07-01

Obtaining an accurate picture of microbial processes occurring in situ is essential for our understanding of marine biogeochemical cycles of global importance. Water samples are typically collected at depth and returned to the sea surface for processing and downstream experiments. Metatranscriptome analysis is one powerful approach for investigating metabolic activities of microorganisms in their habitat and which can be informative for determining responses of microbiota to disturbances such as the Deepwater Horizon oil spill. For studies of microbial processes occurring in the deep sea, however, sample handling, pressure, and other changes during sample recovery can subject microorganisms to physiological changes that alter the expression profile of labile messenger RNA. Here we report a comparison of gene expression profiles for whole microbial communities in a bathypelagic water column sample collected in the Eastern Mediterranean Sea using Niskin bottle sample collection and a new water column sampler for studies of marine microbial ecology, the Microbial Sampler - In Situ Incubation Device (MS-SID). For some taxa, gene expression profiles from samples collected and preserved in situ were significantly different from potentially more stressful Niskin sampling and preservation on deck. Some categories of transcribed genes also appear to be affected by sample handling more than others. This suggests that for future studies of marine microbial ecology, particularly targeting deep sea samples, an in situ sample collection and preservation approach should be considered.

Metabolomics: A Window for Understanding Long Term Physical Consequences of Distrubed Sleep and Hypothalamic Pituitary Adrenal Function in Posttraumatic Stress

DTIC Science & Technology

2017-09-01

performed on pre -collected plasma samples from a study that had a two- group cross-sectional design in which main comparisons were with medically...controls. Approach Metabolomic analysis will be performed on pre -collected plasma samples from a study that had a two- group cross-sectional design in...disturbances, and health. Metabolomic analysis will be performed on pre -collected plasma samples from a study that had a two- group cross-sectional

A Feasibility Study of the Collection of Unscheduled Maintenance Data Using Statistical Sampling Techniques.

DTIC Science & Technology

1985-09-01

TECHNIQUES THESIS Robert A. Heinlein Captain, USAF AFIT/GLM/LSM/855-32.- _ DTIC MU’noN ’ST.,TEMENT A A-ZELECTE Approved lt public teleo*I Al \\ Z #&N0V21...343" A FEASIBILITY STUDY OF THE COLLECTION OF UNSCHEDULED MAINTENANCE DATA USING STrATISTICAL SAMPLING TECHNIQUES THESIS L .9 Robe-t A. Heinlein...a AFIT/GLM/LSM/85S-32 A FEASIBILITY STUDY OF THE COLLECTION OF UNSCHEDULED MAINTENANCE DATA USING STATISTICAL SAMPLING TECHNIQUES THESIS

Collection of Aerosolized Human Cytokines Using Teflon® Filters

PubMed Central

McKenzie, Jennifer H.; McDevitt, James J.; Fabian, M. Patricia; Hwang, Grace M.; Milton, Donald K.

2012-01-01

Background Collection of exhaled breath samples for the analysis of inflammatory biomarkers is an important area of research aimed at improving our ability to diagnose, treat and understand the mechanisms of chronic pulmonary disease. Current collection methods based on condensation of water vapor from exhaled breath yield biomarker levels at or near the detection limits of immunoassays contributing to problems with reproducibility and validity of biomarker measurements. In this study, we compare the collection efficiency of two aerosol-to-liquid sampling devices to a filter-based collection method for recovery of dilute laboratory generated aerosols of human cytokines so as to identify potential alternatives to exhaled breath condensate collection. Methodology/Principal Findings Two aerosol-to-liquid sampling devices, the SKC® Biosampler and Omni 3000™, as well as Teflon® filters were used to collect aerosols of human cytokines generated using a HEART nebulizer and single-pass aerosol chamber setup in order to compare the collection efficiencies of these sampling methods. Additionally, methods for the use of Teflon® filters to collect and measure cytokines recovered from aerosols were developed and evaluated through use of a high-sensitivity multiplex immunoassay. Our results show successful collection of cytokines from pg/m3 aerosol concentrations using Teflon® filters and measurement of cytokine levels in the sub-picogram/mL concentration range using a multiplex immunoassay with sampling times less than 30 minutes. Significant degradation of cytokines was observed due to storage of cytokines in concentrated filter extract solutions as compared to storage of dry filters. Conclusions Use of filter collection methods resulted in significantly higher efficiency of collection than the two aerosol-to-liquid samplers evaluated in our study. The results of this study provide the foundation for a potential new technique to evaluate biomarkers of inflammation in exhaled breath samples. PMID:22574123

Sampling design and procedures for fixed surface-water sites in the Georgia-Florida coastal plain study unit, 1993

USGS Publications Warehouse

Hatzell, H.H.; Oaksford, E.T.; Asbury, C.E.

1995-01-01

The implementation of design guidelines for the National Water-Quality Assessment (NAWQA) Program has resulted in the development of new sampling procedures and the modification of existing procedures commonly used in the Water Resources Division of the U.S. Geological Survey. The Georgia-Florida Coastal Plain (GAFL) study unit began the intensive data collection phase of the program in October 1992. This report documents the implementation of the NAWQA guidelines by describing the sampling design and procedures for collecting surface-water samples in the GAFL study unit in 1993. This documentation is provided for agencies that use water-quality data and for future study units that will be entering the intensive phase of data collection. The sampling design is intended to account for large- and small-scale spatial variations, and temporal variations in water quality for the study area. Nine fixed sites were selected in drainage basins of different sizes and different land-use characteristics located in different land-resource provinces. Each of the nine fixed sites was sampled regularly for a combination of six constituent groups composed of physical and chemical constituents: field measurements, major ions and metals, nutrients, organic carbon, pesticides, and suspended sediments. Some sites were also sampled during high-flow conditions and storm events. Discussion of the sampling procedure is divided into three phases: sample collection, sample splitting, and sample processing. A cone splitter was used to split water samples for the analysis of the sampling constituent groups except organic carbon from approximately nine liters of stream water collected at four fixed sites that were sampled intensively. An example of the sample splitting schemes designed to provide the sample volumes required for each sample constituent group is described in detail. Information about onsite sample processing has been organized into a flowchart that describes a pathway for each of the constituent groups.

Use of self-collected capillary blood samples for islet autoantibody screening in relatives: a feasibility and acceptability study.

PubMed

Liu, Y; Rafkin, L E; Matheson, D; Henderson, C; Boulware, D; Besser, R E J; Ferrara, C; Yu, L; Steck, A K; Bingley, P J

2017-07-01

To evaluate the feasibility of using self-collected capillary blood samples for islet autoantibody testing to identify risk in relatives of people with Type 1 diabetes. Participants were recruited via the observational TrialNet Pathway to Prevention study, which screens and monitors relatives of people with Type 1 diabetes for islet autoantibodies. Relatives were sent kits for capillary blood collection, with written instructions, an online instructional video link and a questionnaire. Sera from capillary blood samples were tested for autoantibodies to glutamic acid decarboxylase, islet antigen-2, insulin and zinc transporter 8. 'Successful' sample collection was defined as obtaining sufficient volume and quality to provide definitive autoantibody results, including confirmation of positive results by repeat assay. In 240 relatives who returned samples, the median (range) age was 15.5 (1-49) years and 51% were male. Of these samples, 98% were sufficient for glutamic acid decarboxylase, islet antigen-2 and zinc transporter 8 autoantibody testing and 84% for insulin autoantibody testing and complete autoantibody screen. The upper 90% confidence bound for unsuccessful collection was 4.4% for glutamic acid decarboxylase, islet antigen-2 and/or zinc transporter 8 autoantibody assays, and 19.3% for insulin autoantibodies. Despite 43% of 220 questionnaire respondents finding capillary blood collection uncomfortable or painful, 82% preferred home self-collection of capillary blood samples compared with outpatient venepuncture (90% of those aged <8 years, 83% of those aged 9-18 years and 73% of those aged >18 years). The perceived difficulty of collecting capillary blood samples did not affect success rate. Self-collected capillary blood sampling offers a feasible alternative to venous sampling, with the potential to facilitate autoantibody screening for Type 1 diabetes risk. © 2017 Diabetes UK.

NHEXAS PHASE I MARYLAND STUDY--STANDARD OPERATING PROCEDURE FOR COLLECTION, STORAGE, AND SHIPMENT OF URINE SAMPLES FOR METAL, PESTICIDE, AND CREATININE ANALYSIS (F10)

EPA Science Inventory

The purpose of this SOP is to describe the procedures for collection, storage, and shipment of urine samples for metal, pesticides, and creatinine analysis. Samples were collected on Days 2 and 8 of each Cycle. The Day 2 sample was analyzed for metals and creatinine. The Day 8...

Molecular comparison of the sampling efficiency of four types of airborne bacterial samplers.

PubMed

Li, Kejun

2011-11-15

In the present study, indoor and outdoor air samples were collected using four types of air samplers often used for airborne bacterial sampling. These air samplers included two solid impactors (BioStage and RCS), one liquid impinger (BioSampler), and one filter sampler with two kinds of filters (a gelatin and a cellulose acetate filter). The collected air samples were further processed to analyze the diversity and abundance of culturable bacteria and total bacteria through standard culture techniques, denaturing gradient gel electrophoresis (DGGE) fingerprinting and quantitative polymerase chain reaction (qPCR) analysis. The DGGE analysis indicated that the air samples collected using the BioStage and RCS samplers have higher culturable bacterial diversity, whereas the samples collected using the BioSampler and the cellulose acetate filter sampler have higher total bacterial diversity. To obtain more information on the sampled bacteria, some gel bands were excised and sequenced. In terms of sampling efficiency, results from the qPCR tests indicated that the collected total bacterial concentration was higher in samples collected using the BioSampler and the cellulose acetate filter sampler. In conclusion, the sampling bias and efficiency of four kinds of air sampling systems were compared in the present study and the two solid impactors were concluded to be comparatively efficient for culturable bacterial sampling, whereas the liquid impactor and the cellulose acetate filter sampler were efficient for total bacterial sampling. Copyright © 2011 Elsevier B.V. All rights reserved.

NHEXAS PHASE I REGION 5 STUDY--QA ANALYTICAL RESULTS FOR VOCS IN REPLICATES

EPA Science Inventory

This data set includes analytical results for measurements of VOCs in 204 duplicate (replicate) samples. Measurements were made for up to 23 VOCs in samples of air, water, and blood. Duplicate samples (samples collected along with or next to the original samples) were collected t...

NHEXAS PHASE I ARIZONA STUDY--STANDARD OPERATING PROCEDURE FOR FIELD COLLECTION OF INDOOR FLOOR SAMPLES AND POST FIELD SAMPLE HANDLING (UA-F-7.1)

EPA Science Inventory

The purpose of this SOP is to establish a uniform procedure for the collection of indoor floor dust samples in the field. This procedure was followed to ensure consistent data retrieval of dust samples during the Arizona NHEXAS project and the "Border" study. Keywords: field; va...

SAMPLING ARTIFACT ESTIMATES FOR ALKANES, HOPANES, AND ALIPHATIC CARBOXYLIC ACIDS

EPA Science Inventory

Sampling artifacts for molecular markers from organic speciation of particulate matter were investigated by analyzing forty-one samples collected in Philadelphia as a part of the Northeast Oxidant and Particulate Study (NEOPS). Samples were collected using a high volume sampler ...

Comparison of Fecal Collection Methods for Microbiota Studies in Bangladesh

PubMed Central

Chen, Jun; Kibriya, Muhammad G.; Chen, Yu; Islam, Tariqul; Eunes, Mahbubul; Ahmed, Alauddin; Naher, Jabun; Rahman, Anisur; Amir, Amnon; Shi, Jianxin; Abnet, Christian C.; Nelson, Heidi; Knight, Rob; Chia, Nicholas; Ahsan, Habibul; Sinha, Rashmi

2017-01-01

ABSTRACT To our knowledge, fecal microbiota collection methods have not been evaluated in low- and middle-income countries. Therefore, we evaluated five different fecal sample collection methods for technical reproducibility, stability, and accuracy within the Health Effects of Arsenic Longitudinal Study (HEALS) in Bangladesh. Fifty participants from the HEALS provided fecal samples in the clinic which were aliquoted into no solution, 95% ethanol, RNAlater, postdevelopment fecal occult blood test (FOBT) cards, and fecal immunochemical test (FIT) tubes. Half of the aliquots were frozen immediately at −80°C (day 0) and the remaining samples were left at ambient temperature for 96 h and then frozen (day 4). Intraclass correlation coefficients (ICC) were calculated for the relative abundances of the top three phyla, for two alpha diversity measures, and for four beta diversity measures. The duplicate samples had relatively high ICCs for technical reproducibility at day 0 and day 4 (range, 0.79 to 0.99). The FOBT card and samples preserved in RNAlater and 95% ethanol had the highest ICCs for stability over 4 days. The FIT tube had lower stability measures overall. In comparison to the “gold standard” method using immediately frozen fecal samples with no solution, the ICCs for many of the microbial metrics were low, but the rank order appeared to be preserved as seen by the Spearman correlation. The FOBT cards, 95% ethanol, and RNAlater were effective fecal preservatives. These fecal collection methods are optimal for future cohort studies, particularly in low- and middle-income countries. IMPORTANCE The collection of fecal samples in prospective cohort studies is essential to provide the opportunity to study the effect of the human microbiota on numerous health conditions. However, these collection methods have not been adequately tested in low- and middle-income countries. We present estimates of technical reproducibility, stability at ambient temperature for 4 days, and accuracy comparing a “gold standard” for fecal samples in no solution, 95% ethanol, RNAlater, postdevelopment fecal occult blood test cards, and fecal immunochemical test tubes in a study conducted in Bangladesh. Fecal occult blood test cards and fecal samples stored in 95% ethanol or RNAlater adequately preserve fecal samples in this setting. Therefore, new studies in low- and middle-income countries should include collection of fecal samples using fecal occult blood test cards, 95% ethanol, or RNAlater for prospective cohort studies. PMID:28258145

[Adolescents find it easy to collect their own samples to study sexually transmitted infections].

PubMed

Huneeus, Andrea; Fernández, Mario I; Schilling, Andrea; Parra, Paulina; Zakharova, Aleksandra

2017-04-01

As alternative for patients that fear genital examination, we assessed adolescent's comfort and ease with self-collected samples for nucleic acid amplification testing for sexually transmitted infections. Sexually active Chilean adolescents and youth under 25 years (174 males and 117 females) were enrolled. Females used self-collected vaginal swabs and males collected first-stream urine. A satisfaction survey evaluating self-sampling system was applied. Self-collection was considered easy in 99.3% of the interviewees (CI 95% 0.88-0.98). In women, 79.3% preferred vaginal self-collected samples than pelvic exam (CI 95% 0.73-0.85). In men, 80.3% preferred self-collected first-stream urine to urethral swabs (CI 95% 0.73-0.87). Assuming that self-collected sampling were available, 89.6% of women (CI 95% 0.85-0.94) and 93.2% of men (CI 95% 0.89-0.98) would be prone to be tested more often. Ease of self-collected sampling is not associated with age, gender, educational level or poverty. Chile currently does not have sexually transmitted infections surveillance or screening programs for youth and adolescents. Given self-collected sampling's good acceptability, it could be successfully used when these programs are implemented.

Capillary blood sampling as an alternative to venipuncture in the assessment of serum 25 hydroxyvitamin D levels.

PubMed

Dayre McNally, J; Matheson, Loren A; Sankaran, Koravangattu; Rosenberg, Alan M

2008-11-01

This study compared 25-hydroxyvitamin D [25(OH)D] measurements in capillary and venous blood samples collected, respectively by fingerprick and venipuncture. Capillary blood for measuring 25(OH)D has potential advantages by reducing blood volume required (2mL versus 0.3mL for venipuncture and capillary sampling, respectively), facilitating blood collection for those populations in whom venipuncture is difficult (e.g. infants and children), improving patient convenience and reducing costs associated with phlebotomy. The results demonstrated a highly significant relationship between 25(OH)D levels in serum derived from venous and capillary blood samples (r(2)=0.901). Despite statistically higher 25(OH)D levels in fingerprick samples (108+/-9nmol/L) compared with venipuncture samples (90+/-7nmol/L), the correlation between venous and capillary samples provides support for this approach as a practical alternative to venipuncture for vitamin D determination. However, clinical application may require the incorporation of a correction factor for the assessment of insufficiency, and research studies should avoid using the two methods interchangeably. Studying vitamin D's role in health and disease requires collection techniques and measurement methods that are reliable, reproducible, easily accessible, inexpensive and minimally burdensome to the patient. The option to collect patient samples by fingerprick may facilitate the collection process.

Reproducibility of urinary biomarkers in multiple 24-h urine samples.

PubMed

Sun, Qi; Bertrand, Kimberly A; Franke, Adrian A; Rosner, Bernard; Curhan, Gary C; Willett, Walter C

2017-01-01

Limited knowledge regarding the reproducibility of biomarkers in 24-h urine samples has hindered the collection and use of the samples in epidemiologic studies. We aimed to evaluate the reproducibility of various markers in repeat 24-h urine samples. We calculated intraclass correlation coefficients (ICCs) of biomarkers measured in 24-h urine samples that were collected in 3168 participants in the NHS (Nurses' Health Study), NHSII (Nurses' Health Study II), and Health Professionals Follow-Up Study. In 742 women with 4 samples each collected over the course of 1 y, ICCs for sodium were 0.32 in the NHS and 0.34 in the NHSII. In 2439 men and women with 2 samples each collected over 1 wk to ≥1 mo, the ICCs ranged from 0.33 to 0.68 for sodium at various intervals between collections. The urinary excretion of potassium, calcium, magnesium, phosphate, sulfate, and other urinary markers showed generally higher reproducibility (ICCs >0.4). In 47 women with two 24-h urine samples, ICCs ranged from 0.15 (catechin) to 0.75 (enterolactone) for polyphenol metabolites. For phthalates, ICCs were generally ≤0.26 except for monobenzyl phthalate (ICC: 0.55), whereas the ICC was 0.39 for bisphenol A (BPA). We further estimated that, for the large majority of the biomarkers, the mean of three 24-h urine samples could provide a correlation of ≥0.8 with true long-term urinary excretion. These data suggest that the urinary excretion of various biomarkers, such as minerals, electrolytes, most polyphenols, and BPA, is reasonably reproducible in 24-h urine samples that are collected within a few days or ≤1 y. Our findings show that three 24-h samples are sufficient for the measurement of long-term exposure status in epidemiologic studies. © 2017 American Society for Nutrition.

Reproducibility of urinary biomarkers in multiple 24-h urine samples123

PubMed Central

Sun, Qi; Bertrand, Kimberly A; Franke, Adrian A; Rosner, Bernard; Curhan, Gary C; Willett, Walter C

2017-01-01

Background: Limited knowledge regarding the reproducibility of biomarkers in 24-h urine samples has hindered the collection and use of the samples in epidemiologic studies. Objective: We aimed to evaluate the reproducibility of various markers in repeat 24-h urine samples. Design: We calculated intraclass correlation coefficients (ICCs) of biomarkers measured in 24-h urine samples that were collected in 3168 participants in the NHS (Nurses’ Health Study), NHSII (Nurses’ Health Study II), and Health Professionals Follow-Up Study. Results: In 742 women with 4 samples each collected over the course of 1 y, ICCs for sodium were 0.32 in the NHS and 0.34 in the NHSII. In 2439 men and women with 2 samples each collected over 1 wk to ≥1 mo, the ICCs ranged from 0.33 to 0.68 for sodium at various intervals between collections. The urinary excretion of potassium, calcium, magnesium, phosphate, sulfate, and other urinary markers showed generally higher reproducibility (ICCs >0.4). In 47 women with two 24-h urine samples, ICCs ranged from 0.15 (catechin) to 0.75 (enterolactone) for polyphenol metabolites. For phthalates, ICCs were generally ≤0.26 except for monobenzyl phthalate (ICC: 0.55), whereas the ICC was 0.39 for bisphenol A (BPA). We further estimated that, for the large majority of the biomarkers, the mean of three 24-h urine samples could provide a correlation of ≥0.8 with true long-term urinary excretion. Conclusions: These data suggest that the urinary excretion of various biomarkers, such as minerals, electrolytes, most polyphenols, and BPA, is reasonably reproducible in 24-h urine samples that are collected within a few days or ≤1 y. Our findings show that three 24-h samples are sufficient for the measurement of long-term exposure status in epidemiologic studies. PMID:28049663

Airborne detection and quantification of swine influenza a virus in air samples collected inside, outside and downwind from swine barns.

PubMed

Corzo, Cesar A; Culhane, Marie; Dee, Scott; Morrison, Robert B; Torremorell, Montserrat

2013-01-01

Airborne transmission of influenza A virus (IAV) in swine is speculated to be an important route of virus dissemination, but data are scarce. This study attempted to detect and quantify airborne IAV by virus isolation and RRT-PCR in air samples collected under field conditions. This was accomplished by collecting air samples from four acutely infected pig farms and locating air samplers inside the barns, at the external exhaust fans and downwind from the farms at distances up to 2.1 km. IAV was detected in air samples collected in 3 out of 4 farms included in the study. Isolation of IAV was possible from air samples collected inside the barn at two of the farms and in one farm from the exhausted air. Between 13% and 100% of samples collected inside the barns tested RRT-PCR positive with an average viral load of 3.20E+05 IAV RNA copies/m³ of air. Percentage of exhaust positive air samples also ranged between 13% and 100% with an average viral load of 1.79E+04 RNA copies/m³ of air. Influenza virus RNA was detected in air samples collected between 1.5 and 2.1 Km away from the farms with viral levels significantly lower at 4.65E+03 RNA copies/m³. H1N1, H1N2 and H3N2 subtypes were detected in the air samples and the hemagglutinin gene sequences identified in the swine samples matched those in aerosols providing evidence that the viruses detected in the aerosols originated from the pigs in the farms under study. Overall our results indicate that pigs can be a source of IAV infectious aerosols and that these aerosols can be exhausted from pig barns and be transported downwind. The results from this study provide evidence of the risk of aerosol transmission in pigs under field conditions.

Airborne Detection and Quantification of Swine Influenza A Virus in Air Samples Collected Inside, Outside and Downwind from Swine Barns

PubMed Central

Corzo, Cesar A.; Culhane, Marie; Dee, Scott; Morrison, Robert B.; Torremorell, Montserrat

2013-01-01

Airborne transmission of influenza A virus (IAV) in swine is speculated to be an important route of virus dissemination, but data are scarce. This study attempted to detect and quantify airborne IAV by virus isolation and RRT-PCR in air samples collected under field conditions. This was accomplished by collecting air samples from four acutely infected pig farms and locating air samplers inside the barns, at the external exhaust fans and downwind from the farms at distances up to 2.1 km. IAV was detected in air samples collected in 3 out of 4 farms included in the study. Isolation of IAV was possible from air samples collected inside the barn at two of the farms and in one farm from the exhausted air. Between 13% and 100% of samples collected inside the barns tested RRT-PCR positive with an average viral load of 3.20E+05 IAV RNA copies/m3 of air. Percentage of exhaust positive air samples also ranged between 13% and 100% with an average viral load of 1.79E+04 RNA copies/m3 of air. Influenza virus RNA was detected in air samples collected between 1.5 and 2.1 Km away from the farms with viral levels significantly lower at 4.65E+03 RNA copies/m3. H1N1, H1N2 and H3N2 subtypes were detected in the air samples and the hemagglutinin gene sequences identified in the swine samples matched those in aerosols providing evidence that the viruses detected in the aerosols originated from the pigs in the farms under study. Overall our results indicate that pigs can be a source of IAV infectious aerosols and that these aerosols can be exhausted from pig barns and be transported downwind. The results from this study provide evidence of the risk of aerosol transmission in pigs under field conditions. PMID:23951164

Blood sample collection and patient identification demand improvement: a questionnaire study of preanalytical practices in hospital wards and laboratories.

PubMed

Wallin, Olof; Söderberg, Johan; Van Guelpen, Bethany; Stenlund, Hans; Grankvist, Kjell; Brulin, Christine

2010-09-01

Scand J Caring Sci; 2010; 24; 581-591 
 Blood sample collection and patient identification demand improvement: a questionnaire study of preanalytical practices in hospital wards and laboratories   Most errors in venous blood testing result from human mistakes occurring before the sample reach the laboratory.   To survey venous blood sampling (VBS) practices in hospital wards and to compare practices with hospital laboratories.   Staff in two hospitals (all wards) and two hospital laboratories (314 respondents, response rate 94%), completed a questionnaire addressing issues relevant to the collection of venous blood samples for clinical chemistry testing.   The findings suggest that instructions for patient identification and the collection of venous blood samples were not always followed. For example, 79% of the respondents reported the undesirable practice (UDP) of not always using wristbands for patient identification. Similarly, 87% of the respondents noted the UDP of removing venous stasis after the sampling is finished. Compared with the ward staff, a significantly higher proportion of the laboratory staff reported desirable practices regarding the collection of venous blood samples. Neither education nor the existence of established sampling routines was clearly associated with VBS practices among the ward staff.   The results of this study, the first of its kind, suggest that a clinically important risk of error is associated with VBS in the surveyed wards. Most important is the risk of misidentification of patients. Quality improvement of blood sample collection is clearly needed, particularly in hospital wards. © 2009 The Authors. Journal compilation © 2009 Nordic College of Caring Science.

The Importance of Meteorite Collections to Sample Return Missions: Past, Present, and Future Considerations

NASA Technical Reports Server (NTRS)

Welzenbach, L. C.; McCoy, T. J.; Glavin, D. P.; Dworkin, J. P.; Abell, P. A.

2012-01-01

While much of the scientific community s current attention is drawn to sample return missions, it is the existing meteorite and cosmic dust collections that both provide the paradigms to be tested by these missions and the context for interpreting the results. Recent sample returns from the Stardust and Hayabusa missions provided us with new materials and insights about our Solar System history and processes. As an example, Stardust sampled CAIs among the population of cometary grains, requiring extensive and unexpected radial mixing in the early solar nebula. This finding would not have been possible, however, without extensive studies of meteoritic CAIs that established their high-temperature, inner Solar System formation. Samples returned by Stardust also revealed the first evidence of a cometary amino acid, a discovery that would not have been possible with current in situ flight instrument technology. The Hayabusa mission provided the final evidence linking ordinary chondrites and S asteroids, a hypothesis that developed from centuries of collection and laboratory and ground-based telescopic studies. In addition to these scientific findings, studies of existing meteorite collections have defined and refined the analytical techniques essential to studying returned samples. As an example, the fortuitous fall of the Allende CV3 and Murchison CM2 chondrites within months before the return of Apollo samples allowed testing of new state-of-the-art analytical facilities. The results of those studies not only prepared us to better study lunar materials, but unanticipated discoveries changed many of our concepts about the earliest history and processes of the solar nebula. This synergy between existing collections and future space exploration is certainly not limited to sample return missions. Laboratory studies confirmed the existence of meteorites from Mars and raised the provocative possibility of preservation of ancient microbial life. The laboratory studies in turn led to a new wave of Mars exploration that ultimately could lead to sample return focused on evidence for past or present life. This partnership between collections and missions will be increasingly important in the coming decades as we discover new questions to be addressed and identify targets for for both robotic and human exploration . Nowhere is this more true than in the ultimate search for the abiotic and biotic processes that produced life. Existing collections also provide the essential materials for developing and testing new analytical schemes to detect the rare markers of life and distinguish them from abiotic processes. Large collections of meteorites and the new types being identified within these collections, which come to us at a fraction of the cost of a sample return mission, will continue to shape the objectives of future missions and provide new ways of interpreting returned samples.

NHEXAS PHASE I ARIZONA STUDY--STANDARD OPERATING PROCEDURE FOR FIELD COLLECTION OF RESIDENTIAL FOUNDATION SOIL SAMPLES (UA-F-6.1)

EPA Science Inventory

The purpose of this SOP is to establish a uniform procedure for the collection of residential foundation soil samples in the field. This procedure was followed to ensure consistent and reliable collection of outdoor soil samples during the Arizona NHEXAS project and the "Border"...

Pesticide-sampling equipment, sample-collection and processing procedures, and water-quality data at Chicod Creek, North Carolina, 1992

USGS Publications Warehouse

Manning, T.K.; Smith, K.E.; Wood, C.D.; Williams, J.B.

1994-01-01

Water-quality samples were collected from Chicod Creek in the Coastal Plain Province of North Carolina during the summer of 1992 as part of the U.S. Geological Survey's National Water-Quality Assessment Program. Chicod Creek is in the Albemarle-Pamlico drainage area, one of four study units designated to test equipment and procedures for collecting and processing samples for the solid-phase extraction of selected pesticides, The equipment and procedures were used to isolate 47 pesticides, including organonitrogen, carbamate, organochlorine, organophosphate, and other compounds, targeted to be analyzed by gas chromatography/mass spectrometry. Sample-collection and processing equipment equipment cleaning and set-up procedures, methods pertaining to collecting, splitting, and solid-phase extraction of samples, and water-quality data resulting from the field test are presented in this report Most problems encountered during this intensive sampling exercise were operational difficulties relating to equipment used to process samples.

U.S.-MEXICO BORDER PROGRAM ARIZONA BORDER STUDY--STANDARD OPERATING PROCEDURE FOR FIELD COLLECTION AND POST-FIELD SAMPLE HANDLING OF INDOOR FLOOR DUST SAMPLES (UA-F-7.1)

EPA Science Inventory

The purpose of this SOP is to establish a uniform procedure for the collection of indoor floor dust samples in the field. This procedure was followed to ensure consistent data retrieval of dust samples during the Arizona NHEXAS project and the Border study. Keywords: field; vacu...

Advanced Navigation Strategies for an Asteroid Sample Return Mission

NASA Technical Reports Server (NTRS)

Bauman, J.; Getzandanner, K.; Williams, B.; Williams, K.

2011-01-01

The proximity operations phases of a sample return mission to an asteroid have been analyzed using advanced navigation techniques derived from experience gained in planetary exploration. These techniques rely on tracking types such as Earth-based radio metric Doppler and ranging, spacecraft-based ranging, and optical navigation using images of landmarks on the asteroid surface. Navigation strategies for the orbital phases leading up to sample collection, the touch down for collecting the sample, and the post sample collection phase at the asteroid are included. Options for successfully executing the phases are studied using covariance analysis and Monte Carlo simulations of an example mission to the near Earth asteroid 4660 Nereus. Two landing options were studied including trajectories with either one or two bums from orbit to the surface. Additionally, a comparison of post-sample collection strategies is presented. These strategies include remaining in orbit about the asteroid or standing-off a given distance until departure to Earth.

Preliminary assessment of an economical fugitive road dust sampler for the collection of bulk samples for geochemical analysis.

PubMed

Witt, Emitt C; Wronkiewicz, David J; Shi, Honglan

2013-01-01

Fugitive road dust collection for chemical analysis and interpretation has been limited by the quantity and representativeness of samples. Traditional methods of fugitive dust collection generally focus on point-collections that limit data interpretation to a small area or require the investigator to make gross assumptions about the origin of the sample collected. These collection methods often produce a limited quantity of sample that may hinder efforts to characterize the samples by multiple geochemical techniques, preserve a reference archive, and provide a spatially integrated characterization of the road dust health hazard. To achieve a "better sampling" for fugitive road dust studies, a cyclonic fugitive dust (CFD) sampler was constructed and tested. Through repeated and identical sample collection routes at two collection heights (50.8 and 88.9 cm above the road surface), the products of the CFD sampler were characterized using particle size and chemical analysis. The average particle size collected by the cyclone was 17.9 μm, whereas particles collected by a secondary filter were 0.625 μm. No significant difference was observed between the two sample heights tested and duplicates collected at the same height; however, greater sample quantity was achieved at 50.8 cm above the road surface than at 88.9 cm. The cyclone effectively removed 94% of the particles >1 μm, which substantially reduced the loading on the secondary filter used to collect the finer particles; therefore, suction is maintained for longer periods of time, allowing for an average sample collection rate of about 2 g mi. Copyright © by the American Society of Agronomy, Crop Science Society of America, and Soil Science Society of America, Inc.

Extracting samples of high diversity from thematic collections of large gene banks using a genetic-distance based approach

PubMed Central

2010-01-01

Background Breeding programs are usually reluctant to evaluate and use germplasm accessions other than the elite materials belonging to their advanced populations. The concept of core collections has been proposed to facilitate the access of potential users to samples of small sizes, representative of the genetic variability contained within the gene pool of a specific crop. The eventual large size of a core collection perpetuates the problem it was originally proposed to solve. The present study suggests that, in addition to the classic core collection concept, thematic core collections should be also developed for a specific crop, composed of a limited number of accessions, with a manageable size. Results The thematic core collection obtained meets the minimum requirements for a core sample - maintenance of at least 80% of the allelic richness of the thematic collection, with, approximately, 15% of its size. The method was compared with other methodologies based on the M strategy, and also with a core collection generated by random sampling. Higher proportions of retained alleles (in a core collection of equal size) or similar proportions of retained alleles (in a core collection of smaller size) were detected in the two methods based on the M strategy compared to the proposed methodology. Core sub-collections constructed by different methods were compared regarding the increase or maintenance of phenotypic diversity. No change on phenotypic diversity was detected by measuring the trait "Weight of 100 Seeds", for the tested sampling methods. Effects on linkage disequilibrium between unlinked microsatellite loci, due to sampling, are discussed. Conclusions Building of a thematic core collection was here defined by prior selection of accessions which are diverse for the trait of interest, and then by pairwise genetic distances, estimated by DNA polymorphism analysis at molecular marker loci. The resulting thematic core collection potentially reflects the maximum allele richness with the smallest sample size from a larger thematic collection. As an example, we used the development of a thematic core collection for drought tolerance in rice. It is expected that such thematic collections increase the use of germplasm by breeding programs and facilitate the study of the traits under consideration. The definition of a core collection to study drought resistance is a valuable contribution towards the understanding of the genetic control and the physiological mechanisms involved in water use efficiency in plants. PMID:20576152

Utility of capillary microsampling for rat pharmacokinetic studies: Comparison of tail-vein bleed to jugular vein cannula sampling.

PubMed

Korfmacher, Walter; Luo, Yongyi; Ho, Stacy; Sun, Wei; Shen, Liduo; Wang, Jie; Wu, Zhongtao; Guo, Yang; Snow, Gregory; O'Shea, Thomas

2015-01-01

Serial sampling methods have been used for rat pharmacokinetic (PK) studies for over 20 years. Currently, it is still common to take 200-250 μL of blood at each timepoint when performing a PK study in rats and using serial sampling. While several techniques have been employed for collecting blood samples from rats, there is only limited published data to compare these methods. Recently, microsampling (≤ 50 μL) techniques have been reported as an alternative process for collecting blood samples from rats. In this report, five compounds were dosed orally into rats. For three proprietary compounds, jugular vein cannula (JVC) sampling was used to collect whole blood and plasma samples and capillary microsampling (CMS) was used to collect blood samples from the tail vein of the same animal. For the two other compounds, marketed drugs fluoxetine and glipizide, JVC sampling was used to collect both whole blood and blood CMS samples while tail-vein sampling from the same rats was also used to collect both whole blood and blood CMS samples. For the three proprietary compounds, the blood AUC as well as the blood concentration-time profile that were obtained from the tail vein were different from those obtained via JVC sampling. For fluoxetine, the blood total exposure (AUC) was not statistically different when comparing tail-vein sampling to JVC sampling, however the blood concentration-time profile that was obtained from the tail vein was different than the one obtained from JVC sampling. For glipizide, the blood AUC and concentration-time profile were not statistically different when comparing the tail-vein sampling to the JVC sampling. For both fluoxetine and glipizide, the blood concentration profiles obtained from CMS were equivalent to the blood concentration profiles obtained from the standard whole blood sampling, collected at the same sampling site. The data in this report provide strong evidence that blood CMS is a valuable small volume blood sampling approach for rats and that it provides results for test compound concentrations that are equivalent to those obtained from traditional whole blood sampling. The data also suggest that for some compounds, the concentration-time profile that is obtained for a test compound based on sampling from a rat tail vein may be different from that obtained from rat JVC sampling. In some cases, this shift in the concentration-time profile will result in different PK parameters for the test compound. Based on these observations, it is recommended that a consistent blood sampling method should be used for serial microsampling in discovery rat PK studies when testing multiple new chemical entities. If the rat tail vein sampling method is selected for PK screening, then conducting a bridging study on the lead compound is recommended to confirm that the rat PK obtained from JVC sampling is comparable to the tail-vein sampling. Copyright © 2015 Elsevier Inc. All rights reserved.

The ex situ conservation strategy for endangered plant species: small samples, storage and lessons from seed collected from US national parks

USDA-ARS?s Scientific Manuscript database

Ex situ collections of seeds sampled from wild populations provide germplasm for restoration and for scientific study about biological diversity. Seed collections of endangered species are urgent because they might forestall ever-dwindling population size and genetic diversity. However, collecting ...

A STRINGENT COMPARISON OF SAMPLING AND ANALYSIS METHODS FOR VOCS IN AMBIENT AIR

EPA Science Inventory

A carefully designed study was conducted during the summer of 1998 to simultaneously collect samples of ambient air by canisters and compare the analysis results to direct sorbent preconcentration results taken at the time of sample collection. A total of 32 1-h sample sets we...

Study design and percent recoveries of anthropogenic organic compounds with and without the addition of ascorbic acid to preserve water samples containing free chlorine, 2004-06

USGS Publications Warehouse

Valder, Joshua F.; Delzer, Gregory C.; Price, Curtis V.; Sandstrom, Mark W.

2008-01-01

The National Water-Quality Assessment (NAWQA) Program of the U.S. Geological Survey (USGS) began implementing Source Water-Quality Assessments (SWQAs) in 2002 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 for SWQA studies, source water is the raw (ambient) water collected at the supply well prior to water treatment (for ground water) or the raw (ambient) water collected from the river near the intake (for surface water). Finished water is the water that is treated, which typically involves, in part, the addition of chlorine or other disinfection chemicals to remove pathogens, and is ready to be delivered to consumers. Finished water is collected before the water enters the distribution system. This report describes the study design and percent recoveries of anthropogenic organic compounds (AOCs) with and without the addition of ascorbic acid to preserve water samples containing free chlorine. The percent recoveries were determined by using analytical results from a laboratory study conducted in 2004 by the USGS's National Water Quality Laboratory (NWQL) and from data collected during 2004-06 for a field study currently (2008) being conducted by the USGS's NAWQA Program. The laboratory study was designed to determine if preserving samples with ascorbic acid (quenching samples) adversely affects analytical performance under controlled conditions. During the laboratory study, eight samples of reagent water were spiked for each of five analytical schedules evaluated. Percent recoveries from these samples were then compared in two ways: (1) four quenched reagent spiked samples analyzed on day 0 were compared with four quenched reagent spiked samples analyzed on day 7 or 14, and (2) the combined eight quenched reagent spiked samples analyzed on day 0, 7, or 14 were compared with eight laboratory reagent spikes (LRSs). Percent recoveries from the quenched reagent spiked samples that were analyzed at two different times (day 0 and day 7 or 14) can be used to determine the stability of the quenched samples held for an amount of time representative of the normal amount of time between sample collection and analysis. The comparison between the quenched reagent spiked samples and the LRSs can be used to determine if quenching samples adversely affects the analytical performance under controlled conditions. The field study began in 2004 and is continuing today (February 2008) to characterize the effect of quenching on field-matrix spike recoveries and to better understand the potential oxidation and transformation of 277 AOCs. Three types of samples were collected from 11 NAWQA Study Units across the Nation: (1) quenched finished-water samples (not spiked), (2) quenched finished-water spiked samples, and (3) nonquenched finished-water spiked samples. Percent recoveries of AOCs in quenched and nonquenched finished-water spiked samples collected during 2004-06 are presented. Comparisons of percent recoveries between quenched and nonquenched spiked samples can be used to show how quenching affects finished-water samples. A maximum of 6 surface-water and 7 ground-water quenched finished-water spiked samples paired with nonquenched finished-water spiked samples were analyzed. Analytical results for the field study are presented in two ways: (1) by surface-water supplies or ground-water supplies, and (2) by use (or source) group category for surface-water and ground-water supplies. Graphical representations of percent recoveries for the quenched and nonquenched finished-water spiked samples also are presented.

Viability of Mycobacterium leprae in the environment and its role in leprosy dissemination.

PubMed

Mohanty, Partha Sarathi; Naaz, Farah; Katara, Dheeraj; Misba, Lama; Kumar, Dilip; Dwivedi, Deepak Kumar; Tiwari, Amit Kumar; Chauhan, Devendra Singh; Bansal, Avi Kumar; Tripathy, Srikanth Prasad; Katoch, Kiran

2016-01-01

Leprosy, a chronic disease caused by Mycobacterium leprae, is a public health concern in certain countries, including India. Although the prevalence of the disease has fallen drastically over time, new cases continue to occur at nearly the same rate in many regions. Several endemic pockets have been observed in India and elsewhere. The precise dynamics of leprosy transmission are still not clearly understood. Both live bacilli as well as M. leprae DNA have been detected in the soil and water of endemic areas; they possibly play an important role in disease transmission. To study the occurrence of viable M. leprae in environmental samples collected from areas of residence of patients with active leprosy. The study was conducted on 169 newly diagnosed leprosy patients in Ghatampur, Uttar Pradesh, India. Soil and water samples were collected from their areas of residence using a standardized protocol. An equal number of soil and water samples were also collected from non-patient areas of the same or adjoining villages. The environmental samples collected from the patients surroundings were subjected to 16S ribosomal RNA gene analysis after obtaining informed consent. About a quarter of the environmental samples collected from patient areas, (25.4% of soil samples and 24.2% of water samples) were found to be positive for specific 16S ribosomal RNA genes of M. leprae. Environmental samples collected from non-patient areas were all found negative for M. leprae 16S ribosomal RNA genes. The major limitation of the study was that the sample size was small. The study demonstrated the presence of viable strains of M. leprae in skin smear samples of paucibacillary patients and multibacillary patients, as well as in the environmental samples obtained from around their houses. This could play an important role in the continued transmission of leprosy.

The Astromaterials X-Ray Computed Tomography Laboratory at Johnson Space Center

NASA Technical Reports Server (NTRS)

Zeigler, R. A.; Coleff, D. M.; McCubbin, F. M.

2017-01-01

The Astromaterials Acquisition and Curation Office at NASA's Johnson Space Center (hereafter JSC curation) is the past, present, and future home of all of NASA's astromaterials sample collections. JSC curation currently houses all or part of nine different sample collections: (1) Apollo samples (1969), (2) Lunar samples (1972), (3) Antarctic meteorites (1976), (4) Cosmic Dust particles (1981), (5) Microparticle Impact Collection (1985), (6) Genesis solar wind atoms (2004); (7) Stardust comet Wild-2 particles (2006), (8) Stardust interstellar particles (2006), and (9) Hayabusa asteroid Itokawa particles (2010). Each sample collection is housed in a dedicated clean room, or suite of clean rooms, that is tailored to the requirements of that sample collection. Our primary goals are to maintain the long-term integrity of the samples and ensure that the samples are distributed for scientific study in a fair, timely, and responsible manner, thus maximizing the return on each sample. Part of the curation process is planning for the future, and we also perform fundamental research in advanced curation initiatives. Advanced Curation is tasked with developing procedures, technology, and data sets necessary for curating new types of sample collections, or getting new results from existing sample collections [2]. We are (and have been) planning for future curation, including cold curation, extended curation of ices and volatiles, curation of samples with special chemical considerations such as perchlorate-rich samples, and curation of organically- and biologically-sensitive samples. As part of these advanced curation efforts we are augmenting our analytical facilities as well. A micro X-Ray computed tomography (micro-XCT) laboratory dedicated to the study of astromaterials will be coming online this spring within the JSC Curation office, and we plan to add additional facilities that will enable nondestructive (or minimally-destructive) analyses of astromaterials in the near future (micro-XRF, confocal imaging Raman Spectroscopy). These facilities will be available to: (1) develop sample handling and storage techniques for future sample return missions; (2) be utilized by PET for future sample return missions; (3) be used for retroactive PET (Positron Emission Tomography)-style analyses of our existing collections; and (4) for periodic assessments of the existing sample collections. Here we describe the new micro-XCT system, as well as some of the ongoing or anticipated applications of the instrument.

Acceptability of self-collected versus provider-collected sampling for HPV DNA testing among women in rural El Salvador.

PubMed

Rosenbaum, Alan J; Gage, Julia C; Alfaro, Karla M; Ditzian, Lauren R; Maza, Mauricio; Scarinci, Isabel C; Felix, Juan C; Castle, Philip E; Villalta, Sofia; Miranda, Esmeralda; Cremer, Miriam L

2014-08-01

To determine the acceptability of self-collected versus provider-collected sampling among women participating in public sector HPV-based cervical cancer screening in El Salvador. Two thousand women aged 30-49 years underwent self-collected and provider-collected sampling with careHPV between October 2012 and March 2013 (Qiagen, Gaithersburg, MD, USA). After sample collection, a random sample of women (n=518) were asked about their experience. Participants were questioned regarding sampling method preference, previous cervical cancer screening, HPV and cervical cancer knowledge, HPV risk factors, and demographic information. All 518 women approached to participate in this questionnaire study agreed and were enrolled, 27.8% (142 of 511 responding) of whom had not received cervical cancer screening within the past 3 years and were considered under-screened. Overall, 38.8% (n=201) preferred self-collection and 31.9% (n=165) preferred provider collection. Self-collection preference was associated with prior tubal ligation, HPV knowledge, future self-sampling preference, and future home-screening preference (P<0.05). Reasons for self-collection preference included privacy/embarrassment, ease, and less pain; reasons cited for provider-collection preference were result accuracy and provider knowledge/experience. Self-sampling was found to be acceptable, therefore screening programs could consider offering this option either in the clinic or at home. Self-sampling at home may increase coverage in low-resource countries and reduce the burden that screening places upon clinical infrastructure. Copyright © 2014 International Federation of Gynecology and Obstetrics. All rights reserved.

Human blood RNA stabilization in samples collected and transported for a large biobank

PubMed Central

2012-01-01

Background The Norwegian Mother and Child Cohort Study (MoBa) is a nation-wide population-based pregnancy cohort initiated in 1999, comprising more than 108.000 pregnancies recruited between 1999 and 2008. In this study we evaluated the feasibility of integrating RNA analyses into existing MoBa protocols. We compared two different blood RNA collection tube systems – the PAXgene™ Blood RNA system and the Tempus™ Blood RNA system - and assessed the effects of suboptimal blood volumes in collection tubes and of transportation of blood samples by standard mail. Endpoints to characterize the samples were RNA quality and yield, and the RNA transcript stability of selected genes. Findings High-quality RNA could be extracted from blood samples stabilized with both PAXgene and Tempus tubes. The RNA yields obtained from the blood samples collected in Tempus tubes were consistently higher than from PAXgene tubes. Higher RNA yields were obtained from cord blood (3 – 4 times) compared to adult blood with both types of tubes. Transportation of samples by standard mail had moderate effects on RNA quality and RNA transcript stability; the overall RNA quality of the transported samples was high. Some unexplained changes in gene expression were noted, which seemed to correlate with suboptimal blood volumes collected in the tubes. Temperature variations during transportation may also be of some importance. Conclusions Our results strongly suggest that special collection tubes are necessary for RNA stabilization and they should be used for establishing new biobanks. We also show that the 50,000 samples collected in the MoBa biobank provide RNA of high quality and in sufficient amounts to allow gene expression analyses for studying the association of disease with altered patterns of gene expression. PMID:22988904

Comparison of Collection Methods for Fecal Samples for Discovery Metabolomics in Epidemiologic Studies.

PubMed

Loftfield, Erikka; Vogtmann, Emily; Sampson, Joshua N; Moore, Steven C; Nelson, Heidi; Knight, Rob; Chia, Nicholas; Sinha, Rashmi

2016-11-01

The gut metabolome may be associated with the incidence and progression of numerous diseases. The composition of the gut metabolome can be captured by measuring metabolite levels in the feces. However, there are little data describing the effect of fecal sample collection methods on metabolomic measures. We collected fecal samples from 18 volunteers using four methods: no solution, 95% ethanol, fecal occult blood test (FOBT) cards, and fecal immunochemical test (FIT). One set of samples was frozen after collection (day 0), and for 95% ethanol, FOBT, and FIT, a second set was frozen after 96 hours at room temperature. We evaluated (i) technical reproducibility within sample replicates, (ii) stability after 96 hours at room temperature for 95% ethanol, FOBT, and FIT, and (iii) concordance of metabolite measures with the putative "gold standard," day 0 samples without solution. Intraclass correlation coefficients (ICC) estimating technical reproducibility were high for replicate samples for each collection method. ICCs estimating stability at room temperature were high for 95% ethanol and FOBT (median ICC > 0.87) but not FIT (median ICC = 0.52). Similarly, Spearman correlation coefficients (r s ) estimating metabolite concordance with the "gold standard" were higher for 95% ethanol (median r s = 0.82) and FOBT (median r s = 0.70) than for FIT (median r s = 0.40). Metabolomic measurements appear reproducible and stable in fecal samples collected with 95% ethanol or FOBT. Concordance with the "gold standard" is highest with 95% ethanol and acceptable with FOBT. Future epidemiologic studies should collect feces using 95% ethanol or FOBT if interested in studying fecal metabolomics. Cancer Epidemiol Biomarkers Prev; 25(11); 1483-90. ©2016 AACR. ©2016 American Association for Cancer Research.

NHEXAS PHASE I REGION 5 STUDY--METALS IN BLOOD ANALYTICAL RESULTS

EPA Science Inventory

This data set includes analytical results for measurements of metals in 165 blood samples. These samples were collected to examine the relationships between personal exposure measurements, environmental measurements, and body burden. Venous blood samples were collected by venipun...

A METHODS COMPARISON FOR COLLECTING MACROINVERTEBRATES IN THE OHIO RIVER

EPA Science Inventory

Collection of representative benthic macroinvertebrate samples from large rivers has been challenging researchers for many years. The objective of our study was to develop an appropriate method(s) for sampling macroinvertebrates from the Ohio River. Four existing sampling metho...

Using a monitoring and evaluation framework to improve study efficiency and quality during a prospective cohort study in infants receiving rotavirus vaccination in El Alto, Bolivia: the Infant Nutrition, Inflammation, and Diarrheal Illness (NIDI) study.

PubMed

Aceituno, Anna M; Stanhope, Kaitlyn K; Rebolledo, Paulina A; Burke, Rachel M; Revollo, Rita; Iñiguez, Volga; Suchdev, Parminder S; Leon, Juan S

2017-11-28

Implementing rigorous epidemiologic studies in low-resource settings involves challenges in participant recruitment and follow-up (e.g., mobile populations, distrust), biological sample collection (e.g., cold-chain, laboratory equipment scarcity) and data collection (e.g., literacy, staff training, and infrastructure). This article describes the use of a monitoring and evaluation (M&E) framework to improve study efficiency and quality during participant engagement, and biological sample and data collection in a longitudinal cohort study of Bolivian infants. The study occurred between 2013 and 2015 in El Alto, Bolivia, a high-altitude, urban, low-resource community. The study's M&E framework included indicators for participant engagement (e.g., recruitment, retention, safety), biological sample (e.g., stool and blood), and data (e.g., anthropometry, questionnaires) collection and quality. Monitoring indicators were measured regularly throughout the study and used for course correction, communication, and staff retraining. Participant engagement indicators suggested that enrollment objectives were met (461 infants), but 15% loss-to-follow-up resulted in only 364 infants completing the study. Over the course of the study, there were four study-related adverse events (minor swelling and bruising related to a blood draw) and five severe adverse events (infant deaths) not related to study participation. Biological sample indicators demonstrated two blood samples collected from 95% (333 of 350 required) infants and stool collected for 61% of reported infant diarrhea episodes. Anthropometry data quality indicators were extremely high (median SDs for weight-for-length, length-for-age and weight-for-age z-scores 1.01, 0.98, and 1.03, respectively), likely due to extensive training, standardization, and monitoring efforts. Conducting human subjects research studies in low-resource settings often presents unique logistical difficulties, and collecting high-quality data is often a challenge. Investing in comprehensive M&E is important to improve participant recruitment, retention and safety, and sample and data quality. The M&E framework from this study can be applied to other longitudinal studies.

Corn blight review: Sampling model and ground data measurements program

NASA Technical Reports Server (NTRS)

Allen, R. D.

1972-01-01

The sampling plan involved the selection of the study area, determination of the flightline and segment sample design within the study area, and determination of a field sample design. Initial interview survey data consisting of crop species acreage and land use were collected. On all corn fields, additional information such as seed type, row direction, population, planting date, ect. were also collected. From this information, sample corn fields were selected to be observed through the growing season on a biweekly basis by county extension personnel.

Comparison of Collection Methods for Fecal Samples in Microbiome Studies

PubMed Central

Vogtmann, Emily; Chen, Jun; Amir, Amnon; Shi, Jianxin; Abnet, Christian C.; Nelson, Heidi; Knight, Rob; Chia, Nicholas; Sinha, Rashmi

2017-01-01

Prospective cohort studies are needed to assess the relationship between the fecal microbiome and human health and disease. To evaluate fecal collection methods, we determined technical reproducibility, stability at ambient temperature, and accuracy of 5 fecal collection methods (no additive, 95% ethanol, RNAlater Stabilization Solution, fecal occult blood test cards, and fecal immunochemical test tubes). Fifty-two healthy volunteers provided fecal samples at the Mayo Clinic in Rochester, Minnesota, in 2014. One set from each sample collection method was frozen immediately, and a second set was incubated at room temperature for 96 hours and then frozen. Intraclass correlation coefficients (ICCs) were calculated for the relative abundance of 3 phyla, 2 alpha diversity metrics, and 4 beta diversity metrics. Technical reproducibility was high, with ICCs for duplicate fecal samples between 0.64 and 1.00. Stability for most methods was generally high, although the ICCs were below 0.60 for 95% ethanol in metrics that were more sensitive to relative abundance. When compared with fecal samples that were frozen immediately, the ICCs were below 0.60 for the metrics that were sensitive to relative abundance; however, the remaining 2 alpha diversity and 3 beta diversity metrics were all relatively accurate, with ICCs above 0.60. In conclusion, all fecal sample collection methods appear relatively reproducible, stable, and accurate. Future studies could use these collection methods for microbiome analyses. PMID:27986704

The Internet of Samples in the Earth Sciences: Providing Access to Uncurated Collections

NASA Astrophysics Data System (ADS)

Carter, M. R.; Lehnert, K. A.

2014-12-01

Vast amounts of physical samples have been collected in the Earth Sciences for studies that address a wide range of scientific questions. Only a fraction of these samples are well curated and preserved long-term in sample repositories and museums. Many samples and collections are stored in the offices and labs of investigators, or in basements and sheds of institutions and investigators' homes. These 'uncurated' collections often contain samples that have been well studied, or are unique and irreplaceable. They may also include samples that could reveal new insights if re-analyzed using new techniques, or specimens that could have unanticipated relevance to research being conducted in fields other than the one for which they were collected. Currently, these samples cannot be accessed or discovered online by the broader science community. Investigators and departments often lack the resources to properly catalog and curate the samples and respond to requests for splits. Long-term preservation of and access to these samples is usually not provided for. iSamplES, a recently-funded EarthCube Research Coordination Network (RCN), seeks to integrate scientific samples, including 'uncurated' samples, into digital data and information infrastructure in the Earth Sciences and to facilitate their curation, discovery, access, sharing, and analysis. The RCN seeks to develop and implement best practices that increase digital access to samples with the goal of establishing a comprehensive infrastructure not only for the digital, but also physical curation of samples. The RCN will engage a broad group of individuals from domain scientists to curators to publishers to computer scientists to define, articulate, and address the needs and challenges of digital sample management and recommend community-endorsed best practices and standards for registering, describing, identifying, and citing physical specimens, drawing upon other initiatives and existing or emerging software tools for digital sample and collection management. Community engagement will include surveys, in-person workshops and outreach events, the creation of the iSamplES knowledge hub (semantic wiki) and a registry of collections. iSamplES will specifically engage early career scientists to encourage that no samples go uncurated.

Predictors of mother and child DNA yields in buccal cell samples collected in pediatric cancer epidemiologic studies: a report from the Children's Oncology group.

PubMed

Poynter, Jenny N; Ross, Julie A; Hooten, Anthony J; Langer, Erica; Blommer, Crystal; Spector, Logan G

2013-08-12

Collection of high-quality DNA is essential for molecular epidemiology studies. Methods have been evaluated for optimal DNA collection in studies of adults; however, DNA collection in young children poses additional challenges. Here, we have evaluated predictors of DNA quantity in buccal cells collected for population-based studies of infant leukemia (N = 489 mothers and 392 children) and hepatoblastoma (HB; N = 446 mothers and 412 children) conducted through the Children's Oncology Group. DNA samples were collected by mail using mouthwash (for mothers and some children) and buccal brush (for children) collection kits and quantified using quantitative real-time PCR. Multivariable linear regression models were used to identify predictors of DNA yield. Median DNA yield was higher for mothers in both studies compared with their children (14 μg vs. <1 μg). Significant predictors of DNA yield in children included case-control status (β = -0.69, 50% reduction, P = 0.01 for case vs. control children), brush collection type, and season of sample collection. Demographic factors were not strong predictors of DNA yield in mothers or children in this analysis. The association with seasonality suggests that conditions during transport may influence DNA yield. The low yields observed in most children in these studies highlight the importance of developing alternative methods for DNA collection in younger age groups.

NHEXAS PHASE I ARIZONA STUDY--STANDARD OPERATING PROCEDURE FOR COLLECTION, STORAGE AND SHIPMENT OF DRINKING AND TAP WATER SAMPLES FOR VOCS (EPA METHOD 524.2) (UA-F-18.1)

EPA Science Inventory

The purpose of this SOP is to describe the collection, storage, and shipment of tap and drinking water samples for analysis by EPA method 524.2 (revision 4.0) for the NHEXAS Arizona project. This SOP provides a brief description of the sample containers, collection, preservation...

Feasibility and quality development of biomaterials in the pretest studies of the German National Cohort.

PubMed

Kühn, A; Nieters, A; Köttgen, A; Goek, O N; Michels, K; Nöthlings, U; Jacobs, G; Meisinger, C; Pessler, F; Akmatov, M F; Kühnisch, J; Moebus, S; Glocker, E; Naus, S; Keimling, M; Leitzmann, M; Linseisen, J; Sarioglu, H; von Toerne, C; Hauck, S M; Wallaschofski, H; Wichmann, H E; Illig, Thomas

2014-11-01

The German National Cohort (GNC) is designed to address research questions concerning a wide range of possible causes of major chronic diseases (e.g. cancer, diabetes, infectious, allergic, neurologic and cardiovascular diseases) as well as to identify risk factors and prognostic biomarkers for early diagnosis and prevention of these diseases. The collection of biomaterials in combination with extensive information from questionnaires and medical examinations represents one of the central study components. In two pretest studies of the German National Cohort conducted between 2011 and 2013, a range of biomaterials from a defined number of participants was collected. Ten study centres were involved in pretest 1 and 18 study centres were involved in pretest 2. Standard operation procedures (SOP) were developed and evaluated to minimize pre-analytical artefacts during biosample collection. Within the pretest studies different aspects concerning feasibility of sample collection/preparation [pretest 1 (a)] and quality control of biomarkers and proteome analyses were investigated [pretest 1 (b), (c)]. Additionally, recruitment of study participants for specific projects and examination procedures of all study centres in a defined time period according to common standards as well as transportation and decentralized storage of biological samples were tested (pretest 2). These analyses will serve as the basis for the biomaterial collection in the main study of the GNC starting in 2014. Participants, randomly chosen from the population (n = 1000 subjects recruited at ten study sites in pretest 1) were asked to donate blood, urine, saliva and stool samples. Additionally, nasal and oropharyngeal swabs were collected at the study sites and nasal swabs were collected by the participants at home. SOPs for sample collection, preparation, storage and transportation were developed and adopted for pretest 2. In pretest 2, 18 study sites (n = 599 subjects) collected biomaterials mostly identical to pretest 1. Biomarker analyses to test the quality of the biomaterials were performed. In pretest 1 and 2, it was feasible to collect all biomaterials from nearly all invited participants without major problems. The mean response rate of the subjects was 95 %. As one important result we found for example that after blood draw the cellular fraction should be separated from the plasma and serum fractions during the first hour with no significant variation for up to 6 h at 4 ℃ for all analysed biomarkers. Moreover, quality control of samples using a proteomics approach showed no significant clustering of proteins according to different storage conditions. All developed SOPs were validated for use in the main study after some adaptation and modification. Additionally, electronic and paper documentation sheets were developed and tested to record time stamps, volumes, freezing times, and aliquot numbers of the collected biomaterials. The collection of the biomaterials was feasible without major problems at all participating study sites. However, the processing times were in some cases too long. To avoid pre-analytical artefacts in sample collection, appropriate standardisation among the study sites is necessary. To achieve this, blood and urine collection will have to be adapted to specific conditions of usage of liquid handling robots, which will be available at all participating study centres in the main study of the GNC. Strict compliance with the SOPs, thorough training of the staff and accurate documentation are mandatory to obtain high sample quality for later analyses. The so obtained biomaterials represent a valuable resource for research on infectious and other common complex diseases in the GNC.

Summary of data from onsite and laboratory analyses of surface water and marsh porewater from South Florida Water Management District Water Conservation Areas, the Everglades, South Florida, March 1995

USGS Publications Warehouse

Reddy, Michael M.; Gunther, Charmaine D.

2012-01-01

This report presents results of chemical analysis for samples collected during March, 1995, as part of a study to quantify the interaction of aquatic organic material (referred to here as dissolved organic carbon with dissolved metal ions). The work was done in conjunction with the South Florida Water Management District, the U.S. Environmental Protection Agency, the U.S. Geological Survey South Florida Ecosystems Initiative, and the South Florida National Water Quality Assessment Study Unit. Samples were collected from surface canals and from marsh sites. Results are based on onsite and laboratory measurements for 27 samples collected at 10 locations. The data file contains sample description, dissolved organic carbon concentration and specific ultraviolet absorbance, and additional analytical data for samples collected at several sites in the Water Conservation Areas, the Everglades, south Florida.

Transmission efficiency of the sigma virus in natural populations of its host, Drosophila melanogaster.

PubMed

Fleuriet, A

1982-01-01

A study of the viral samples collected in French natural populations of Drosophila melanogaster since 1969, indicates that natural populations include, as expected, both stabilized and non stabilized infected individuals. In agreement with previous observations made on other characters of the virus, the viral samples collected appear to be homogeneous for the efficiency of the hereditary transmission. However, this efficiency is greater than the average value observed with virus perpetuated in infected laboratory fly strains. One sample collected in Gabon and three in the U.S.A. appear to differ from the French samples for one at least of the traits studied in these experiments.

Extending the Collection Duration of Breath Samples for Enteric Methane Emission Estimation Using the SF6 Tracer Technique

PubMed Central

Pinares-Patiño, César; Gere, José; Williams, Karen; Gratton, Roberto; Juliarena, Paula; Molano, German; MacLean, Sarah; Sandoval, Edgar; Taylor, Grant; Koolaard, John

2012-01-01

Simple Summary Extended sample collection for the SF6 tracer technique is desirable for extensive grazing systems. Breath samples from eight cows were collected while lucerne silage was fed to achieve fixed intakes among the cows. Samples were collected over a 10-day period, using either apparatuses used in New Zealand (NZL) or Argentina (ARG), and either daily, over two consecutive 5-day periods or over a 10-day period (in duplicate). The NZL system had a greater sampling success and more consistent CH4 emission estimates than the ARG system, with no differences in mean emissions among sample collection periods. This study showed that extended sample collection is feasible, but definitive evaluation under grazing situation is required before a decision on recommendation can be made. Abstract The daily sample collection protocol of the sulphur hexafluoride (SF6) tracer technique for the estimation of methane (CH4) emissions from ruminants may not be practical under extensive grazing systems. Here, under controlled conditions, we evaluated extended periods of sampling as an alternative to daily sample collections. Eight rumen-fistulated cows were housed and fed lucerne silage to achieve common daily feed intakes of 6.4 kg dry matter per cow. Following SF6 permeation tube dosing, eight sampling lines were fitted to the breath collection harness, so that a common gas mix was available to each line. Half of the lines collected samples into PVC yokes using a modified capillary system as commonly used in New Zealand (NZL), and half collected samples into stainless steel cylinders using a ball-bearing flow restrictor as used in Argentina (ARG), all within a 10-day time frame, either daily, across two consecutive 5-day periods or across one 10-day period (in duplicate). The NZL system had greater sampling success (97.3 vs. 79.5%) and yielded more consistent CH4 emission estimates than the ARG system. Emission estimates from NZL daily, NZL 5-day and NZL 10-day samplings were 114, 110 and 111 g d−1, respectively. Extended sample collection protocol may be feasible, but definitive evaluation of this alternative as well as sample collection systems is required under grazing situations before a decision on recommendation can be made. PMID:26486921

A precision multi-sampler for deep-sea hydrothermal microbial mat studies

NASA Astrophysics Data System (ADS)

Breier, J. A.; Gomez-Ibanez, D.; Reddington, E.; Huber, J. A.; Emerson, D.

2012-12-01

A new tool was developed for deep-sea microbial mat studies by remotely operated vehicles and was successfully deployed during a cruise to the hydrothermal vent systems of the Mid-Cayman Rise. The Mat Sampler allows for discrete, controlled material collection from complex microbial structures, vertical-profiling within thick microbial mats and particulate and fluid sample collection from venting seafloor fluids. It has a reconfigurable and expandable sample capacity based on magazines of 6 syringes, filters, or water bottles. Multiple magazines can be used such that 12-36 samples can be collected routinely during a single dive; several times more if the dive is dedicated for this purpose. It is capable of hosting in situ physical, electrochemical, and optical sensors, including temperature and oxygen probes in order to guide sampling and to record critical environmental parameters at the time and point of sample collection. The precision sampling capability of this instrument will greatly enhance efforts to understand the structured, delicate, microbial mat communities that grow in diverse benthic habitats.

Successful collection of stool samples for microbiome analyses from a large community-based population of elderly men.

PubMed

Abrahamson, Melanie; Hooker, Elizabeth; Ajami, Nadim J; Petrosino, Joseph F; Orwoll, Eric S

2017-09-01

The relationship of the gastrointestinal microbiome to health and disease is of major research interest, including the effects of the gut microbiota on age related conditions. Here we report on the outcome of a project to collect stool samples on a large number of community dwelling elderly men using the OMNIgene-GUT stool/feces collection kit (OMR-200, DNA Genotek, Ottawa, Canada). Among 1,328 men who were eligible for stool collection, 982 (74%) agreed to participate and 951 submitted samples. The collection process was reported to be acceptable, almost all samples obtained were adequate, the process of sample handling by mail was uniformly successful. The DNA obtained provided excellent results in microbiome analyses, yielding an abundance of species and a diversity of taxa as would be predicted. Our results suggest that population studies of older participants involving remote stool sample collection are feasible. These approaches would allow large scale research projects of the association of the gut microbiota with important clinical outcomes.

Influence of multidroplet size distribution on icing collection efficiency

NASA Technical Reports Server (NTRS)

Chang, H.-P.; Kimble, K. R.; Frost, W.; Shaw, R. J.

1983-01-01

Calculation of collection efficiencies of two-dimensional airfoils for a monodispersed droplet icing cloud and a multidispersed droplet is carried out. Comparison is made with the experimental results reported in the NACA Technical Note series. The results of the study show considerably improved agreement with experiment when multidroplet size distributions are employed. The study then investigates the effect of collection efficiency on airborne particle droplet size sampling instruments. The biased effect introduced due to sampling from different collection volumes is predicted.

Prevalence, types, and geographical distribution of Listeria monocytogenes from a survey of retail Queso Fresco and associated cheese processing plants and dairy farms in Sonora, Mexico.

PubMed

Moreno-Enriquez, R I; Garcia-Galaz, A; Acedo-Felix, E; Gonzalez-Rios, I H; Call, J E; Luchansky, J B; Diaz-Cinco, M E

2007-11-01

In the first part of this study, samples were collected from farms, cheese processing plants (CPPs), and retail markets located in various geographical areas of Sonora, Mexico, over a 12-month period during the summer of 2004 and winter of 2005. Four (all Queso Fresco [QF] from retail markets) of 349 total samples tested positive for Listeria monocytogenes (Lm). Of these four positive samples, three were collected in the northern region and one in the southern region of Sonora. Additionally, two were collected during the winter months, and two were collected during the summer months. For the second part of the study, a total of 39 samples from a farm, a CPP, and retail markets were collected and processed according to a combination of the Norma Oficial Mexicana NOM-143-SSA1-1995.10 method (NOM) and the U.S. Food and Drug Administration (FDA) Bacteriological Analytical Manual method, and 27 samples from these same locations were collected and processed according to the U.S. Department of Agriculture Food Safety and Inspection Service method (USDA-FSIS). The NOM-FDA method recovered the pathogen from 6 (15%) of 39 samples (one cheese and five product contact surfaces), while the USDA-FSIS method recovered the pathogen from 5 (18.5%) of 27 samples (all product contact surfaces). In addition, the 40 isolates recovered from the 15 total samples that tested positive for Lm grouped into five distinct pulsotypes that were ca. 60% related, as determined by pulsed-field gel electrophoresis analysis. The results of this study confirmed a 3.4% prevalence of Lm in QF collected from retail markets located in Sonora and no appreciable difference in the effectiveness of either the NOM-FDA or USDA-FSIS method to recover the pathogen from cheese or environmental samples.

The Generation R Study: Biobank update 2015.

PubMed

Kruithof, Claudia J; Kooijman, Marjolein N; van Duijn, Cornelia M; Franco, Oscar H; de Jongste, Johan C; Klaver, Caroline C W; Mackenbach, Johan P; Moll, Henriëtte A; Raat, Hein; Rings, Edmond H H M; Rivadeneira, Fernando; Steegers, Eric A P; Tiemeier, Henning; Uitterlinden, Andre G; Verhulst, Frank C; Wolvius, Eppo B; Hofman, Albert; Jaddoe, Vincent W V

2014-12-01

The Generation R Study is a population-based prospective cohort study from fetal life until adulthood. The study is designed to identify early environmental and genetic causes and causal pathways leading to normal and abnormal growth, development and health from fetal life, childhood and young adulthood. In total, 9,778 mothers were enrolled in the study. Data collection in children and their parents include questionnaires, interviews, detailed physical and ultrasound examinations, behavioural observations, Magnetic Resonance Imaging and biological samples. Efforts have been conducted for collecting biological samples including blood, hair, faeces, nasal swabs, saliva and urine samples and generating genomics data on DNA, RNA and microbiome. In this paper, we give an update of the collection, processing and storage of these biological samples and available measures. Together with detailed phenotype measurements, these biological samples provide a unique resource for epidemiological studies focused on environmental exposures, genetic and genomic determinants and their interactions in relation to growth, health and development from fetal life onwards.

USE OF DISPOSABLE DIAPERS TO COLLECT URINE IN EXPOSURE STUDIES

EPA Science Inventory

Large studies of children's health as it relates to exposures to chemicals in the environment often require measurements of biomarkers of chemical exposures or effects in urine samples. But collection of urine samples from infants and toddlers is difficult. For large exposure s...

COLLECTING URINE SAMPLES FROM YOUNG CHILDREN USING COTTON GAUZE FOR PESTICIDE STUDIES

EPA Science Inventory

To estimate pesticide exposure, urine samples are often needed to analyze pesticide metabolites. However, this is difficult for children wearing diapers because simple and feasible techniques suitable for field collection are not available. The objectives of this study were to t...

COLLECTING URINE SAMPLES FROM YOUNG CHILDREN USING GAUZE FOR PESTICIDE STUDIES

EPA Science Inventory

To estimate pesticide exposure, urine samples are often needed to analyze pesticide metabolites. However, this is difficult for children wearing diapers because simple and feasible techniques suitable for field collection are not available. The objectives of this study were to te...

U.S.-MEXICO BORDER PROGRAM ARIZONA BORDER STUDY--STANDARD OPERATING PROCEDURE FOR COLLECTION, STORAGE, AND SHIPMENT OF DRINKING AND TAP WATER SAMPLES FOR VOCS (EPA METHOD 524.2) ANALYSIS (UA-F-18.1)

EPA Science Inventory

The purpose of this SOP is to describe the collection, storage, and shipment of tap and drinking water samples for analysis by EPA method 524.2 (revision 4.0). This SOP provides a brief description of the sample containers, collection, preservation, storage, shipping, and custod...

NHEXAS PHASE I ARIZONA STUDY--STANDARD OPERATING PROCEDURE FOR COLLECTION, STORAGE AND SHIPMENT OF DRINKING AND TAP WATER SAMPLES FOR TRACE METALS (EPA METHOD 200.8) (UA-F-16.1)

EPA Science Inventory

The purpose of this SOP is to describe how to collect, store, and ship tap and drinking water samples for analysis by EPA Method 200.8 (revision 4.4) for the NHEXAS Arizona project. This SOP provides a brief description of the sample containers, collection, preservation, storage...

Geochemical data for stream-sediment, heavy-mineral-concentrate and rock samples collected from the Fortyseven Creek gold-arsenic-antimony-tungsten prospect, southwestern Alaska

USGS Publications Warehouse

Gray, John E.; Lee, G.K.; O'Leary, R. M.; Theodorakos, P.M.

1999-01-01

In the summer of 1991, we conducted a reconnaissance geochemical survey around the Fortyseven Creek Au-As-Sb-W prospect that is located in the southwestern part of the Sleetmute quadrangle. At that time, this project was a small part of a more comprehensive Alaska Mineral Resource Assessment Program (AMRAP) study of the Sleemute quadrangle. AMRAP studies were conducted by the U.S. Geological Survey (USGS) to fulfill requirements of the Alaska National Interests Lands Conservation Act (Public Law 96-487, 1980) to survey certain federal lands to determine their mineral potential. Although AMRAP is no longer in operation, this study represents a small topical study that was conducted during the Sleetmute quadrangle AMRAP study. The objective of the Fortyseven Creek work was to characterize the geochemistry of samples collected downstream from the Fortyseven Creek prospect, as well as mineralized and altered rock samples collected from the prospect. In this report, we describe the samples collected in 1991, the methods used for the analysis of the samples, and the geochemical data for these samples. The data in this report are also available in digital form on computer diskette in Gray and others (1999). An interpretation of these data appears in Gray and others (1998).

Biomarker-Based Prediction Models for Response to Treatment in Systemic Sclerosis-Related Interstitial Lung Disease

DTIC Science & Technology

2017-10-01

in the baseline samples of the Scleroderma Lung Study II (SLS II). We are currently analyzing whether these serum proteins have predictive...In this project, we use the valuable samples collected in the Scleroderma Lung Study II (SLSII) clinical trial and the observational cohort, GENISOS...determine key serum protein levels and transcript signatures in whole blood and skin samples collected in the SLSII study . The identified candidate

Understanding biological mechanisms underlying adverse birth outcomes in developing countries: protocol for a prospective cohort (AMANHI bio-banking) study.

PubMed

Baqui, Abdullah H; Khanam, Rasheda; Rahman, Mohammad Sayedur; Ahmed, Aziz; Rahman, Hasna Hena; Moin, Mamun Ibne; Ahmed, Salahuddin; Jehan, Fyezah; Nisar, Imran; Hussain, Atiya; Ilyas, Muhammad; Hotwani, Aneeta; Sajid, Muhammad; Qureshi, Shahida; Zaidi, Anita; Sazawal, Sunil; Ali, Said M; Deb, Saikat; Juma, Mohammed Hamad; Dhingra, Usha; Dutta, Arup; Ame, Shaali Makame; Hayward, Caroline; Rudan, Igor; Zangenberg, Mike; Russell, Donna; Yoshida, Sachiyo; Polašek, Ozren; Manu, Alexander; Bahl, Rajiv

2017-12-01

The AMANHI study aims to seek for biomarkers as predictors of important pregnancy-related outcomes, and establish a biobank in developing countries for future research as new methods and technologies become available. AMANHI is using harmonised protocols to enrol 3000 women in early pregnancies (8-19 weeks of gestation) for population-based follow-up in pregnancy up to 42 days postpartum in Bangladesh, Pakistan and Tanzania, with collection taking place between August 2014 and June 2016. Urine pregnancy tests will be used to confirm reported or suspected pregnancies for screening ultrasound by trained sonographers to accurately date the pregnancy. Trained study field workers will collect very detailed phenotypic and epidemiological data from the pregnant woman and her family at scheduled home visits during pregnancy (enrolment, 24-28 weeks, 32-36 weeks & 38+ weeks) and postpartum (days 0-6 or 42-60). Trained phlebotomists will collect maternal and umbilical blood samples, centrifuge and obtain aliquots of serum, plasma and the buffy coat for storage. They will also measure HbA1C and collect a dried spot sample of whole blood. Maternal urine samples will also be collected and stored, alongside placenta, umbilical cord tissue and membrane samples, which will both be frozen and prepared for histology examination. Maternal and newborn stool (for microbiota) as well as paternal and newborn saliva samples (for DNA extraction) will also be collected. All samples will be stored at -80°C in the biobank in each of the three sites. These samples will be linked to numerous epidemiological and phenotypic data with unique study identification numbers. AMANHI biobank proves that biobanking is feasible to implement in LMICs, but recognises that biobank creation is only the first step in addressing current global challenges.

Low Cost Mars Sample Return Utilizing Dragon Lander Project

NASA Technical Reports Server (NTRS)

Stoker, Carol R.

2014-01-01

We studied a Mars sample return (MSR) mission that lands a SpaceX Dragon Capsule on Mars carrying sample collection hardware (an arm, drill, or small rover) and a spacecraft stack consisting of a Mars Ascent Vehicle (MAV) and Earth Return Vehicle (ERV) that collectively carry the sample container from Mars back to Earth orbit.

Concentration data for anthropogenic organic compounds in ground water, surface water, and finished water of selected community water systems in the United States, 2002-05

USGS Publications Warehouse

Carter, Janet M.; Delzer, Gregory C.; Kingsbury, James A.; Hopple, Jessica A.

2007-01-01

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 (CWSs) in the United States. As used for SWQA studies, source water is the raw (ambient) water collected at the supply well prior to water treatment (for ground water) or the raw (ambient) water collected from the river near the intake (for surface water), and finished water is the water that is treated and ready to be delivered to consumers. Finished water is collected before entering the distribution system. SWQA studies are conducted in two phases, and the objectives of SWQA studies are twofold: (1) to determine the occurrence and, for rivers, seasonal changes in concentrations of a broad list of anthropogenic organic compounds (AOCs) in aquifers and rivers that have some of the largest withdrawals for drinking-water supply (phase 1), and (2) for those AOCs found to occur most frequently in source water, characterize the extent to which these compounds are present in finished water (phase 2). These objectives were met for SWQA studies by collecting ground-water and surface-water (source) samples and analyzing these samples for 258 AOCs during phase 1. Samples from a subset of wells and surface-water sites located in areas with substantial agricultural production in the watershed were analyzed for 19 additional AOCs, for a total of 277 compounds analyzed for SWQA studies. The 277 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. Source and finished water samples were collected during phase 2 and analyzed for constituents that were detected frequently during phase 1. This report presents concentration data for AOCs in ground water, surface water, and finished water of CWSs sampled for SWQA studies during 2002-05. Specifically, this report presents the analytical results of samples collected during phase 1 including (1) samples from 221 wells that were analyzed for 258 AOCs; (2) monthly samples from 9 surface-water sites that were analyzed for 258 AOCs during phase 1; and (3) samples from a subset of the wells and surface-water sites located in areas with substantial agricultural production that were analyzed for 3 additional pesticides and 16 pesticide degradates. Samples collected during phase 2 were analyzed for selected AOCs that were detected most frequently in source water during phase 1 sampling; analytical results for phase 2 are presented for (1) samples of source water and finished water from 94 wells; and (2) samples of source water and finished water samples that were collected monthly and during selected flow conditions at 8 surface-water sites. Results of quality-assurance/quality-control samples collected for SWQA studies during 2002-05 also are presented.

Development of a Standardized Approach for Environmental Microbiota Investigations related to Asthma Development in Children

PubMed Central

Fujimura, Kei E.; Rauch, Marcus; Matsui, Elizabeth; Iwai, Shoko; Calatroni, Agustin; Lynn, Henry; Mitchell, Herman; Johnson, Christine C.; Gern, James E.; Togias, Alkis; Boushey, Homer A.; Kennedy, Suzanne; Lynch, Susan V.

2013-01-01

Summary Standardized studies examining environmental microbial exposure in populations at risk for asthma are necessary to improve our understanding of the role this factor plays in disease development. Here we describe studies aimed at developing guidelines for high-resolution culture-independent microbiome profiling, using a phylogenetic microarray (PhyloChip), of house dust samples in a cohort collected as part of the NIH-funded Inner City Asthma Consortium (ICAC). We demonstrate that though extracted DNA concentrations varied across dust samples, the majority produced sufficient 16S rRNA to be profiled by the array. Comparison of array and 454-pyrosequencing performed in parallel on a subset of samples, illustrated that increasingly deeper sequencing efforts validated greater numbers of array-detected taxa. Community composition agreement across samples exhibited a hierarchy in concordance, with the highest level of agreement in replicate array profiles followed by samples collected from adjacent 1×1 m2 sites in the same room, adjacent sites with different sized sampling quadrants (1×1 and 2×2 m2), different sites within homes (living and bedroom) to lowest in living room samples collected from different homes. The guidelines for sample collection and processing in this pilot study extend beyond PhyloChip based studies of house-associated microbiota, and bear relevance for other microbiome profiling approaches such as next-generation sequencing. PMID:22975469

Standard operating procedures for collection of soil and sediment samples for the Sediment-bound Contaminant Resiliency and Response (SCoRR) strategy pilot study

USGS Publications Warehouse

Fisher, Shawn C.; Reilly, Timothy J.; Jones, Daniel K.; Benzel, William M.; Griffin, Dale W.; Loftin, Keith A.; Iwanowicz, Luke R.; Cohl, Jonathan A.

2015-12-17

An understanding of the effects on human and ecological health brought by major coastal storms or flooding events is typically limited because of a lack of regionally consistent baseline and trends data in locations proximal to potential contaminant sources and mitigation activities, sensitive ecosystems, and recreational facilities where exposures are probable. In an attempt to close this gap, the U.S. Geological Survey (USGS) has implemented the Sediment-bound Contaminant Resiliency and Response (SCoRR) strategy pilot study to collect regional sediment-quality data prior to and in response to future coastal storms. The standard operating procedure (SOP) detailed in this document serves as the sample-collection protocol for the SCoRR strategy by providing step-by-step instructions for site preparation, sample collection and processing, and shipping of soil and surficial sediment (for example, bed sediment, marsh sediment, or beach material). The objectives of the SCoRR strategy pilot study are (1) to create a baseline of soil-, sand-, marsh sediment-, and bed-sediment-quality data from sites located in the coastal counties from Maine to Virginia based on their potential risk of being contaminated in the event of a major coastal storm or flooding (defined as Resiliency mode); and (2) respond to major coastal storms and flooding by reoccupying select baseline sites and sampling within days of the event (defined as Response mode). For both modes, samples are collected in a consistent manner to minimize bias and maximize quality control by ensuring that all sampling personnel across the region collect, document, and process soil and sediment samples following the procedures outlined in this SOP. Samples are analyzed using four USGS-developed screening methods—inorganic geochemistry, organic geochemistry, pathogens, and biological assays—which are also outlined in this SOP. Because the SCoRR strategy employs a multi-metric approach for sample analyses, this protocol expands upon and reconciles differences in the sample collection protocols outlined in the USGS “National Field Manual for the Collection of Water-Quality Data,” which should be used in conjunction with this SOP. A new data entry and sample tracking system also is presented to ensure all relevant data and metadata are gathered at the sample locations and in the laboratories.

Evidence for false-positive results for boldenone testing of veal urine due to faecal cross-contamination during sampling.

PubMed

Sgoifo Rossi, C A; Arioli, F; Bassini, A; Chiesa, L M; Dell'Orto, V; Montana, M; Pompa, G

2004-08-01

European Directive 96/22/EC, which controls veterinary residues in animals, does not permit the presence of synthetic growth promoters in products of animal origin or in livestock. Boldenone is categorized in class A3 (growth promoters -- steroids) and is thus a banned substance. Testing of veal urine for banned substances is part of the European Union statutory programme for animals going into the food chain. In relation to this monitoring, three studies were conducted to investigate the apparent presence of the banned growth promoter boldenone in veal urine, which was suspected as being caused by interference from faecal contamination of the sample. In the first study, urine samples were collected at different times (time 0 and after 30 min) using (1) a conventional zoonotechnical apron and (2) a technique designed specifically to avoid faecal contamination ('kettle'). This resulted in samples that were, respectively, positive and negative for the presence of alpha-boldenone (alpha-BOL). In a second study, urine samples negative to alpha-BOL were collected from eight veal calves, but became positive after deliberate faecal contamination. In a third study, data obtained from the Italian RNP (Residual National Program) indicated that 18.1% of 3295 urine samples collected using the zootechnical apron were positive for alpha-BOL and 2.1% for beta-boldenone (beta-BOL), whilst of 902 samples collected using the kettle, beta-BOL was not detected in any samples and only 0.2% were positive to alpha-BOL, in concentrations lower than 2 ng ml(-1). These results further support the supposition that faecal contamination of the urine during sample collection can lead to false-positive results during boldenone analysis.

Challenges in collecting clinical samples for research from pregnant women of South Asian origin: evidence from a UK study.

PubMed

Neelotpol, Sharmind; Hay, Alastair W M; Jolly, A Jim; Woolridge, Mike W

2016-08-31

To recruit South Asian pregnant women, living in the UK, into a clinicoepidemiological study for the collection of lifestyle survey data and antenatal blood and to retain the women for the later collection of cord blood and meconium samples from their babies for biochemical analysis. A longitudinal study recruiting pregnant women of South Asian and Caucasian origin living in the UK. Recruitment of the participants, collection of clinical samples and survey data took place at the 2 sites within a single UK Northern Hospital Trust. Pregnant women of South Asian origin (study group, n=98) and of Caucasian origin (comparison group, n=38) living in Leeds, UK. Among the participants approached, 81% agreed to take part in the study while a 'direct approach' method was followed. The retention rate of the participants was a remarkable 93.4%. The main challenges in recruiting the ethnic minority participants were their cultural and religious conservativeness, language barrier, lack of interest and feeling of extra 'stress' in taking part in research. The chief investigator developed an innovative participant retention method, associated with the women's cultural and religious practices. The method proved useful in retaining the participants for about 5 months and in enabling successful collection of clinical samples from the same mother-baby pairs. The collection of clinical samples and lifestyle data exceeded the calculated sample size required to give the study sufficient power. The numbers of samples obtained were: maternal blood (n=171), cord blood (n=38), meconium (n=176), lifestyle questionnaire data (n=136) and postnatal records (n=136). Recruitment and retention of participants, according to the calculated sample size, ensured sufficient power and success for a clinicoepidemiological study. Results suggest that development of trust and confidence between the participant and the researcher is the key to the success of a clinical and epidemiological study involving ethnic minorities. Published by the BMJ Publishing Group Limited. For permission to use (where not already granted under a licence) please go to http://www.bmj.com/company/products-services/rights-and-licensing/

The focus on sample quality: Influence of colon tissue collection on reliability of qPCR data

PubMed Central

Korenkova, Vlasta; Slyskova, Jana; Novosadova, Vendula; Pizzamiglio, Sara; Langerova, Lucie; Bjorkman, Jens; Vycital, Ondrej; Liska, Vaclav; Levy, Miroslav; Veskrna, Karel; Vodicka, Pavel; Vodickova, Ludmila; Kubista, Mikael; Verderio, Paolo

2016-01-01

Successful molecular analyses of human solid tissues require intact biological material with well-preserved nucleic acids, proteins, and other cell structures. Pre-analytical handling, comprising of the collection of material at the operating theatre, is among the first critical steps that influence sample quality. The aim of this study was to compare the experimental outcomes obtained from samples collected and stored by the conventional means of snap freezing and by PAXgene Tissue System (Qiagen). These approaches were evaluated by measuring rRNA and mRNA integrity of the samples (RNA Quality Indicator and Differential Amplification Method) and by gene expression profiling. The collection procedures of the biological material were implemented in two hospitals during colon cancer surgery in order to identify the impact of the collection method on the experimental outcome. Our study shows that the pre-analytical sample handling has a significant effect on the quality of RNA and on the variability of qPCR data. PAXgene collection mode proved to be more easily implemented in the operating room and moreover the quality of RNA obtained from human colon tissues by this method is superior to the one obtained by snap freezing. PMID:27383461

Accuracy, safety, and tolerability of tissue collection by Cytosponge vs endoscopy for evaluation of eosinophilic esophagitis.

PubMed

Katzka, David A; Geno, Debra M; Ravi, Anupama; Smyrk, Thomas C; Lao-Sirieix, Pierre; Miremadi, Ahmed; Miramedi, Ahmed; Debiram, Irene; O'Donovan, Maria; Kita, Hirohito; Kephart, Gail M; Kryzer, Lori A; Camilleri, Michael; Alexander, Jeffrey A; Fitzgerald, Rebecca C

2015-01-01

Management of eosinophilic esophagitis (EoE) requires repeated endoscopic collection of mucosal samples to assess disease activity and response to therapy. An easier and less expensive means of monitoring of EoE is required. We compared the accuracy, safety, and tolerability of sample collection via Cytosponge (an ingestible gelatin capsule comprising compressed mesh attached to a string) with those of endoscopy for assessment of EoE. Esophageal tissues were collected from 20 patients with EoE (all with dysphagia, 15 with stricture, 13 with active EoE) via Cytosponge and then by endoscopy. Number of eosinophils/high-power field and levels of eosinophil-derived neurotoxin were determined; hematoxylin-eosin staining was performed. We compared the adequacy, diagnostic accuracy, safety, and patient preference for sample collection via Cytosponge vs endoscopy procedures. All 20 samples collected by Cytosponge were adequate for analysis. By using a cutoff value of 15 eosinophils/high power field, analysis of samples collected by Cytosponge identified 11 of the 13 individuals with active EoE (83%); additional features such as abscesses were also identified. Numbers of eosinophils in samples collected by Cytosponge correlated with those in samples collected by endoscopy (r = 0.50, P = .025). Analysis of tissues collected by Cytosponge identified 4 of the 7 patients without active EoE (57% specificity), as well as 3 cases of active EoE not identified by analysis of endoscopy samples. Including information on level of eosinophil-derived neurotoxin did not increase the accuracy of diagnosis. No complications occurred during the Cytosponge procedure, which was preferred by all patients, compared with endoscopy. In a feasibility study, the Cytosponge is a safe and well-tolerated method for collecting near mucosal specimens. Analysis of numbers of eosinophils/high-power field identified patients with active EoE with 83% sensitivity. Larger studies are needed to establish the efficacy and safety of this method of esophageal tissue collection. ClinicalTrials.gov number: NCT01585103. Copyright © 2015 AGA Institute. Published by Elsevier Inc. All rights reserved.

Water-quality assessment of the Ozark Plateaus study unit, Arkansas, Kansas, Missouri, and Oklahoma; organic compounds in surface water, bed sediment, and biological tissue, 1992-95

USGS Publications Warehouse

Bell, Richard W.; Davis, Jerri V.; Femmer, Suzanne R.; Joseph, Robert L.

1997-01-01

Organic-compound samples, including pesticides and semi-volatiles, were collected from 1992-95 at 43 surface-water and 27 bed-sediment and biological-tissue sampling sites within the Ozark Plateaus National Water-Quality Assessment Program study unit. Most surface-water, bed-sediment, and biological-tissue sites have drainage basins predominantly in the Springfield and Salem Plateaus. At most surface-water sampling sites, one to three pesticide samples were collected in the spring and early summer of 1994 and 1995; two sites had additional samples collected either weekly, biweekly, or monthly from February 1994 through December 1994. At most bed-sediment and biological-tissue sampling sites, a single organic-compounds sample was collected. Agricultural pesticide use was approximately 4.9 million pounds of active ingredients per year from 1987-91 in the study unit and was generally greatest in the Springfield and Salem Plateaus pasturelands and in the Osage Plains and Mississippi Alluvial Plain cropland areas. The most frequently applied pesticide in the study unit was 2,4-D. Atrazine was the second most frequently applied pesticide. Corn, pasture, rice, sorghum, and soybeans received approximately 85 percent of the pesticides applied within the study unit. The highest pesticide application rate occurred on these crops in the Mississippi Alluvial and Osage Plains. Pastureland was the crop type that received the greatest amount of pesticides in 53 of the 96 counties in the study unit. The most commonly detected herbicide (63 samples) in surface water was atrazine. Five other pesticides--desethylatrazine, tebuthiuron, prometon, metolachlor, and simazine--were detected in 15 or more samples. The most commonly detected insecticide (13 samples) was p,p'-DDE. Two other insecticides, diazinon and cis-permethrin, were detected in seven or more samples. Pesticides were detected at 39 surface-water sites; samples collected at Yocum Creek near Oak Grove, Ark. had the most pesticide detections (13). Seventeen other sites had samples with six or more pesticide detections. Analysis of pesticide data collected at surface-water sites indicates that the largest variety of different pesticides detected (18) was in small, agricultural drainage basins; the largest percentage of detections of a single pesticide (about 80) was in medium, agricultural basins. Pesticide concentrations were small, and in most cases, at or near the detection limit. Maximum concentrations ranged from 0.001 to 0.007 micrograms per liter (mg/L) at small, forest sites; 0.001 to 0.029 mg/L at medium, forest sites; 0.001 to 0.079 mg/L at small, agricultural sites; and 0.003 to 0.29 mg/L at medium, agricultural sites. Pesticides were detected significantly more often in medium, agricultural basins in the Springfield Plateau. The most commonly detected (13 samples) organic compound in bed sediment, in concentrations noticeably above background levels, was 2,6-dimethylnaphthalene; the maximum concentration of 2,6-dimethylnaphthalene was 130 micrograms per kilogram. Seventeen or more compounds were detected in bed-sediment samples collected at three sites. Four compounds were detected in biological-tissue samples: p,p'-DDT in Corbicula fluminea (Asiatic clam) tissue collected at the Osage River near St. Thomas, Mo. and cis-chlordane, trans-chlordane, and trans-nonachlor in C. fluminea tissue collected at the James River near Boaz, Mo. Organic compounds collected at surface-water, bed-sediment, or biological-tissue sampling sites were not detected in concentrations that exceeded any health criteria or standards. Based on this information, organic compounds do not pose any widespread or persistent problems in the study unit.

Trace-Element Concentrations in Tissues of Aquatic Organisms from Rivers and Streams of the United States, 1992-1999

USGS Publications Warehouse

DeWeese, Lawrence R.; Stephens, Verlin C.; Short, Terry M.; Dubrovsky, Neil M.

2007-01-01

The U.S. Geological Survey National Water-Quality Assessment Program collected tissue samples from a variety of aquatic organisms during 1992-1999 within 47 study units across the United States. These tissue samples were collected to determine the occurrence and distribution of 20 major and minor trace elements in aquatic organisms. This report presents the tissue trace-element concentration data, sample summaries, and concentration statistics for 1,457 tissue samples representing 76 species or groups of fish, aquatic invertebrates, and plants were collected at 824 sampling sites.

Research and development of a field-ready protocol for sampling of phosgene from stationary source emissions: Diethylamine reagent studies. Research report, 11 July 1995--30 September 1996

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

Steger, J.L.; Bursey, J.T.; Merrill, R.G.

1999-03-01

This report presents the results of laboratory studies to develop and evaluate a method for the sampling and analysis of phosgene from stationary sources of air emissions using diethylamine (DEA) in toluene as the collection media. The method extracts stack gas from emission sources and stabilizes the reactive gas for subsequent analysis. DEA was evaluated both in a benchtop study and in a laboratory train spiking study. This report includes results for both the benchtop study and the train spiking study. Benchtop studies to evaluate the suitability of DEA for collecting and analyzing phosgene investigated five variables: storage time, DEAmore » concentration, moisture/pH, phosgene concentration, and sample storage temperature. Prototype sampling train studies were performed to determine if the benchtop chemical studies were transferable to a Modified Method 5 sampling train collecting phosgene in the presence of clean air mixed with typical stack gas components. Four conditions, which varied the moisture and phosgene spike were evaluated in triplicate. In addition to research results, the report includes a detailed draft method for sampling and analysis of phosgene from stationary source emissions.« less

Predictors of mother and child DNA yields in buccal cell samples collected in pediatric cancer epidemiologic studies: a report from the Children’s Oncology group

PubMed Central

2013-01-01

Background Collection of high-quality DNA is essential for molecular epidemiology studies. Methods have been evaluated for optimal DNA collection in studies of adults; however, DNA collection in young children poses additional challenges. Here, we have evaluated predictors of DNA quantity in buccal cells collected for population-based studies of infant leukemia (N = 489 mothers and 392 children) and hepatoblastoma (HB; N = 446 mothers and 412 children) conducted through the Children’s Oncology Group. DNA samples were collected by mail using mouthwash (for mothers and some children) and buccal brush (for children) collection kits and quantified using quantitative real-time PCR. Multivariable linear regression models were used to identify predictors of DNA yield. Results Median DNA yield was higher for mothers in both studies compared with their children (14 μg vs. <1 μg). Significant predictors of DNA yield in children included case–control status (β = −0.69, 50% reduction, P = 0.01 for case vs. control children), brush collection type, and season of sample collection. Demographic factors were not strong predictors of DNA yield in mothers or children in this analysis. Conclusions The association with seasonality suggests that conditions during transport may influence DNA yield. The low yields observed in most children in these studies highlight the importance of developing alternative methods for DNA collection in younger age groups. PMID:23937514

Microbiota in Exhaled Breath Condensate and the Lung.

PubMed

Glendinning, Laura; Wright, Steven; Tennant, Peter; Gill, Andrew C; Collie, David; McLachlan, Gerry

2017-06-15

The lung microbiota is commonly sampled using relatively invasive bronchoscopic procedures. Exhaled breath condensate (EBC) collection potentially offers a less invasive alternative for lung microbiota sampling. We compared lung microbiota samples retrieved by protected specimen brushings (PSB) and exhaled breath condensate collection. We also sought to assess whether aerosolized antibiotic treatment would influence the lung microbiota and whether this change could be detected in EBC. EBC was collected from 6 conscious sheep and then from the same anesthetized sheep during mechanical ventilation. Following the latter EBC collection, PSB samples were collected from separate sites within each sheep lung. On the subsequent day, each sheep was then treated with nebulized colistimethate sodium. Two days after nebulization, EBC and PSB samples were again collected. Bacterial DNA was quantified using 16S rRNA gene quantitative PCR. The V2-V3 region of the 16S rRNA gene was amplified by PCR and sequenced using Illumina MiSeq. Quality control and operational taxonomic unit (OTU) clustering were performed with mothur. The EBC samples contained significantly less bacterial DNA than the PSB samples. The EBC samples from anesthetized animals clustered separately by their bacterial community compositions in comparison to the PSB samples, and 37 bacterial OTUs were identified as differentially abundant between the two sample types. Despite only low concentrations of colistin being detected in bronchoalveolar lavage fluid, PSB samples were found to differ by their bacterial compositions before and after colistimethate sodium treatment. Our findings indicate that microbiota in EBC samples and PSB samples are not equivalent. IMPORTANCE Sampling of the lung microbiota usually necessitates performing bronchoscopic procedures that involve a hospital visit for human participants and the use of trained staff. The inconvenience and perceived discomfort of participating in this kind of research may deter healthy volunteers and may not be a safe option for patients with advanced lung disease. This study set out to evaluate a less invasive method for collecting lung microbiota samples by comparing samples taken via protected specimen brushings (PSB) to those taken via exhaled breath condensate (EBC) collection. We found that there was less bacterial DNA in EBC samples compared with that in PSB samples and that there were differences between the bacterial communities in the two sample types. We conclude that while EBC and PSB samples do not produce equivalent microbiota samples, the study of the EBC microbiota may still be of interest. Copyright © 2017 Glendinning et al.

U.S.-MEXICO BORDER PROGRAM ARIZONA BORDER STUDY--STANDARD OPERATING PROCEDURE FOR COLLECTION, STORAGE, AND SHIPMENT OF DRINKING AND TAP WATER SAMPLES FOR TRACE METALS (EPA METHOD 200.8) ANALYSIS (UA-F-16.1)

EPA Science Inventory

The purpose of this SOP is to describe how to collect, store, and ship tap and drinking water samples for analysis by EPA Method 200.8 (revision 4.4) for the NHEXAS Arizona project. This SOP provides a brief description of the sample containers, collection, preservation, storage...

Mechanisms of sampling interstitial fluid from skin using a microneedle patch.

PubMed

Samant, Pradnya P; Prausnitz, Mark R

2018-05-01

Although interstitial fluid (ISF) contains biomarkers of physiological significance and medical interest, sampling of ISF for clinical applications has made limited impact due to a lack of simple, clinically useful techniques that collect more than nanoliter volumes of ISF. This study describes experimental and theoretical analysis of ISF transport from skin using microneedle (MN) patches and demonstrates collection of >1 µL of ISF within 20 min in pig cadaver skin and living human subjects using an optimized system. MN patches containing arrays of submillimeter solid, porous, or hollow needles were used to penetrate superficial skin layers and access ISF through micropores (µpores) formed upon insertion. Experimental studies in pig skin found that ISF collection depended on transport mechanism according to the rank order diffusion < capillary action < osmosis < pressure-driven convection, under the conditions studied. These findings were in agreement with independent theoretical modeling that considered transport within skin, across the interface between skin and µpores, and within µpores to the skin surface. This analysis indicated that the rate-limiting step for ISF sampling is transport through the dermis. Based on these studies and other considerations like safety and convenience for future clinical use, we designed an MN patch prototype to sample ISF using suction as the driving force. Using this approach, we collected ISF from human volunteers and identified the presence of biomarkers in the collected ISF. In this way, sampling ISF from skin using an MN patch could enable collection of ISF for use in research and medicine.

Determination of trace elements in dairy milk collected from the environment of coal-fired power plant.

PubMed

Ramamurthy, N; Thillaivelavan, K

2005-01-01

In the present study the environmental effects on herbivores mammals in and around Coal-fired power plant were studied by collecting the various milk samples of Cow and Buffalo in clean polyethylene bottles. Milk samples collected at five different locations along the banks of the Paravanaru river in and around Neyveli area. These samples were prepared for trace metal determination. The concentration of trace metals (Cu, Zn, Ni, Cd, Cr, Mn, Co and Hg) were determined by Inductively Coupled Plasma-Atomic Emission Spectrometry (ICP-AES) and Cold Vapour Atomic Absorption Spectrometry (CVAAS). It is observed that the samples contain greater amounts of trace metals than that in the unexposed areas. Obviously the milk samples are contaminated with these metals due to fly ash released in such environment.

Determination of the Presence of Three Antimicrobials in Surface Water Collected from Urban and Rural Areas

PubMed Central

Iglesias, Alejandra; Nebot, Carolina; Miranda, Jose M.; Vázquez, Beatriz I.; Abuín, Carlos M. Franco; Cepeda, Alberto

2013-01-01

Due to the continuous release of antimicrobials into the environment, the aim of this study was to compare the frequency of detection of sulfamethazine, sulfamethoxypyridazine and trimethoprim in surface water collected from urban and rural areas in Northwestern Spain. A monitoring study was conducted with 314 river water samples analyzed by high-performance liquid chromatography coupled to tandem mass spectrometry. The results indicated that 37% of the samples contained residues of at least one of the investigated antimicrobials, and every sampling site yielded positive samples. At sites located near the discharge points of wastewater treatment plants and near the collection point of a drinking-water treatment plant, more than 6% of the samples were positive for the presence of antimicrobial residues. PMID:27029291

Electrofishing effort required to estimate biotic condition in southern Idaho Rivers

USGS Publications Warehouse

Maret, Terry R.; Ott, Douglas S.; Herlihy, Alan T.

2007-01-01

An important issue surrounding biomonitoring in large rivers is the minimum sampling effort required to collect an adequate number of fish for accurate and precise determinations of biotic condition. During the summer of 2002, we sampled 15 randomly selected large-river sites in southern Idaho to evaluate the effects of sampling effort on an index of biotic integrity (IBI). Boat electrofishing was used to collect sample populations of fish in river reaches representing 40 and 100 times the mean channel width (MCW; wetted channel) at base flow. Minimum sampling effort was assessed by comparing the relation between reach length sampled and change in IBI score. Thirty-two species of fish in the families Catostomidae, Centrarchidae, Cottidae, Cyprinidae, Ictaluridae, Percidae, and Salmonidae were collected. Of these, 12 alien species were collected at 80% (12 of 15) of the sample sites; alien species represented about 38% of all species (N = 32) collected during the study. A total of 60% (9 of 15) of the sample sites had poor IBI scores. A minimum reach length of about 36 times MCW was determined to be sufficient for collecting an adequate number of fish for estimating biotic condition based on an IBI score. For most sites, this equates to collecting 275 fish at a site. Results may be applicable to other semiarid, fifth-order through seventh-order rivers sampled during summer low-flow conditions.

Self-collected versus clinician-collected sampling for sexually transmitted infections: a systematic review and meta-analysis protocol.

PubMed

Taylor, Darlene; Lunny, Carole; Wong, Tom; Gilbert, Mark; Li, Neville; Lester, Richard; Krajden, Mel; Hoang, Linda; Ogilvie, Gina

2013-10-10

Three meta-analyses and one systematic review have been conducted on the question of whether self-collected specimens are as accurate as clinician-collected specimens for STI screening. However, these reviews predate 2007 and did not analyze rectal or pharyngeal collection sites. Currently, there is no consensus on which sampling method is the most effective for the diagnosis of genital chlamydia (CT), gonorrhea (GC) or human papillomavirus (HPV) infection. Our meta-analysis aims to be comprehensive in that it will examine the evidence of whether self-collected vaginal, urine, pharyngeal and rectal specimens provide as accurate a clinical diagnosis as clinician-collected samples (reference standard). Eligible studies include both randomized and non-randomized controlled trials, pre- and post-test designs, and controlled observational studies. The databases that will be searched include the Cochrane Database of Systematic Reviews, Web of Science, Database of Abstracts of Reviews of Effects (DARE), EMBASE and PubMed/Medline. Data will be abstracted independently by two reviewers using a standardized pre-tested data abstraction form. Heterogeneity will be assessed using the Q2 test. Sensitivity and specificity estimates with 95% confidence intervals as well as negative and positive likelihood ratios will be pooled and weighted using random effects meta-analysis, if appropriate. A hierarchical summary receiver operating characteristics curve for self-collected specimens will be generated. This synthesis involves a meta-analysis of self-collected samples (urine, vaginal, pharyngeal and rectal swabs) versus clinician-collected samples for the diagnosis of CT, GC and HPV, the most prevalent STIs. Our systematic review will allow patients, clinicians and researchers to determine the diagnostic accuracy of specimens collected by patients compared to those collected by clinicians in the detection of chlamydia, gonorrhea and HPV.

Design and evaluation of a field study on the contamination of selected volatile organic compounds and wastewater-indicator compounds in blanks and groundwater samples

USGS Publications Warehouse

Thiros, Susan A.; Bender, David A.; Mueller, David K.; Rose, Donna L.; Olsen, Lisa D.; Martin, Jeffrey D.; Bernard, Bruce; Zogorski, John S.

2011-01-01

The Field Contamination Study (FCS) was designed to determine the field processes that tend to result in clean field blanks and to identify potential sources of contamination to blanks collected in the field from selected volatile organic compounds (VOCs) and wastewater-indicator compounds (WICs). The VOCs and WICs analyzed in the FCS were detected in blanks collected by the U.S. Geological Survey (USGS) National Water-Quality Assessment (NAWQA) Program during 1996–2008 and 2002–08, respectively. To minimize the number of variables, the study required ordering of supplies just before sampling, storage of supplies and equipment in clean areas, and use of adequate amounts of purge-and-trap volatile-grade methanol and volatile pesticide-grade blank water (VPBW) to clean sampling equipment and to collect field blanks.Blanks and groundwater samples were collected during 2008–09 at 16 sites, which were a mix of water-supply and monitoring wells, located in 9 States. Five different sample types were collected for the FCS at each site: (1) a source-solution blank collected at the USGS National Water Quality Laboratory (NWQL) using laboratory-purged VPBW, (2) source-solution blanks collected in the field using laboratory-purged VPBW, (3) source-solution blanks collected in the field using field-purged VPBW, (4) a field blank collected using field-purged VPBW, and (5) a groundwater sample collected from a well. The source-solution blank and field-blank analyses were used to identify, quantify, and document extrinsic contamination and to help determine the sources and causes of data-quality problems that can affect groundwater samples.Concentrations of compounds detected in FCS analyses were quantified and results were stored in the USGS National Water Information System database after meeting rigorous identification and quantification criteria. The study also utilized information provided by laboratory analysts about evidence indicating the presence of selected compounds, using less rigorous identification criteria than is required for reporting data to the National Water Information System database. For the FCS, these data are considered adequate to indicate "evidence of presence," and were used only for diagnostic purposes. Evidence of VOCs and WICs at low concentrations near or less than the long-term method detection level can indicate a contamination problem that could affect future datasets if method detection levels were ever to be lowered.

Influence of tube type, storage time, and temperature on the total and free concentration of valproic acid.

PubMed

Tarasidis, C G; Garnett, W R; Kline, B J; Pellock, J M

1986-01-01

The influence of storage conditions on the total and free concentration of valproic acid (VPA) was studied in six normal male subjects who ingested 750 mg of VPA (3 X 250 mg Depakene capsules; Abbott Laboratories). Blood samples were collected in various types of Vacutainer tubes (red top, no additives; green top, sodium heparin; blue top, sodium citrate; and purple top, EDTA) 2 h post administration of VPA. Either these samples were centrifuged immediately or stored for various periods of time at room temperature or refrigerated, or the supernate was frozen prior to analysis. Free VPA samples were obtained utilizing the Amicon ultrafiltration system. All VPA samples were analyzed by gas-liquid chromatography. Total VPA concentrations obtained from plasma collected with sodium citrate were lower (p less than 0.05) than either serum or plasma collected with other anticoagulants. There were no differences (p greater than 0.05) in total or free VPA concentrations between samples collected in serum or in plasma collected with heparin or EDTA. Storing samples for 96 h at room temperature did not alter the total VPA concentrations but was found to increase the free fraction of VPA (p less than 0.05). The refrigeration or freezing of the supernate from the blood samples for 7 days did not alter (p greater than 0.05) the total or the free fraction of VPA. The results of this study demonstrate that total and/or free VPA may be collected from either serum or plasma, provided sodium citrate is not used to collect plasma.(ABSTRACT TRUNCATED AT 250 WORDS)

Radiochemical monitoring of water after the Cannikin event, Amchitka Island, Alaska, August 1974 and chemical monitoring from July 1972 to June 1974

USGS Publications Warehouse

Ballance, Wilbur C.; Thordarson, William

1976-01-01

Radiochemical data from the Arnchitka Island study area were obtained from water samples collected by the U.S. Geological Survey during August 1974. Tritium determinations were made on 18 samples, and gross alpha and gross beta/ gamma determinations were made on 12 samples. No appreciable differences were found between the data obtained during August 1974 and the data obtained before the Cannikin event. Chemical analyses were made on 4 samples collected in 1971, on 15 samples in 1972, on 11 samples in 1973, and 7 samples in 1974. Comparison of these analyses to analyses of samples collected before the Cannikin event indicates no changes outside of the seasonal range normally found at the sampling locations.

Biochemical monitoring of water after the Cannikin event, Amchitka Island, Alaska, August 1974 and chemical monitoring from July 1972--June 1974

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

Thordarson, W.; Ballance, W.C.

Radiochemical data from the Amchitka Island study area were obtained from water samples collected by the U. S. Geological Survey during August 1974. Tritium determinations were made on 18 samples, and gross alpha and gross beta/gamma determinations were made on 12 samples. No appreciable differences were found between the data obtained during August 1974 and the data obtained before the Cannikin event. Chemical analyses were made on 4 samples collected in 1971, on 15 samples in 1972, on 11 samples in 1973, and 7 samples in 1974. Comparison of these analyses to analyses of samples collected before the Cannikin eventmore » indicates no changes outside of the seasonal range normally found at the sampling locations.« less

Low-cost floating emergence net and bottle trap: Comparison of two designs

USGS Publications Warehouse

Cadmus, Pete; Pomeranz, Justin; Kraus, Johanna M.

2016-01-01

Sampling emergent aquatic insects is of interest to many freshwater ecologists. Many quantitative emergence traps require the use of aspiration for collection. However, aspiration is infeasible in studies with large amounts of replication that is often required in large biomonitoring projects. We designed an economic, collapsible pyramid-shaped floating emergence trap with an external collection bottle that avoids the need for aspiration. This design was compared experimentally to a design of similar dimensions that relied on aspiration to ensure comparable results. The pyramid-shaped design captured twice as many total emerging insects. When a preservative was used in bottle collectors, >95% of the emergent abundance was collected in the bottle. When no preservative was used, >81% of the total insects were collected from the bottle. In addition to capturing fewer emergent insects, the traps that required aspiration took significantly longer to sample. Large studies and studies sampling remote locations could benefit from the economical construction, speed of sampling, and capture efficiency.

A self-sampling method to obtain large volumes of undiluted cervicovaginal secretions.

PubMed

Boskey, Elizabeth R; Moench, Thomas R; Hees, Paul S; Cone, Richard A

2003-02-01

Studies of vaginal physiology and pathophysiology sometime require larger volumes of undiluted cervicovaginal secretions than can be obtained by current methods. A convenient method for self-sampling these secretions outside a clinical setting can facilitate such studies of reproductive health. The goal was to develop a vaginal self-sampling method for collecting large volumes of undiluted cervicovaginal secretions. A menstrual collection device (the Instead cup) was inserted briefly into the vagina to collect secretions that were then retrieved from the cup by centrifugation in a 50-ml conical tube. All 16 women asked to perform this procedure found it feasible and acceptable. Among 27 samples, an average of 0.5 g of secretions (range, 0.1-1.5 g) was collected. This is a rapid and convenient self-sampling method for obtaining relatively large volumes of undiluted cervicovaginal secretions. It should prove suitable for a wide range of assays, including those involving sexually transmitted diseases, microbicides, vaginal physiology, immunology, and pathophysiology.

Understanding biological mechanisms underlying adverse birth outcomes in developing countries: protocol for a prospective cohort (AMANHI bio–banking) study

PubMed Central

Baqui, Abdullah H; Khanam, Rasheda; Rahman, Mohammad Sayedur; Ahmed, Aziz; Rahman, Hasna Hena; Moin, Mamun Ibne; Ahmed, Salahuddin; Jehan, Fyezah; Nisar, Imran; Hussain, Atiya; Ilyas, Muhammad; Hotwani, Aneeta; Sajid, Muhammad; Qureshi, Shahida; Zaidi, Anita; Sazawal, Sunil; Ali, Said M; Deb, Saikat; Juma, Mohammed Hamad; Dhingra, Usha; Dutta, Arup; Ame, Shaali Makame; Hayward, Caroline; Rudan, Igor; Zangenberg, Mike; Russell, Donna; Yoshida, Sachiyo; Polašek, Ozren; Manu, Alexander; Bahl, Rajiv

2017-01-01

Objectives The AMANHI study aims to seek for biomarkers as predictors of important pregnancy–related outcomes, and establish a biobank in developing countries for future research as new methods and technologies become available. Methods AMANHI is using harmonised protocols to enrol 3000 women in early pregnancies (8–19 weeks of gestation) for population–based follow–up in pregnancy up to 42 days postpartum in Bangladesh, Pakistan and Tanzania, with collection taking place between August 2014 and June 2016. Urine pregnancy tests will be used to confirm reported or suspected pregnancies for screening ultrasound by trained sonographers to accurately date the pregnancy. Trained study field workers will collect very detailed phenotypic and epidemiological data from the pregnant woman and her family at scheduled home visits during pregnancy (enrolment, 24–28 weeks, 32–36 weeks & 38+ weeks) and postpartum (days 0–6 or 42–60). Trained phlebotomists will collect maternal and umbilical blood samples, centrifuge and obtain aliquots of serum, plasma and the buffy coat for storage. They will also measure HbA1C and collect a dried spot sample of whole blood. Maternal urine samples will also be collected and stored, alongside placenta, umbilical cord tissue and membrane samples, which will both be frozen and prepared for histology examination. Maternal and newborn stool (for microbiota) as well as paternal and newborn saliva samples (for DNA extraction) will also be collected. All samples will be stored at –80°C in the biobank in each of the three sites. These samples will be linked to numerous epidemiological and phenotypic data with unique study identification numbers. Importance of the study AMANHI biobank proves that biobanking is feasible to implement in LMICs, but recognises that biobank creation is only the first step in addressing current global challenges. PMID:29163938

Long-Term Follow-up of HPV Infection Using Urine and Cervical Quantitative HPV DNA Testing

PubMed Central

Vorsters, Alex; Van Keer, Severien; Biesmans, Samantha; Hens, Annick; De Coster, Ilse; Goossens, Herman; Ieven, Margareta; Van Damme, Pierre

2016-01-01

The link between infection with high-risk human papillomavirus (hrHPV) and cervical cancer has been clearly demonstrated. Virological end-points showing the absence of persistent HPV infection are now accepted as a way of monitoring the impact of prophylactic vaccination programs and therapeutic vaccine trials. This study investigated the use of urine samples, which can be collected by self-sampling at home, instead of cervical samples for follow-up of an HPV intervention trial. Eighteen initially HPV DNA-positive women participating in an HPV therapeutic vaccine trial were monitored during a three-year follow-up period. A total of 172 urine samples and 85 cervical samples were collected. We obtained a paired urine sample for each of the 85 cervical samples by recovering urine samples from six monthly gynaecological examinations. We performed a small pilot study in which the participating women used a urine collection device at home and returned their urine sample to the laboratory by mail. All samples were analyzed using quantitative real-time HPV DNA PCR. A good association (κ value of 0.65) was found between the presence of HPV DNA in urine and a subsequent cervical sample. Comparisons of the number of HPV DNA copies in urine and paired cervical samples revealed a significant Spearman rho of 0.676. This correlation was superior in women with severe lesions. The HPV DNA results of the small pilot study based on self-collected urine samples at home are consistent with previous and subsequent urine and/or cervical results. We demonstrated that urine sampling may be a valid alternative to cervical samples for the follow-up of HPV intervention trials or programs. The potential clinical value of urine viral load monitoring should be further investigated. PMID:27196899

Long-Term Follow-up of HPV Infection Using Urine and Cervical Quantitative HPV DNA Testing.

PubMed

Vorsters, Alex; Van Keer, Severien; Biesmans, Samantha; Hens, Annick; De Coster, Ilse; Goossens, Herman; Ieven, Margareta; Van Damme, Pierre

2016-05-17

The link between infection with high-risk human papillomavirus (hrHPV) and cervical cancer has been clearly demonstrated. Virological end-points showing the absence of persistent HPV infection are now accepted as a way of monitoring the impact of prophylactic vaccination programs and therapeutic vaccine trials. This study investigated the use of urine samples, which can be collected by self-sampling at home, instead of cervical samples for follow-up of an HPV intervention trial. Eighteen initially HPV DNA-positive women participating in an HPV therapeutic vaccine trial were monitored during a three-year follow-up period. A total of 172 urine samples and 85 cervical samples were collected. We obtained a paired urine sample for each of the 85 cervical samples by recovering urine samples from six monthly gynaecological examinations. We performed a small pilot study in which the participating women used a urine collection device at home and returned their urine sample to the laboratory by mail. All samples were analyzed using quantitative real-time HPV DNA PCR. A good association (κ value of 0.65) was found between the presence of HPV DNA in urine and a subsequent cervical sample. Comparisons of the number of HPV DNA copies in urine and paired cervical samples revealed a significant Spearman rho of 0.676. This correlation was superior in women with severe lesions. The HPV DNA results of the small pilot study based on self-collected urine samples at home are consistent with previous and subsequent urine and/or cervical results. We demonstrated that urine sampling may be a valid alternative to cervical samples for the follow-up of HPV intervention trials or programs. The potential clinical value of urine viral load monitoring should be further investigated.

Characterization of Macroinvertebrate Communities in the Hyporheic Zone of River Ecosystems Reflects the Pump-Sampling Technique Used

PubMed Central

Dole-Olivier, Marie-José; Galassi, Diana M. P.; Hogan, John-Paul; Wood, Paul J.

2016-01-01

The hyporheic zone of river ecosystems provides a habitat for a diverse macroinvertebrate community that makes a vital contribution to ecosystem functioning and biodiversity. However, effective methods for sampling this community have proved difficult to establish, due to the inaccessibility of subsurface sediments. The aim of this study was to compare the two most common semi-quantitative macroinvertebrate pump-sampling techniques: Bou-Rouch and vacuum-pump sampling. We used both techniques to collect replicate samples in three contrasting temperate-zone streams, in each of two biogeographical regions (Atlantic region, central England, UK; Continental region, southeast France). Results were typically consistent across streams in both regions: Bou-Rouch samples provided significantly higher estimates of taxa richness, macroinvertebrate abundance, and the abundance of all UK and eight of 10 French common taxa. Seven and nine taxa which were rare in Bou-Rouch samples were absent from vacuum-pump samples in the UK and France, respectively; no taxon was repeatedly sampled exclusively by the vacuum pump. Rarefaction curves (rescaled to the number of incidences) and non-parametric richness estimators indicated no significant difference in richness between techniques, highlighting the capture of more individuals as crucial to Bou-Rouch sampling performance. Compared to assemblages in replicate vacuum-pump samples, multivariate analyses indicated greater distinction among Bou-Rouch assemblages from different streams, as well as significantly greater consistency in assemblage composition among replicate Bou-Rouch samples collected in one stream. We recommend Bou-Rouch sampling for most study types, including rapid biomonitoring surveys and studies requiring acquisition of comprehensive taxon lists that include rare taxa. Despite collecting fewer macroinvertebrates, vacuum-pump sampling remains an important option for inexpensive and rapid sample collection. PMID:27723819

Sampling Design Influences the Observed Dominance of Culex tritaeniorhynchus: Considerations for Future Studies of Japanese Encephalitis Virus Transmission

PubMed Central

Lord, Jennifer S.; Al-Amin, Hasan Mohammad; Chakma, Sumit; Alam, Mohammad Shafiul; Gurley, Emily S.; Pulliam, Juliet R. C.

2016-01-01

Mosquito sampling during Japanese encephalitis virus (JEV)-associated studies, particularly in India, has usually been conducted via aspirators or light traps to catch mosquitoes around cattle, which are dead-end hosts for JEV. High numbers of Culex tritaeniorhynchus, relative to other species, have often been caught during these studies. Less frequently, studies have involved sampling outdoor resting mosquitoes. We aimed to compare the relative abundance of mosquito species between these two previously used mosquito sampling methods. From September to December 2013 entomological surveys were undertaken in eight villages in a Japanese encephalitis (JE) endemic area of Bangladesh. Light traps were used to collect active mosquitoes in households, and resting boxes and a Bina Pani Das hop cage were used near oviposition sites to collect resting mosquitoes. Numbers of humans and domestic animals present in households where light traps were set were recorded. In five villages Cx. tritaeniorhynchus was more likely to be selected from light trap samples near hosts than resting collection samples near oviposition sites, according to log odds ratio tests. The opposite was true for Cx. pseudovishnui and Armigeres subalbatus, which can also transmit JEV. Culex tritaeniorhynchus constituted 59% of the mosquitoes sampled from households with cattle, 28% from households without cattle and 17% in resting collections. In contrast Cx. pseudovishnui constituted 5.4% of the sample from households with cattle, 16% from households with no cattle and 27% from resting collections, while Ar. subalbatus constituted 0.15%, 0.38%, and 8.4% of these samples respectively. These observations may be due to differences in timing of biting activity, host preference and host-seeking strategy rather than differences in population density. We suggest that future studies aiming to implicate vector species in transmission of JEV should consider focusing catches around hosts able to transmit JEV. PMID:26726881

Sampling Design Influences the Observed Dominance of Culex tritaeniorhynchus: Considerations for Future Studies of Japanese Encephalitis Virus Transmission.

PubMed

Lord, Jennifer S; Al-Amin, Hasan Mohammad; Chakma, Sumit; Alam, Mohammad Shafiul; Gurley, Emily S; Pulliam, Juliet R C

2016-01-01

Mosquito sampling during Japanese encephalitis virus (JEV)-associated studies, particularly in India, has usually been conducted via aspirators or light traps to catch mosquitoes around cattle, which are dead-end hosts for JEV. High numbers of Culex tritaeniorhynchus, relative to other species, have often been caught during these studies. Less frequently, studies have involved sampling outdoor resting mosquitoes. We aimed to compare the relative abundance of mosquito species between these two previously used mosquito sampling methods. From September to December 2013 entomological surveys were undertaken in eight villages in a Japanese encephalitis (JE) endemic area of Bangladesh. Light traps were used to collect active mosquitoes in households, and resting boxes and a Bina Pani Das hop cage were used near oviposition sites to collect resting mosquitoes. Numbers of humans and domestic animals present in households where light traps were set were recorded. In five villages Cx. tritaeniorhynchus was more likely to be selected from light trap samples near hosts than resting collection samples near oviposition sites, according to log odds ratio tests. The opposite was true for Cx. pseudovishnui and Armigeres subalbatus, which can also transmit JEV. Culex tritaeniorhynchus constituted 59% of the mosquitoes sampled from households with cattle, 28% from households without cattle and 17% in resting collections. In contrast Cx. pseudovishnui constituted 5.4% of the sample from households with cattle, 16% from households with no cattle and 27% from resting collections, while Ar. subalbatus constituted 0.15%, 0.38%, and 8.4% of these samples respectively. These observations may be due to differences in timing of biting activity, host preference and host-seeking strategy rather than differences in population density. We suggest that future studies aiming to implicate vector species in transmission of JEV should consider focusing catches around hosts able to transmit JEV.

U.S.-MEXICO BORDER PROGRAM ARIZONA BORDER STUDY--STANDARD OPERATING PROCEDURE FOR COLLECTION, STORAGE, AND SHIPMENT OF DRINKING AND TAP WATER SAMPLES FOR PESTICIDES (EPA 225.2) AND CARBARYL (EPA 531.1) ANALYSIS (UA-F-17.1)

EPA Science Inventory

The purpose of this SOP is to describe how to collect, store, and ship tap and drinking water samples for analysis by EPA Method 525.2 (revision 1.0) and EPA method 531.1 (revision 3). This SOP provides a brief description of the sample containers, collection, preservation, stor...

Determination of air pollution-related biomarkers of exposure in urine of travellers between Germany and China using liquid chromatographic and liquid chromatographic-mass spectrometric methods: a pilot study.

PubMed

Wu, Xiao; Lintelmann, Jutta; Klingbeil, Sophie; Li, Jie; Wang, Hao; Kuhn, Evelyn; Ritter, Sebastian; Zimmermann, Ralf

2017-09-01

The influence of different exposures to PM 2.5 (particulate matter with an aerodynamic diameter below 2.5 μm) on the concentrations of biomarkers of exposure and oxidative stress should be investigated. For this purpose, urine samples from individuals travelling from Germany to China were collected and analysed. Robust LC and LC-MS/MS methods were established for the determination of biomarkers including 8-hydroxy-2'-deoxyguanosine, malondialdehyde, F 2α -isoprostanes and hydroxylated polycyclic aromatic hydrocarbons. As a pilot study, nine volunteers travelled from Germany (mean daily concentration of PM 2.5 : 21 μg/m 3 ) to China (mean daily concentration of PM 2.5 : 108 μg/m 3 ). Urine samples were collected before and after the trip. In samples collected after return to Germany, the median concentrations of oxidative stress biomarkers were observed to be higher than in samples collected before leaving Germany. Decreasing trends were observed in the sequences of samples collected after return in the following weeks. Correlations were found between exposure and oxidative stress biomarkers. Travellers are ideal models for PM pollution-induced acute health effects study. Exposure to PM pollution can cause oxidative stress and damage.

Critical study of common conditions of storage of glucocorticoids and catecholamines in 24-h urine collected during resting and exercising conditions.

PubMed

Gouarne, C; Foury, A; Duclos, M

2004-10-01

Except immediate freezing of the samples, no practical method has been validated for preservation of glucocorticoids and catecholamines in 24-h urine collection. Furthermore, the influence of urine storage at bladder temperature during periods of different lengths and the effect of prior exercise on preservation of these hormones in the bladder have not been investigated until now. Ten healthy volunteers collected their urine both after a resting and after an exercise session. Urine was aliquoted into tubes which were stored during 24 h in the presence or in the absence of preservatives and at different temperatures. Two samples were stored either 3 or 9 h at 37 degrees C (bladder temperature) without additive. When collecting 24-h urine samples for glucocorticoids determination, sample can be stored at room temperature during the 24-h collection period without compromising glucocorticoids preservation. When collecting 24-h urine samples for catecholamines determination, samples have to be chilled without preservative during the whole of the collection period. If the samples have to be stored at room temperature, HCl should be used. Moreover, we report for the first time that catecholamines can be degraded in the bladder and therefore that subjects should urinate every 3 h during either a resting or an exercising day.

A workflow to preserve genome-quality tissue samples from plants in botanical gardens and arboreta1

PubMed Central

Gostel, Morgan R.; Kelloff, Carol; Wallick, Kyle; Funk, Vicki A.

2016-01-01

Premise of the study: Internationally, gardens hold diverse living collections that can be preserved for genomic research. Workflows have been developed for genomic tissue sampling in other taxa (e.g., vertebrates), but are inadequate for plants. We outline a workflow for tissue sampling intended for two audiences: botanists interested in genomics research and garden staff who plan to voucher living collections. Methods and Results: Standard herbarium methods are used to collect vouchers, label information and images are entered into a publicly accessible database, and leaf tissue is preserved in silica and liquid nitrogen. A five-step approach for genomic tissue sampling is presented for sampling from living collections according to current best practices. Conclusions: Collecting genome-quality samples from gardens is an economical and rapid way to make available for scientific research tissue from the diversity of plants on Earth. The Global Genome Initiative will facilitate and lead this endeavor through international partnerships. PMID:27672517

A new sampler for stratified lagoon chemical and microbiological assessments.

PubMed

McLaughlin, M R; Brooks, J P; Adeli, A

2014-07-01

A sampler was needed for a spatial and temporal study of microbial and chemical stratification in a large swine manure lagoon that was known to contain zoonotic bacteria. Conventional samplers were limited to collections of surface water samples near the bank or required a manned boat. A new sampler was developed to allow simultaneous collection of multiple samples at different depths, up to 2.3 m, without a manned boat. The sampler was tethered for stability, used remote control (RC) for sample collection, and accommodated rapid replacement of sterile tubing modules and sample containers. The sampler comprised a PVC pontoon with acrylic deck and watertight enclosures, for a 12 VDC gearmotor, to operate the collection module, and vacuum system, to draw samples into reusable autoclavable tubing and 250-mL bottles. Although designed primarily for water samples, the sampler was easily modified to collect sludge. The sampler held a stable position during deployment, created minimal disturbance in the water column, and was readily cleaned and sanitized for transport. The sampler was field tested initially in a shallow fresh water lake and subsequently in a swine manure treatment lagoon. Analyses of water samples from the lagoon tests showed that chemical and bacterial levels, pH, and EC did not differ between 0.04, 0.47, and 1.0 m depths, but some chemical and bacterial levels differed between winter and spring collections. These results demonstrated the utility of the sampler and suggested that future manure lagoon studies employ fewer or different depths and more sampling dates.

Data Stewardship in the Ocean Sciences Needs to Include Physical Samples

NASA Astrophysics Data System (ADS)

Carter, M.; Lehnert, K.

2016-02-01

Across the Ocean Sciences, research involves the collection and study of samples collected above, at, and below the seafloor, including but not limited to rocks, sediments, fluids, gases, and living organisms. Many domains in the Earth Sciences have recently expressed the need for better discovery, access, and sharing of scientific samples and collections (EarthCube End-User Domain workshops, 2012 and 2013, http://earthcube.org/info/about/end-user-workshops), as has the US government (OSTP Memo, March 2014). iSamples (Internet of Samples in the Earth Sciences) is a Research Coordination Network within the EarthCube program that aims to advance the use of innovative cyberinfrastructure to support and advance the utility of physical samples and sample collections for science and ensure reproducibility of sample-based data and research results. iSamples strives to build, grow, and foster a new community of practice, in which domain scientists, curators of sample repositories and collections, computer and information scientists, software developers and technology innovators engage in and collaborate on defining, articulating, and addressing the needs and challenges of physical samples as a critical component of digital data infrastructure. A primary goal of iSamples is to deliver a community-endorsed set of best practices and standards for the registration, description, identification, and citation of physical specimens and define an actionable plan for implementation. iSamples conducted a broad community survey about sample sharing and has created 5 different working groups to address the different challenges of developing the internet of samples - from metadata schemas and unique identifiers to an architecture for a shared cyberinfrastructure to manage collections, to digitization of existing collections, to education, and ultimately to establishing the physical infrastructure that will ensure preservation and access of the physical samples. Repositories that curate marine sediment cores and dredge samples from the oceanic crust are participating in iSamples, but many other samples collected in the Ocean sciences are not yet represented. This presentation aims to engage a wider spectrum of Ocean scientists and sample curators in iSamples.

NHEXAS PHASE I ARIZONA STUDY--STANDARD OPERATING PROCEDURE FOR COLLECTION OF PERSONAL AIR SAMPLES FOR ANALYSIS OF PESTICIDES OR METALS (UA-F-14.0)

EPA Science Inventory

The purpose of this SOP is to describe the procedure for sampling personal air for metals and pesticides during a predetermined time period. The SOP includes the set up of the samplers for collection of either a metals sample or a pesticides sample, the calibration and initial c...

Correcting for the influence of sampling conditions on biomarkers of exposure to phenols and phthalates: a 2-step standardization method based on regression residuals.

PubMed

Mortamais, Marion; Chevrier, Cécile; Philippat, Claire; Petit, Claire; Calafat, Antonia M; Ye, Xiaoyun; Silva, Manori J; Brambilla, Christian; Eijkemans, Marinus J C; Charles, Marie-Aline; Cordier, Sylvaine; Slama, Rémy

2012-04-26

Environmental epidemiology and biomonitoring studies typically rely on biological samples to assay the concentration of non-persistent exposure biomarkers. Between-participant variations in sampling conditions of these biological samples constitute a potential source of exposure misclassification. Few studies attempted to correct biomarker levels for this error. We aimed to assess the influence of sampling conditions on concentrations of urinary biomarkers of select phenols and phthalates, two widely-produced families of chemicals, and to standardize biomarker concentrations on sampling conditions. Urine samples were collected between 2002 and 2006 among 287 pregnant women from Eden and Pélagie cohorts, from which phthalates and phenols metabolites levels were assayed. We applied a 2-step standardization method based on regression residuals. First, the influence of sampling conditions (including sampling hour, duration of storage before freezing) and of creatinine levels on biomarker concentrations were characterized using adjusted linear regression models. In the second step, the model estimates were used to remove the variability in biomarker concentrations due to sampling conditions and to standardize concentrations as if all samples had been collected under the same conditions (e.g., same hour of urine collection). Sampling hour was associated with concentrations of several exposure biomarkers. After standardization for sampling conditions, median concentrations differed by--38% for 2,5-dichlorophenol to +80 % for a metabolite of diisodecyl phthalate. However, at the individual level, standardized biomarker levels were strongly correlated (correlation coefficients above 0.80) with unstandardized measures. Sampling conditions, such as sampling hour, should be systematically collected in biomarker-based studies, in particular when the biomarker half-life is short. The 2-step standardization method based on regression residuals that we proposed in order to limit the impact of heterogeneity in sampling conditions could be further tested in studies describing levels of biomarkers or their influence on health.

Composition and Morphology of Major Particle Types from Airborne Measurements during ICE-T and PRADACS Field Studies

NASA Astrophysics Data System (ADS)

Venero, I. M.; Mayol-Bracero, O. L.; Anderson, J. R.

2012-12-01

As part of the Puerto Rican African Dust and Cloud Study (PRADACS) and the Ice in Clouds Experiment - Tropical (ICE-T), we sampled giant airborne particles to study their elemental composition, morphology, and size distributions. Samples were collected in July 2011 during field measurements performed by NCAR's C-130 aircraft based on St Croix, U.S Virgin Island. The results presented here correspond to the measurements done during research flight #8 (RF8). Aerosol particles with Dp > 1 um were sampled with the Giant Nuclei Impactor and particles with Dp < 1 um were collected with the Wyoming Inlet. Collected particles were later analyzed using an automated scanning electron microscope (SEM) and manual observation by field emission SEM. We identified the chemical composition and morphology of major particle types in filter samples collected at different altitudes (e.g., 300 ft, 1000 ft, and 4500ft). Results from the flight upwind of Puerto Rico show that particles in the giant nuclei size range are dominated by sea salt. Samples collected at altitudes 300 ft and 1000 ft showed the highest number of sea salt particles and the samples collected at higher altitudes (> 4000 ft) showed the highest concentrations of clay material. HYSPLIT back trajectories for all samples showed that the low altitude samples initiated in the free troposphere in the Atlantic Ocean, which may account for the high sea salt content and that the source of the high altitude samples was closer to the Saharan - Sahel desert region and, therefore, these samples possibly had the influence of African dust. Size distribution results for quartz and unreacted sea-salt aerosols collected on the Giant Nuclei Impactor showed that sample RF08 - 12:05 UTM (300 ft) had the largest size value (mean = 2.936 μm) than all the other samples. Additional information was also obtained from the Wyoming Inlet present at the C - 130 aircraft which showed that size distribution results for all particles were smaller in size. The different mineral components of the dust have different size distributions so that a fractionation process could occur during transport. Also, the presence of supermicron sea salt at altitude is important for cloud processes.

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

Monroy, G.J. Keene, F.E.

A study to address Ambos (Both) Nogales' air quality concerns was conducted by the Arizona Department of Environmental Quality (ADEQ), in conjunction with Mexico's Secretaria de Medio Ambiente, Recursos Naturales y Pesca (SEMARNAP), from 1994 to 1998. The study, which is part of the US-Mexico Border XXI Program, consisted of the following tasks: (1) air sampling/monitoring; (2) emissions inventory; (3) meteorological modeling; and, (4) health risk assessment. The following types of samples were collected: particulate matter (PM); volatile organic compounds; semi-volatile organic compounds; and aldehydes. All samples were collected for a 24-hour period; every sixth day during the warm monthsmore » (April--September), and every third day during the cold months (October--March). There were a total of six sampling stations; three on each side of the border. PM samples were collected at all six sites, while samples for Hazardous Air Pollutants (HAPs) were collected at four of those sites. Sample analyses were performed at the Desert Research Institute (DRI) in Reno, Nevada. Furthermore, four of the sites were outfitted with meteorological equipment, in order to gather data on wind speed and direction. PM and meteorological data are still being collected at two sampling sites, one in Arizona and one in Sonora. An emissions inventory of point, mobile and area sources for the Ambos Nogales area (12 x 19 km. domain), was developed following completion of the sampling effort. In order to accomplish this task, ADEQ contracted the services of RADIAN International and Powers Engineering; which in turn enlisted the services of Heuristica Ambiental of Hermosillo, Sonora. This task was completed in July, 1997. Vehicular emissions were found to be one of the main contributors of air emissions in the Ambos Nogales area. The third task of this project consisted developing meteorological models of the study area.« less

Quality of groundwater at and near an aquifer storage and recovery site, Bexar, Atascosa, and Wilson Counties, Texas, June 2004-August 2008

USGS Publications Warehouse

Otero, Cassi L.; Petri, Brian L.

2010-01-01

The U.S. Geological Survey, in cooperation with the San Antonio Water System, did a study during 2004-08 to characterize the quality of native groundwater from the Edwards aquifer and pre- and post-injection water from the Carrizo aquifer at and near an aquifer storage and recovery (ASR) site in Bexar, Atascosa, and Wilson Counties, Texas. Groundwater samples were collected and analyzed for selected physical properties and constituents to characterize the quality of native groundwater from the Edwards aquifer and pre- and post-injection water from the Carrizo aquifer at and near the ASR site. Geochemical and isotope data indicated no substantial changes in major-ion, trace-element, and isotope chemistry occurred as the water from the Edwards aquifer was transferred through a 38-mile pipeline to the aquifer storage and recovery site. The samples collected from the four ASR recovery wells were similar in major-ion and stable isotope chemistry compared to the samples collected from the Edwards aquifer source wells and the ASR injection well. The similarity could indicate that as Edwards aquifer water was injected, it displaced native Carrizo aquifer water, or, alternatively, if mixing of Edwards and Carrizo aquifer waters was occurring, the major-ion and stable isotope signatures for the Carrizo aquifer water might have been obscured by the signatures of the injected Edwards aquifer water. Differences in the dissolved iron and dissolved manganese concentrations indicate that either minor amounts of mixing occurred between the waters from the two aquifers, or as Edwards aquifer water displaced Carrizo aquifer water it dissolved the iron and manganese directly from the Carrizo Sand. Concentrations of radium-226 in the samples collected at the ASR recovery wells were smaller than the concentrations in samples collected from the Edwards aquifer source wells and from the ASR injection well. The smaller radium-226 concentrations in the samples collected from the ASR recovery wells likely indicate some degree of mixing of the two waters occurred rather than continued decay of radium-226 in the injected water. Geochemical and isotope data measured in samples collected in May 2005 from two Carrizo aquifer monitoring wells and in July 2008 from the three ASR production-only wells in the northern section of the ASR site indicate that injected Edwards aquifer water had not migrated to these five sites. Geochemical and isotope data measured in samples collected from Carrizo aquifer wells in 2004, 2005, and 2008 were graphically analyzed to determine if changes in chemistry could be detected. Major-ion, trace element, and isotope chemistry varied spatially in the samples collected from the Carrizo aquifer. With the exception of a few samples, major-ion concentrations measured in samples collected in Carrizo aquifer wells in 2004, 2005, and 2008 were similar. A slightly larger sulfate con-centration and a slightly smaller bicarbonate concentration were measured in samples collected in 2005 and 2008 from well NC1 compared to samples collected at well NC1 in 2004. Larger sodium concentrations and smaller calcium, magnesium, bicarbonate, and sulfate concentrations were measured in samples collected in 2008 from well WC1 than in samples collected at this well in 2004 and 2005. Larger calcium and magnesium concentrations and a smaller sodium concentration were measured in the samples collected in 2008 at well EC2 compared to samples collected at this well in 2004 and 2005. While in some cases the computed percent differences (compared to concentrations from June 2004) in dissolved iron and dissolved manganese concentrations in 11 wells sampled in the Carrizo aquifer in 2005 and 2008 were quite large, no trends that might have been caused by migration of injected Edwards aquifer water were observed. Because of the natural variation in geochemical data in the Carrizo aquifer and the small data set collected for this study, differences in major-ion and

Ease, Comfort, and Performance of the HerSwab Vaginal Self-Sampling Device for the Detection of Chlamydia trachomatis and Neisseria gonorrhoeae.

PubMed

Arias, Manuel; Jang, Dan; Gilchrist, Jodi; Luinstra, Kathy; Li, Jenny; Smieja, Marek; Chernesky, Max A

2016-02-01

Many sexually transmitted diseases are asymptomatic in the lower genital tract and can cause upper tract complications if left untreated. Self-collected vaginal (SCV) swabs enable the accurate detection of many sexually transmitted infections and give women the option of collecting their own samples while providing them with privacy and convenience. We compared SCV samples collected and transported dry using the HerSwab device to physician-collected vaginal (PCV) Aptima swabs for the detection of Chlamydia trachomatis (CT) and Neisseria gonorrhoeae (NG), and measured patients' ease and comfort with self-collection. A total of 189 women aged 16 to 41 years were consented into the study and answered a standardized anonymized questionnaire regarding self-collection with the HerSwab device. Women reported self-collection with HerSwab to be easy (97.1%) and comfortable (88.3%). They preferred self-collection over physician collection (80.9%) and would consider using HerSwab for self-collection at home (79.7%). Samples of SCV and PCV showed an overall agreement of 94.7% (κ = 0.64) for CT and of 98.4% (κ = 0.56) for NG, and HerSwab collection detected 7 more positive patients than PCV collection. The overall prevalence of infection was 10.6% for CT and 2.6% for NG. HerSwab SCV samples are suitable for the diagnosis of CT and NG.

ATMOSPHERIC VOLATILE ORGANIC COMPOUND MEASUREMENTS DURING THE 1996 PASO DEL NORTE OZONE STUDY

EPA Science Inventory

Ambient air VOC samples were collected at surface air quality monitoring sites, near sources of interest, and aloft on the US (El Paso) and Mexican (Ciudad Juarez) side of the border during a six-week period of the 1996 Paso del Norte Ozone Study. Samples were collected at five...

CTEPP STANDARD OPERATING PROCEDURE FOR COLLECTION OF FOOD PREPARATION SURFACE WIPE SAMPLES FOR PERSISTENT ORGANIC POLLUTANTS (SOP-2.17)

EPA Science Inventory

This SOP describes the method for collection of the food preparation surface wipe samples for the measurement of persistent organic pollutants (POP). This method uses a wipe to collect POP residues from a surface where a study participant prepares food the most often (i.e., kitch...

Questa baseline and pre-mining ground-water quality investigation. 2. Low-flow (2001) and snowmelt (2002) synoptic/tracer water chemistry for the Red River, New Mexico

USGS Publications Warehouse

McCleskey, R. Blaine; Nordstrom, D. Kirk; Steiger, Judy I.; Kimball, Briant A.; Verplanck, Philip L.

2003-01-01

Water analyses are reported for 259 samples collected from the Red River, New Mexico, and its tributaries during low-flow(2001) and spring snowmelt (2002) tracer studies. Water samples were collected along a 20-kilometer reach of the Red River beginning just east of the town of Red River and ending at the U.S. Geological Survey streamflow-gaging station located east of Questa, New Mexico. The study area was divided into three sections where separate injections and synoptic sampling events were performed during the low-flow tracer study. During the spring snowmelt tracer study, three tracer injections and synoptic sampling events were performed bracketing the areas with the greatest metal loading into the Red River as determined from the low-flow tracer study. The lowflow tracer synoptic sampling events were August 17, 20, and 24, 2001. The synoptic sampling events for the spring snowmelt tracer were March 30, 31, and April 1, 2002. Stream and large inflow water samples were sampled using equal-width and depth-integrated sampling methods and composited into half-gallon bottles. Grab water samples were collected from smaller inflows. Stream temperatures were measured at the time of sample collection. Samples were transported to a nearby central processing location where pH and specific conductance were measured and the samples processed for chemical analyses. Cations, trace metals, iron redox species, and fluoride were analyzed at the U.S. Geological Survey laboratory in Boulder, Colorado. Cations and trace metal concentrations were determined using inductively coupled plasma-optical emission spectrometry and graphite furnace atomic absorption spectrometry. Arsenic concentrations were determined using hydride generation atomic absorption spectrometry, iron redox species were measured using ultraviolet-visible spectrometry, and fluoride concentrations were determined using an ion-selective electrode. Alkalinity was measured by automated titration, and sulfate, chloride, and bromide were analyzed by ion chromatography at the U.S. Geological Survey laboratory in Salt Lake City, Utah.

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.

Analytical data from phases I and II of the Willamette River basin water quality study, Oregon

USGS Publications Warehouse

Harrison, Howard E.; Anderson, Chauncey W.; Rinella, Frank A.; Gasser, Timothy M.; Pogue, Ted R.

1995-01-01

The data were collected at 50 sites, representing runoff from agricultural, forested, and urbanized subbasins. In Phase I, water samples were collected during high and low flows in 1992 and 1993 to represent a wide range of hydrologic conditions. Bed-sediment samples were collected during low flows in 1993. In Phase II, water samples were collected in the spring of 1994 after the first high-flow event following the application of agricultural fertilizers and pesticides and in the fall during the first high-flow events following the conclusion of the agricultural season.

From Field to the Web: Management and Publication of Geoscience Samples in CSIRO Mineral Resources

NASA Astrophysics Data System (ADS)

Devaraju, A.; Klump, J. F.; Tey, V.; Fraser, R.; Reid, N.; Brown, A.; Golodoniuc, P.

2016-12-01

Inaccessible samples are an obstacle to the reproducibility of research and may cause waste of time and resources through duplication of sample collection and management. Within the Commonwealth Scientific and Industrial Research Organisation (CSIRO) Mineral Resources there are various research communities who collect or generate physical samples as part of their field studies and analytical processes. Materials can be varied and could be rock, soil, plant materials, water, and even synthetic materials. Given the wide range of applications in CSIRO, each researcher or project may follow their own method of collecting, curating and documenting samples. In many cases samples and their documentation are often only available to the sample collector. For example, the Australian Resources Research Centre stores rock samples and research collections dating as far back as the 1970s. Collecting these samples again would be prohibitively expensive and in some cases impossible because the site has been mined out. These samples would not be easily discoverable by others without an online sample catalog. We identify some of the organizational and technical challenges to provide unambiguous and systematic access to geoscience samples, and present their solutions (e.g., workflow, persistent identifier and tools). We present the workflow starting from field sampling to sample publication on the Web, and describe how the International Geo Sample Number (IGSN) can be applied to identify samples along the process. In our test case geoscientific samples are collected as part of the Capricorn Distal Footprints project, a collaboration project between the CSIRO, the Geological Survey of Western Australia, academic institutions and industry partners. We conclude by summarizing the values of our solutions in terms of sample management and publication.

A comparison of solids collected in sediment traps and automated water samplers

USGS Publications Warehouse

Bartsch, L.A.; Rada, R.G.; Sullivan, J.F.

1996-01-01

Sediment traps are being used in some pollution monitoring programs in the USA to sample suspended solids for contaminant analyses. This monitoring approach assumes that the characteristics of solids obtained in sediment traps are the same as those collected in whole-water sampling devices. We tested this assumption in the upper Mississippi River, based on the inorganic particle-size distribution (determined with a laser particle- analyzer) and volatile matter content of solids (a surrogate for organic matter). Cylindrical sediment traps (aspect ratio 3) were attached to a rigid mooring device and deployed in a flowing side channel in Navigation Pool 7 of the upper Mississippi River. On each side of the mooring device, a trap was situated adjacent to a port of an autosampler that collected raw water samples hourly to form 2-d composite samples. Paired samples (one trap and one raw water, composite sample) were removed from each end of the mooring device at 2-d intervals during the 30-d study period and compared. The relative particle collection efficiency of paired samplers did not vary temporally. Particle-size distributions of inorganic solids from sediment traps and water samples were not significantly different. The volatile matter content of solids was lesser in sediment traps (mean, 9.5%) than in corresponding water samples (mean, 22.7%). This bias may have been partly due to under-collection of phytoplankton (mainly cyanobacteria), which were abundant in the water column during the study. The positioning of water samplers and sediment traps in the mooring device did not influence the particle-size distribution or total solids of samples. We observed a small difference in the amount of organic matter collected by water samplers situated at opposite ends of the mooring device.

78 FR 61324 - Agency Information Collection Activities: Proposed Collection; Comment Request-Special Nutrition...

Federal Register 2010, 2011, 2012, 2013, 2014

2013-10-03

... Programs. The study is designed to collect data from a nationally representative sample of public School... the on-site data collection that was included in Year 2. The study will provide general descriptive... study will help FNS obtain: [ssquf] General descriptive data on the CN programs characteristics to help...

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.

Evaluation of a new simple collection device for sampling of microparticles in exhaled breath.

PubMed

Seferaj, Sabina; Ullah, Shahid; Tinglev, Åsa; Carlsson, Sten; Winberg, Jesper; Stambeck, Peter; Beck, Olof

2018-03-12

The microparticle fraction of exhaled breath is of interest for developing clinical biomarkers. Exhaled particles may contain non-volatile components from all parts of the airway system, formed during normal breathing. This study aimed to evaluate a new, simple sampling device, based on impaction, for collecting microparticles from exhaled breath. Performance of the new device was compared with that of the existing SensAbues membrane filter device. The analytical work used liquid chromatography-tandem mass spectrometry methods. The new device collected three subsamples and these were separately analysed from eight individuals. No difference was observed between the centre position (0.91 ng/sample) and the side positions (1.01 ng/sample) using major phosphatidylcholine (PC) 16:0/16:0 as the analyte. Exhaled breath was collected from eight patients on methadone maintenance treatment. The intra-individual variability in measured methadone concentration between the three collectors was 8.7%. In another experiment using patients on methadone maintenance treatment, the sampling efficiency was compared with an established filter device. Compared to the existing device, the efficiency of the new device was 121% greater for methadone and 1450% greater for DPPC. The data from lipid analysis also indicated that a larger fraction of the collected material was from the distal parts. Finally, a study using an optical particle counter indicated that the device preferentially collects the larger particle fraction. In conclusion, this study demonstrates the usefulness of the new device for collecting non-volatile components from exhaled breath. The performance of the device was superior to the filter device in several aspects.

Evaluation of human papillomavirus detection by Abbott m2000 system on samples collected by FTA Elute™ Card in a Chinese HIV-1 positive population.

PubMed

Qin, Yu; Zhang, Hongyun; Marlowe, Natalia; Fei, Mandong; Yu, Judy; Lei, Xiaoqin; Yu, Lulu; Zhang, Jia; Cao, Di; Ma, Li; Chen, Wen

2016-12-01

HIV+/AIDS women have an increased risk of developing into CIN and cervical cancer compared to the general population. Limited medical resource and the lack of AIDS relevant knowledge impair the coverage and efficiency of cervical cancer screening. To compare the clinical performance of self-collected dry storage medium (FTA Elute card) and physician-collected PreservCyt medium in detection of high risk human papillomavirus (HR HPV) among HIV-1 positive population. Three hundred HIV-1 positive women (aged 25-65) were recruited from Yunnan infectious hospital. Two cervicovaginal samples were collected from each participant: one was collected by the women themselves and applied on a FTA Elute card; the other one was collected by a physician and stored in PreservCyt solution. All the samples were tested for 14 HR HPV using Abbott RealTime High Risk HPV assay. Biopsies were taken for histological diagnosis if any abnormal impression was noticed under colposcopy. 291 (97.0%) of participants were eligible for this study. 101 (34.70%) participants were found HR HPV positive in both FTA card and PreservCyt samples, and 19 (6.53%) women were diagnosed as CIN2+. The HR HPV positive rate on samples collected by FTA Elute card and PreservCyt solution was 42.61% and 39.86%, respectively. The overall agreement was 87% (kappa=0.731) between FTA card and PreservCyt. The clinical sensitivity and specificity of FTA card and PreservCyt were 100%, 61.39% and 100%, 64.33%, respectively. In this study, FTA Elute card demonstrated a good performance on self-collected sample for HR HPV detection in HIV-1 positive population. For the women from low-resource area with HIV-1 infection, FTA Elute card could be an attractive sample collection method for cervical cancer screening. Copyright © 2016 Elsevier B.V. All rights reserved.

Evaluation of standardized sample collection, packaging, and ...

EPA Pesticide Factsheets

Journal Sample collection procedures and primary receptacle (sample container and bag) decontamination methods should prevent contaminant transfer between contaminated and non-contaminated surfaces and areas during bio-incident operations. Cross-contamination of personnel, equipment, or sample containers may result in the exfiltration of biological agent from the exclusion (hot) zone and have unintended negative consequences on response resources, activities and outcomes. The current study was designed to: (1) evaluate currently recommended sample collection and packaging procedures to identify procedural steps that may increase the likelihood of spore exfiltration or contaminant transfer; (2) evaluate the efficacy of currently recommended primary receptacle decontamination procedures; and (3) evaluate the efficacy of outer packaging decontamination methods. Wet- and dry-deposited fluorescent tracer powder was used in contaminant transfer tests to qualitatively evaluate the currently-recommended sample collection procedures. Bacillus atrophaeus spores, a surrogate for Bacillus anthracis, were used to evaluate the efficacy of spray- and wipe-based decontamination procedures.

Occurrence of antibiotics in water from 13 fish hatcheries, 2001-2003

USGS Publications Warehouse

Dietze, J.E.; Scribner, E.A.; Meyer, M.T.; Kolpin, D.W.

2005-01-01

A 2-year study of extensive and intensive fish hatcheries was conducted to assess the general temporal occurrence of antibiotics in aquaculture. Antibiotics were detected in 15% of the water samples collected during the 2001-2002 collection period and in 31% of the samples during the 2003 collection period. Antibiotics were detected more frequently in samples from the intensive hatcheries (17 and 39%) than in samples from the extensive hatcheries (14 and 4%) during the 2001-2002 and 2003 collection periods, respectively. The maximum ormetoprim, oxytetracycline, and sulphadimethoxine concentrations were higher in samples from the intensive hatcheries (12, 10, and 36 µg L-1), respectively, than in samples from the extensive hatcheries (<0.05, 0.31, and 1.2 µg L-1), respectively. Sulphadimethoxine persisted for a longer period of time (up to 48 days) than ormetoprim (up to 28 days) and oxytetracycline (less than 20 days).

USGS/EPA collection protocol for bacterial pathogens in soil

USGS Publications Warehouse

Griffin, Dale W.; Shaefer, F.L.; Charlena Bowling,; Dino Mattorano,; Tonya Nichols,; Erin Silvestri,

2014-01-01

This Sample Collection Procedure (SCP) describes the activities and considerations for the collection of bacterial pathogens from representative surface soil samples (0-5 cm). This sampling depth can be reached without the use of a drill rig, direct-push technology, or other mechanized equipment. This procedure can be used in most soil types but is limited to sampling at or near the ground surface. This protocol has components for two different types of sampling applications: (1) typical sampling, when there is no suspicion of contamination (e.g., surveillance or background studies); and (2) in response to known or suspected accidental contamination (e.g., the presence of animal carcasses). This protocol does not cover sampling in response to a suspected bioterrorist or intentional release event. Surface material is removed to the required depth (0-5 cm) and clean trowel or 50 ml sample tube is used to collect the sample. Sample containers are sealed, bagged, and shipped to the laboratory for analysis. Associated documentation, including a Field Data Log and Chain-of-Custody are also included in this document.

Stream-water and groundwater quality in and near the Citizen Potawatomi Nation Tribal Jurisdictional Area, Pottawatomie County, Oklahoma, 2012-13

USGS Publications Warehouse

Becker, Carol J.

2014-01-01

Concentrations of the radionuclide uranium ranged from 0.03 to 79.5 µg/L, with a median concentration of 1.9 µg/L in the 30 groundwater samples collected. Two of the groundwater samples collected for this study had uranium concentrations exceeding the MCL of 30 µg/L, with concentrations of 79.5 and 31.1 µg/L. Generally, uranium concentrations were highest in water samples collected from wells completed in the Wellington Formation and the Chase, Council Grove, and Admire Groups in the southern and eastern parts of the study area.

Long-term storage of salivary cortisol samples at room temperature

NASA Technical Reports Server (NTRS)

Chen, Yu-Ming; Cintron, Nitza M.; Whitson, Peggy A.

1992-01-01

Collection of saliva samples for the measurement of cortisol during space flights provides a simple technique for studying changes in adrenal function due microgravity. In the present work, several methods for preserving saliva cortisol at room temperature were investigated using radioimmunoassays for determining cortisol in saliva samples collected on a saliva-collection device called Salivettes. It was found that a pretreatment of Salivettes with citric acid resulted in preserving more than 85 percent of the salivary cortisol for as long as six weeks. The results correlated well with those for a sample stored in a freezer on an untreated Salivette.

A study on the levels of a polybrominated biphenyl in Chinese human milk samples collected in 2007 and 2011.

PubMed

Liu, Xiao; Wen, Sheng; Li, Jingguang; Zhang, Lei; Zhao, Yunfeng; Wu, Yongning

2016-09-01

The levels of a 2,2',4,4',5,5'-hexabromobiphenyl (BB-153) were measured in human milk samples collected in 2007 and 2011 from residents in China by high-resolution gas chromatography-high-resolution mass chromatography (HRGC-HRMS) with isotope dilution. The median concentrations of BB-153 from the samples collected in 2007 and 2011 were 8.3 and 7.2 pg/g lipid weight, respectively. The levels of BB-153 in the human milk collected from rural areas were not significantly different to those collected from the urban areas in China. Meanwhile, significant positive correlations were found between the levels of BB-153 in human milk and the consumption of animal-origin foods. In the present study, the mean levels of BB-153 in human milk from Chinese mothers were found to be lower than those from European and American mothers.

Analytical results and sample locality map for rock, stream-sediment, and soil samples, Northern and Eastern Coloado Desert BLM Resource Area, Imperial, Riverside, and San Bernardino Counties, California

USGS Publications Warehouse

King, Harley D.; Chaffee, Maurice A.

2000-01-01

INTRODUCTION In 1996-1998 the U.S. Geological Survey (USGS) conducted a geochemical study of the Bureau of Land Management's (BLM) 5.5 million-acre Northern and Eastern Colorado Desert Resource Area (usually referred to as the NECD in this report), Imperial, Riverside, and San Bernardino Counties, southeastern California (figure 1). This study was done in support of the BLM's Coordinated Management Plan for the area. This report presents analytical data from this study. To provide comprehensive coverage of the NECD, we compiled and examined all available geochemical data, in digital form, from previous studies in the area, and made sample-site plots to aid in determining where sample-site coverage and analyses were sufficient, which samples should be re-analyzed, and where additional sampling was needed. Previous investigations conducted in parts of the current study area included the National Uranium Resource Evaluation (NURE) program studies of the Needles and Salton Sea 1? x 2? quadrangles; USGS studies of 12 BLM Wilderness Study Areas (WSAs) (Big Maria Mountains, Chemehuevi Mountains, Chuckwalla Mountains, Coxcomb Mountains, Mecca Hills, Orocopia Mountains, Palen-McCoy, Picacho Peak, Riverside Mountains, Sheephole Valley (also known as Sheep Hole/Cadiz), Turtle Mountains, and Whipple Mountains); and USGS studies in the Needles and El Centro 1? x 2? quadrangles done during the early 1990s as part of a project to identify the regional geochemistry of southern California. Areas where we did new sampling of rocks and stream sediments are mainly in the Chocolate Mountain Aerial Gunnery Range and in Joshua Tree National Park, which extends into the west-central part of the NECD, as shown in figure 1 and figure 2. This report contains analytical data for 132 rock samples and 1,245 stream-sediment samples collected by the USGS, and 362 stream-sediment samples and 189 soil samples collected during the NURE program. All samples are from the Northern and Eastern Colorado Desert BLM Resource Area and vicinity. Included in the 1,245 stream-sediment samples collected by the USGS are 284 samples collected as part of the current study, 817 samples collected as part of investigations of the12 BLM WSAs and re-analyzed for the present study, 45 samples from the Needles 1? X 2? quadrangle, and 99 samples from the El Centro 1? X 2? quadrangle. The NURE stream-sediment and soil samples were re-analyzed as part of the USGS study in the Needles quadrangle. Analytical data for samples from the Chocolate Mountain Aerial Gunnery Range, which is located within the area of the NECD, were previously reported (King and Chaffee, 1999a). For completeness, these results are also included in this report. Analytical data for samples from the area of Joshua Tree National Park that is within the NECD have also been reported (King and Chaffee, 1999b). These results are not included in this report. The analytical data presented here can be used for baseline geochemical, mineral resource, and environmental geochemical studies.

Surface-water, water-quality, and meteorological data for the Cambridge, Massachusetts, drinking-water source area, water years 2007-08

USGS Publications Warehouse

Smith, Kirk P.

2011-01-01

Water samples were collected in nearly all of the subbasins in the Cambridge drinking-water source area and from Fresh Pond during the study period. Discrete water samples were collected during base-flow conditions with an antecedent dry period of at least 3 days. Composite sampl

Streamflow and sediment-transport data, Colorado River and three tributaries in Grand Canyon, Arizona, 1983 and 1985-86

USGS Publications Warehouse

Garrett, W.B.; van de Vanter, E.K.; Graf, J.B.

1993-01-01

The U.S. Geological Survey collected streamflow and sediment-transport data at 5 streamflow-gaging stations on the Colorado River between Glen Canyon Dam and Lake Mead as a part of an interagency environmental study. The data were collected for about 6 mo in 1983 and about 4 mo in 1985-86; data also were collected at 3 sites on tributary streams in 1983. The data were used for development of unsteady flow-routing and sediment-transport models, sand-load rating curves, and evaluation of channel changes. For the 1983 sampling period, 1,076 composite cross-section suspended-sediment samples were analyzed; 809 of these samples were collected on the main stem of the Colorado River and 267 samples were from the tributaries. Bed-material samples were obtained at 1,988 verticals; 161 samples of material in transport near the bed (bedload) were collected to define the location of sand, gravel, and bed rock in the channel cross section; and 664 discharge measurements were made. For the 1985-86 sampling period, 765 composite cross-section suspended-sediment samples and 887 individual vertical samples from cross sections were analyzed. Bed-material samples were obtained at 531 verticals, 159 samples of bedload were collected, and 218 discharge measurements were made. All data are presented in tabular form. Some types of data also are presented in graphs to better show trends or variations. (USGS)

Drinking water quality assessment.

PubMed

Aryal, J; Gautam, B; Sapkota, N

2012-09-01

Drinking water quality is the great public health concern because it is a major risk factor for high incidence of diarrheal diseases in Nepal. In the recent years, the prevalence rate of diarrhoea has been found the highest in Myagdi district. This study was carried out to assess the quality of drinking water from different natural sources, reservoirs and collection taps at Arthunge VDC of Myagdi district. A cross-sectional study was carried out using random sampling method in Arthunge VDC of Myagdi district from January to June,2010. 84 water samples representing natural sources, reservoirs and collection taps from the study area were collected. The physico-chemical and microbiological analysis was performed following standards technique set by APHA 1998 and statistical analysis was carried out using SPSS 11.5. The result was also compared with national and WHO guidelines. Out of 84 water samples (from natural source, reservoirs and tap water) analyzed, drinking water quality parameters (except arsenic and total coliform) of all water samples was found to be within the WHO standards and national standards.15.48% of water samples showed pH (13) higher than the WHO permissible guideline values. Similarly, 85.71% of water samples showed higher Arsenic value (72) than WHO value. Further, the statistical analysis showed no significant difference (P<0.05) of physico-chemical parameters and total coliform count of drinking water for collection taps water samples of winter (January, 2010) and summer (June, 2010). The microbiological examination of water samples revealed the presence of total coliform in 86.90% of water samples. The results obtained from physico-chemical analysis of water samples were within national standard and WHO standards except arsenic. The study also found the coliform contamination to be the key problem with drinking water.

The acceptability and validity of self-collected nasal swabs for detection of influenza virus infection among older adults in Thailand.

PubMed

Goyal, Sonal; Prasert, Kriengkrai; Praphasiri, Prabda; Chittaganpitch, Malinee; Waicharoen, Sunthareeya; Ditsungnoen, Darunee; Jaichuang, Siriluk; Lindblade, Kim A

2017-09-01

Self-collection of nasal swabs could improve the timeliness of influenza virus detection in older adults. Measure the acceptability, adequacy, timeliness, and validity of self-collected nasal swabs among adults >65 years in Thailand. Our evaluation consisted of two parts: a one-month study among randomly selected, community-dwelling older adults to simulate community-based surveillance for acute respiratory infections (ARI); and a clinic study of older adults with ARI to evaluate the sensitivity and specificity of self-collected nasal swabs for influenza virus infection compared with healthcare worker (HCW)-collected nasal and nasopharyngeal swabs. In the community study, 24% of participants experienced an ARI during the observation period. All (100%) participants with an ARI self-collected nasal swabs within 72 hours of symptom onset of which 92% were considered adequate samples. In the clinic study, 45% of patients with ARI presented within 72 hours of symptom onset. The sensitivity of self-collected nasal swabs for detection of influenza virus infection was 78% (95% CI 40-97) compared to nasopharyngeal and 88% (95% CI 47-100) compared to nasal swabs collected by HCWs. Specificity was 100% (95% CI 97-100) compared to both methods. Self-collection of nasal swabs was found acceptable by 99% of participants in both studies. Self-collection of nasal swabs was acceptable to older adults in Thailand who were able to take adequate samples. Self-collection of nasal swabs may improve the timeliness of sample collection but lower sensitivity will need to be considered. © 2017 The Authors. Influenza and Other Respiratory Viruses Published by John Wiley & Sons Ltd.

Comparison of water-quality samples collected by siphon samplers and automatic samplers in Wisconsin

USGS Publications Warehouse

Graczyk, David J.; Robertson, Dale M.; Rose, William J.; Steur, Jeffrey J.

2000-01-01

In small streams, flow and water-quality concentrations often change quickly in response to meteorological events. Hydrologists, field technicians, or locally hired stream ob- servers involved in water-data collection are often unable to reach streams quickly enough to observe or measure these rapid changes. Therefore, in hydrologic studies designed to describe changes in water quality, a combination of manual and automated sampling methods have commonly been used manual methods when flow is relatively stable and automated methods when flow is rapidly changing. Auto- mated sampling, which makes use of equipment programmed to collect samples in response to changes in stage and flow of a stream, has been shown to be an effective method of sampling to describe the rapid changes in water quality (Graczyk and others, 1993). Because of the high cost of automated sampling, however, especially for studies examining a large number of sites, alternative methods have been considered for collecting samples during rapidly changing stream conditions. One such method employs the siphon sampler (fig. 1). also referred to as the "single-stage sampler." Siphon samplers are inexpensive to build (about $25- $50 per sampler), operate, and maintain, so they are cost effective to use at a large number of sites. Their ability to collect samples representing the average quality of water passing though the entire cross section of a stream, however, has not been fully demonstrated for many types of stream sites.

COLLECTING URINE SAMPLES FROM YOUNG CHILDREN FOR PESTICIDE STUDIES

EPA Science Inventory

To estimate pesticide exposure for young children wearing diapers, a method for collecting urine samples for analysis of pesticide metabolites is needed. To find a practical method, two possibilities were investigated: (1) analysis of expressed urine from cotton diaper inserts ...

Biological monitoring of welders' exposure to chromium, molybdenum, tungsten and vanadium.

PubMed

Ellingsen, Dag G; Chashchin, Maxim; Berlinger, Balazs; Fedorov, Vladimir; Chashchin, Valery; Thomassen, Yngvar

2017-05-01

Welders are exposed to a number of metallic elements during work. Bioaccessability, that is important for element uptake, has been little studied. This study addresses bioaccessability and uptake of chromium (Cr), molybdenum (Mo), tungsten (W) and vanadium (V) among welders. Bioaccessability of Cr, Mo, V and W was studied in airborne particulate matter collected by personal sampling of the workroom air among shipyard welders by using the lung lining fluid simulant Hatch solution. Associations between concentrations of Hatch soluble and non-soluble elements (Hatch sol and Hatch non-sol ) and concentrations of the four elements in whole blood, serum, blood cells and urine were studied. Air concentrations of the four elements were low. Only a small fraction of Cr, V and W was Hatch sol , while similar amounts of Mo were Hatch sol and Hatch non-sol . Welders (N=70) had statistically significantly higher concentrations of all four elements in urine and serum when compared to referents (N=74). Highly statistically significant associations were observed between urinary W and Hatch sol W (p<0.001) and serum V and Hatch sol V (p<0.001), in particular when air samples collected the day before collection of biological samples were considered. Associations between Hatch sol elements in air and their biological concentrations were higher than when Hatch non-sol concentrations were considered. Associations were generally higher when air samples collected the day before biological sampling were considered as compared to air samples collected two days before. Copyright © 2017 Elsevier GmbH. All rights reserved.

β-trace protein as a diagnostic marker for perilymphatic fluid fistula: a prospective controlled pilot study to test a sample collection technique.

PubMed

Bachmann-Harildstad, Gregor; Stenklev, Niels Christian; Myrvoll, Elin; Jablonski, Greg; Klingenberg, Olav

2011-01-01

The diagnosis of perilymphatic fluid (PLF) fistula is still challenging. Perilymphatic fluid fistula is one possible complication after stapedotomy or cochlear implant surgery. We have performed a prospective diagnostic pilot study to further investigate β-trace protein (β-TP) as a marker for PLF fistula. In this pilot study, we tested the sensitivity of the β-TP marker using a simple method for sample collection from the tympanic cavity. Prospective controlled diagnostic study. Two-center tertiary referral hospitals. A total of 35 adult patients undergoing ear surgery were included. Subjects were divided into 2 groups: 1) 19 patients undergoing stapedotomy were investigated for PLF fistula in samples obtained from the tympanic cavity and 2) 16 patients undergoing myringoplasty were investigated for PLF fistula in samples from the tympanic cavity. This group served as the control. Mean age +/- SD at surgery was 49.9 +/- 8.0 years in the study group and 39.69 +/- 15.47 years in the control group. β-Trace protein (prostaglandin D synthase) in tympanic cavity samples and serum samples was analyzed. The samples were collected by gradually filling the tympanic cavity with 100 to 200 μl sodium chloride and by immediately collecting a volume of 60 to 100 μl in a mucus specimen set container. The concentration of β-TP was quantified using laser nephelometry. The median β-TP in the study group was 0.8 mg/L (range, 0.05-4.5 mg/L). In the control group, the median β-TP value was 0.16 mg/L (range, 0.01-0.36 mg/L). Thirty-five percent of the values in the study group were below the highest value in the negative control group. The β-TP values of the tympanic cavity samples were significantly higher in the study group than in controls (p = 0.0001). The serum values were 0.55 +/- 0.18 and 0.53 +/- 0.11 mg/L, respectively. It may be feasible to test for PLF fistula using β-TP in samples from the tympanic cavity. Our results, however, suggest a relative low diagnostic sensitivity, given a cutoff that is set to obtain a high specificity when using a simple sample collection method. Furthermore, the test does not permit the distinction between PLF fistula and cerebrospinal fluid fistula. Further studies should focus on minimal dilution at sampling and on minimizing sample volumes.

Lead Concentration Levels in Water Samples Collected in Alameda County, CA

NASA Astrophysics Data System (ADS)

Sethy, D.; Hoang, R.; Yu, I.; Hernandez, N.; Fang, K.; Zhang, W.; Li, J.; Munui, K. N.; Sot, R.; Luong, K.; Bonzo, R.; Sankar, R.; Chiu, D.; Rodriguez, V. A.

2016-12-01

The recent health crisis in Flint, Michigan has attracted an amount of interest in other public utilities' water supplies and infrastructure with regards to concerns over the presence of lead. In an effort to begin assessing the potential for a health crisis similar to that experienced in Flynt, during 2016 our team measured lead concentration levels in water samples by collected in Alameda County. More than 12 sites were selected from which samples were collected. These sites included parks, schools, and private residences. At each site 500mL samples were collected and prepared for later analysis. Samples were subjected to an analytical chemistry technique designed to isolate and concentrate lead to detectable levels of 1 part per billion (ppb). All 8 samples yielded detectable levels of lead; all samples were also well below the EPA regulatory 15 ppb. Two samples collected in West Oakland parks were found to have the highest and lowest levels: DeFremery (4 ppb) and Raimondi (1ppb), respectively. Though preliminary in nature, results from this study suggest that further investigations should be undertaken to assess possible lead contamination associated with drinking water sources in Alameda County.

Occurrence of pesticides in rain and air in urban and agricultural areas of Mississippi, April-September 1995.

PubMed

Coupe, R H; Manning, M A; Foreman, W T; Goolsby, D A; Majewski, M S

2000-04-05

In April 1995, the US Geological Survey began a study to determine the occurrence and temporal distribution of 49 pesticides and pesticide metabolites in air and rain samples from an urban and an agricultural sampling site in Mississippi. The study was a joint effort between the National Water-Quality Assessment and the Toxic Substances Programs and was part of a larger study examining the occurrence and temporal distribution of pesticides in air and rain in the Mississippi River basin. Concurrent high-volume air and wet-only deposition samples were collected weekly. The air samplers consisted of a glass-fiber filter to collect particles and tandem polyurethane foam plugs to collect gas-phase pesticides. Every rain and air sample collected from the urban and agricultural sites had detectable levels of multiple pesticides. The magnitude of the total concentration was 5-10 times higher at the agricultural site as compared to the urban site. The pesticide with the highest concentration in rain at both sites was methyl parathion. The pesticide with the highest concentration in the air samples from the agricultural site was also methyl parathion, but from the urban site the highest concentration was diazinon followed closely by chlorpyrifos. More than two decades since p,p'-DDT was banned from use in the United States, p,p'-DDE, a metabolite of p,p'-DDT, was detected in every air sample collected from the agricultural site and in more than half of the air samples from the urban site.

Occurrence of pesticides in rain and air in urban and agricultural areas of Mississippi, April-September 1995

USGS Publications Warehouse

Coupe, R.H.; Manning, M.A.; Foreman, W.T.; Goolsby, D.A.; Majewski, M.S.

2000-01-01

In April 1995, the US Geological Survey began a study to determine the occurrence and temporal distribution of 49 pesticides and pesticide metabolites in air and rain samples from an urban and an agricultural sampling site in Mississippi. The study was a joint effort between the National Water-Quality Assessment and the Toxic Substances Programs and was part of a larger study examining the occurrence and temporal distribution of pesticides in air and rain in the Mississippi River basin. Concurrent high-volume air and wet-only deposition samples were collected weekly. The air samplers consisted of a glass-fiber filter to collect particles and tandem polyurethane foam plugs to collect gas-phase pesticides. Every rain and air sample collected from the urban and agricultural sites had detectable levels of multiple pesticides. The magnitude of the total concentration was 5-10 times higher at the agricultural site as compared to the urban site. The pesticide with the highest concentration in rain at both sites was methyl parathion. The pesticide with the highest concentration in the air samples from the agricultural site was also methyl parathion, but from the urban site the highest concentration was diazinon followed closely by chlorpyrifos. More than two decades since p,p'-DDT was banned from use in the United States, p,p'-DDE, a metabolite of p,p'-DDT, was detected in every air sample collected from the agricultural site and in more than half of the air samples from the urban site. Copyright (C) 2000 Elsevier Science B.V.

Advanced Curation Activities at NASA: Implications for Astrobiological Studies of Future Sample Collections

NASA Technical Reports Server (NTRS)

McCubbin, F. M.; Evans, C. A.; Fries, M. D.; Harrington, A. D.; Regberg, A. B.; Snead, C. J.; Zeigler, R. A.

2017-01-01

The Astromaterials Acquisition and Curation Office (henceforth referred to herein as NASA Curation Office) at NASA Johnson Space Center (JSC) is responsible for curating all of NASA's extraterrestrial samples. Under the governing document, NASA Policy Directive (NPD) 7100.10F JSC is charged with curation of all extraterrestrial material under NASA control, including future NASA missions. The Directive goes on to define Curation as including documentation, preservation, preparation, and distribution of samples for re-search, education, and public outreach. Here we briefly describe NASA's astromaterials collections and our ongoing efforts related to enhancing the utility of our current collections as well as our efforts to prepare for future sample return missions. We collectively refer to these efforts as advanced curation.

Real-scale comparison between simple and composite raw sewage sampling

NASA Astrophysics Data System (ADS)

Sergio Scalize, Paulo; Moraes Frazão, Juliana

2018-06-01

The present study performed a qualitative and quantitative characterization of the raw sewage collected at the entrance of the sewage treatment station of the city of Itumbiara, state of Goiás. Samples were collected every two hours over a period of seven consecutive days. Characterization of both point samples and composite samples was performed. The parameters analyzed were: temperature, pH, alkalinity, chemical oxygen demand, oil and grease, electric conductivity, total phosphorus, settleable solids, ammoniacal nitrogen, total suspended solids, volatile suspended solids, fixed suspended solids and turbidity. These results allowed us to verify that it is possible to perform the collection and analysis of a point sample, instead of a composite sample, as a way of monitoring the efficiency of a sewage treatment plant.

The Uppermost Surface of the Moon

NASA Technical Reports Server (NTRS)

Noble, Sarah K.

2009-01-01

The Ap16 Clam shell Sampling Devices (CSSDs) were designed to sample the uppermost surface of lunar soil. The two devices used beta cloth (69003) and velvet (69004) to collect soil from the top 100 and 500 micrometers of the soil, respectively. Due to the difficulty of the sampling method, little material was collected and as a result little research has been done on these samples. Initial studies attempted to look at the material which had fallen off of the fabrics and was subsequently collected from inside the sample containers. However, this material was highly fractionated and did not provide an adequate picture of the uppermost surface. Recently, samples were obtained directly from the beta cloth using carbon tape. While still fractionated, these samples provide a unique glimpse into the undisturbed soil exposed at the lunar surface.

Characterization of hydrology and water quality of Piceance Creek in the Alkali Flat area, Rio Blanco County, Colorado, March 2012

USGS Publications Warehouse

Thomas, Judith C.

2015-12-07

Water-quality samples were collected at five surface-water sites in December 2010 that were sampled as part of a previous USGS study in 2000. Water-quality data collected during December 2010 showed no appreciable difference from water-quality data collected during December 2000 at the five sites.

Challenges for conducting blood collection and biochemical analysis in a large multicenter school-based study with adolescents: lessons from ERICA in Brazil.

PubMed

Cureau, Felipe Vogt; Bloch, Katia Vergetti; Henz, Aline; Schaan, Camila W; Klein, Carlos Henrique; Oliveira, Cecília Lacroix de; Giannini, Denise Tavares; Leon, Elisa Brosina de; Abreu, Gabriela de Azevedo; Telo, Gabriela Heiden; Dias, Glauber Monteiro; Carvalho, Kênia Mara Baiocchi de; Barufaldi, Laura Augusta; Kuschnir, Maria Cristina Caetano; Szklo, Moyses; Montenegro, Renan; Silva, Thiago Luiz Nogueira da; Ekelund, Ulf; Schaan, Beatriz D

2017-05-18

The Study of Cardiovascular Risk in Adolescents (ERICA) is a pioneering study that aimed to assess the prevalence of cardiovascular risk factors, including metabolic syndrome components in Brazilian adolescents. This study aims to describe the methodological aspects related to blood collection as well as to report pertaining results of the preparation, transport, storage, and exams in ERICA. Exams in ERICA were performed in a single laboratory and blood samples were collected in schools in a standardized manner. Logistics involved air transportation of samples to the reference laboratory with controlled temperature since sample collection. The serum was stored in local biorepositories in four centers to be used in future analyses. During the study, 284,247 exams were performed and rate of participation in exams was 56.2%, thus involving 40,732 adolescents. From the total, 92.6% of the samples reached the reference laboratory maintaining the temperature between 0-10°C. No clinical significant changes in results due to temperature changes were identified. External quality control recorded satisfactory results in 98.7% of the evaluations. Four biorepositories with samples of 7,785 adolescents were created. Thus, we can consider that the logistics adopted in ERICA was fairly successful and description of this as well as the difficulties experienced in Brazil can inform and facilitate the planning of future studies, especially in developing countries.

Ground- and Surface-Water Chemistry of Handcart Gulch, Park County, Colorado, 2003-2006

USGS Publications Warehouse

Verplanck, Philip L.; Manning, Andrew H.; Kimball, Briant A.; McCleskey, R. Blaine; Runkel, Robert L.; Caine, Jonathan S.; Adams, Monique; Gemery-Hill, Pamela A.; Fey, David L.

2008-01-01

As part of a multidisciplinary project to determine the processes that control ground-water chemistry and flow in mineralized alpine environments, ground- and surface-water samples from Handcart Gulch, Colorado were collected for analysis of inorganic solutes and water and dissolved sulfate stable isotopes in selected samples. The primary aim of this study was to document variations in ground-water chemistry in Handcart Gulch and to identify changes in water chemistry along the receiving stream of Handcart Gulch. Water analyses are reported for ground-water samples collected from 12 wells in Handcart Gulch, Colorado. Samples were collected between August 2003 and October 2005. Water analyses for surface-water samples are reported for 50 samples collected from Handcart Gulch and its inflows during a low-flow tracer injection on August 6, 2003. In addition, water analyses are reported for three other Handcart Gulch stream samples collected in September 2005 and March 2006. Reported analyses include field parameters (pH, specific conductance, temperature, dissolved oxygen, and Eh), major and trace constituents, oxygen and hydrogen isotopic composition of water and oxygen and sulfur isotopic composition of dissolved sulfate. Ground-water samples from this study are Ca-SO4 type and range in pH from 2.5 to 6.8. Most of the samples (75 percent) have pH values between 3.3 and 4.3. Surface water samples are also Ca-SO4 type and have a narrower range in pH (2.7?4.0). Ground- and surface-water samples vary from relatively dilute (specific conductance of 68 ?S/cm) to concentrated (specific conductance of 2,000 ?S/cm).

Measurements of Organic Composition of Aerosol and Rainwater Samples Using Offline Aerosol Mass Spectrometry

NASA Astrophysics Data System (ADS)

OBrien, R. E.; Ridley, K. J.; Canagaratna, M. R.; Croteau, P.; Budisulistiorini, S. H.; Cui, T.; Green, H. S.; Surratt, J. D.; Jayne, J. T.; Kroll, J. H.

2016-12-01

A thorough understanding of the sources, evolution, and budgets of atmospheric organic aerosol requires widespread measurements of the amount and chemical composition of atmospheric organic carbon in the condensed phase (within particles and water droplets). Collecting such datasets requires substantial spatial and temporal (long term) coverage, which can be challenging when relying on online measurements by state-of-the-art research-grade instrumentation (such as those used in atmospheric chemistry field studies). Instead, samples are routinely collected using relatively low-cost techniques, such as aerosol filters, for offline analysis of their chemical composition. However, measurements made by online and offline instruments can be fundamentally different, leading to disparities between data from field studies and those from more routine monitoring. To better connect these two approaches, and take advantage of the benefits of each, we have developed a method to introduce collected samples into online aerosol instruments using nebulization. Because nebulizers typically require tens to hundreds of milliliters of solution, limiting this technique to large samples, we developed a new, ultrasonic micro-nebulizer that requires only small volumes (tens of microliters) of sample for chemical analysis. The nebulized (resuspended) sample is then sent into a high-resolution Aerosol Mass Spectrometer (AMS), a widely-used instrument that provides key information on the chemical composition of aerosol particulate matter (elemental ratios, carbon oxidation state, etc.), measurements that are not typically made for collected atmospheric samples. Here, we compare AMS data collected using standard on-line techniques with our offline analysis, demonstrating the utility of this new technique to aerosol filter samples. We then apply this approach to organic aerosol filter samples collected in remote regions, as well as rainwater samples from across the US. This data provides information on the sample composition and changes in key chemical characteristics across locations and seasons.

Molecular epidemiology biomarkers-Sample collection and processing considerations

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

Holland, Nina T.; Pfleger, Laura; Berger, Eileen

2005-08-07

Biomarker studies require processing and storage of numerous biological samples with the goals of obtaining a large amount of information and minimizing future research costs. An efficient study design includes provisions for processing of the original samples, such as cryopreservation, DNA isolation, and preparation of specimens for exposure assessment. Use of standard, two-dimensional and nanobarcodes and customized electronic databases assure efficient management of large sample collections and tracking results of data analyses. Standard operating procedures and quality control plans help to protect sample quality and to assure validity of the biomarker data. Specific state, federal and international regulations are inmore » place regarding research with human samples, governing areas including custody, safety of handling, and transport of human samples. Appropriate informed consent must be obtained from the study subjects prior to sample collection and confidentiality of results maintained. Finally, examples of three biorepositories of different scale (European Cancer Study, National Cancer Institute and School of Public Health Biorepository, University of California, Berkeley) are used to illustrate challenges faced by investigators and the ways to overcome them. New software and biorepository technologies are being developed by many companies that will help to bring biological banking to a new level required by molecular epidemiology of the 21st century.« less

Impact of sample collection participation on the validity of estimated measures of association in the National Birth Defects Prevention Study when assessing gene-environment interactions.

PubMed

Jenkins, Mary M; Reefhuis, Jennita; Herring, Amy H; Honein, Margaret A

2017-12-01

To better understand the impact that nonresponse for specimen collection has on the validity of estimates of association, we examined associations between self-reported maternal periconceptional smoking, folic acid use, or pregestational diabetes mellitus and six birth defects among families who did and did not submit buccal cell samples for DNA following a telephone interview as part of the National Birth Defects Prevention Study (NBDPS). Analyses included control families with live born infants who had no birth defects (N = 9,465), families of infants with anorectal atresia or stenosis (N = 873), limb reduction defects (N = 1,037), gastroschisis (N = 1,090), neural tube defects (N = 1,764), orofacial clefts (N = 3,836), or septal heart defects (N = 4,157). Estimated dates of delivery were between 1997 and 2009. For each exposure and birth defect, odds ratios and 95% confidence intervals were calculated using logistic regression stratified by race-ethnicity and sample collection status. Tests for interaction were applied to identify potential differences between estimated measures of association based on sample collection status. Significant differences in estimated measures of association were observed in only four of 48 analyses with sufficient sample sizes. Despite lower than desired participation rates in buccal cell sample collection, this validation provides some reassurance that the estimates obtained for sample collectors and noncollectors are comparable. These findings support the validity of observed associations in gene-environment interaction studies for the selected exposures and birth defects among NBDPS participants who submitted DNA samples. Published 2017. This article is a U.S. Government work and is in the public domain in the USA.

Algal Data from Selected Sites in the Upper Colorado River Basin, Colorado, Water Years 1996-97

USGS Publications Warehouse

Mize, Scott V.; Deacon, Jeffrey R.

2001-01-01

Algal community samples were collected at 15 sites in the Upper Colorado River Basin in Colorado as part of the National Water-Quality Assessment Program during water years 1996-97. Sites sampled were located in two physiographic provinces, the Southern Rocky Mountains and the Colorado Plateaus, and represented agricultural, mining, urban, and mixed land uses and background conditions. Algal samples were collected once per year during low-flow conditions. Quantitative algal samples were collected within two targeted instream habitat types including a taxonomically richest-targeted habitat and a depositional-targeted habitat. This report presents the algal community data collected at the fixed sites in the Upper Colorado River Basin study unit. Algal data include densities (abundance of cells per square centimeter of substrate) and biovolumes (cubic micrometers of cells per square centimeter of substrate) for the two habitat types. Quality-assurance and quality-control results for algal samples indicate that the largest sampling variability tends to occur in samples from small streams.

Can human papillomavirus DNA testing of self-collected vaginal samples compare with physician-collected cervical samples and cytology for cervical cancer screening in developing countries?

PubMed Central

Bhatla, Neerja; Dar, Lalit; Patro, A. Rajkumar; Kumar, Pankaj; Kriplani, Alka; Gulati, Arti; Iyer, Venkateswaran K.; Mathur, Sandeep R.; Sreenivas, Vishnubhatla; Shah, Keerti V.; Gravitt, Patti E.

2013-01-01

Background To determine human papillomavirus (HPV) types by polymerase chain reaction (PCR)-reverse line blot assay and examine the concordance between HPV by Hybrid Capture 2 (HC2) and PCR on self-collected vaginal and physician-collected cervical samples and cytology. Methods This was a cross-sectional study of 546 sexually active women aged ≥30 years with persistent vaginal discharge, intermenstrual or postcoital bleeding or an unhealthy cervix. Participants self-collected vaginal samples (HPV-S) and physicians collected cervical samples for conventional Pap smear and HPV DNA (HPV-P) testing and performed colposcopy, with directed biopsy, if indicated. HPV testing and genotyping was done by HC2 and PCR reverse line blot assay. Concordance between HC2 and PCR results of self- and physician-collected samples was determined using a Kappa statistic (κ) and Chi-square test. Results Complete data were available for 512 sets with 98% of women providing a satisfactory self-sample. PCR detected oncogenic HPV in 12.3% of self- and 13.0% of physician-collected samples. Overall, there was 93.8% agreement between physician-collected and self-samples (κ = 76.31%, 95% confidence interval [CI]: 64.97–82.29%, p = 0.04)—complete concordance in 473 cases (57 positive, 416 negative), partial concordance in seven pairs and discordance in 32 pairs. The sensitivity, specificity, positive predictive value (PPV) and negative predictive value (NPV) of self-sampling for detection of cervical intraepithelial neoplasia (CIN)2+ disease were 82.5%, 93.6%, 52.4% and 98.4%, respectively; for physician-sampling they were 87.5%, 93.2%, 52.2% and 98.9%, respectively; and for cytology they were 77.5%, 87.3%, 34.1% and 97.9%, respectively. Concordance between HC2 and PCR was 90.9% for self-samples (κ = 63.7%, 95% CI: 55.2–72.2%) and 95.3% for physician-collected samples (κ = 80.4%, 95% CI: 71.8–89.0%). Conclusions Self-HPV sampling compares favourably with physician-sampling and cytology. A rapid, affordable, HPV self-test kit can be used as the primary method of cervical cancer screening in low-resource situations. PMID:19931499

Effect of semen collection method on sperm motility of gray wolves (Canis lupus) and domestic dogs (C. l. familiaris).

PubMed

Christensen, Bruce W; Asa, Cheryl S; Wang, Chong; Vansandt, Lindsey; Bauman, Karen; Callahan, Margaret; Jens, Jackie K; Ellinwood, N Matthew

2011-09-15

Genetic management of Mexican gray wolves includes semen banking, but due to the small number of animals in the population and handling restrictions, improvements in semen collection and cryopreservation rely on results from studies of domestic dogs. Semen collection from wolves requires anesthesia and electroejaculation, which introduce potentially important variables into species comparisons, as dog semen is typically collected manually from conscious animals. To investigate possible effects of collection method on semen quality, we compared semen collection by the traditional manual method and by electroejaculation (EE) in a group of dogs (n = 5) to collection by EE only in wolves (n = 7). Samples were divided into two aliquots: neat or diluted in Tris/egg yolk extender, with motility evaluated at intervals up to 24 h. There were no differences (P > 0.10) in sperm motility in either neat or extended samples at 24 h from EE dogs and wolves, although motility of the wolf neat samples declined more rapidly (P < 0.05). However, there were differences (P < 0.01) between EE and manually collected dog semen in motility at 24 h, in both the neat and extended samples. Therefore, general motility patterns of dog and wolf semen collected by EE were similar, especially when diluted with a Tris/egg yolk extender, but sperm collected from dogs by EE did not maintain motility as long as manually collected samples, perhaps related to the longer exposure of EE samples to more prostate fluid. Copyright © 2011 Elsevier Inc. All rights reserved.

Use of Body-Mounted Cameras to Enhance Data Collection: An Evaluation of Two Arthropod Sampling Techniques.

PubMed

Hagler, James R; Thompson, Alison L; Stefanek, Melissa A; Machtley, Scott A

2018-03-01

A study was conducted that compared the effectiveness of a sweepnet versus a vacuum suction device for collecting arthropods in cotton. The study differs from previous research in that body-mounted action cameras (B-MACs) were used to record the activity of the person conducting the arthropod collections. The videos produced by the B-MACs were then analyzed with behavioral event recording software to quantify various aspects of the sampling process. The sampler's speed and the number of sampling sweeps or vacuum suctions taken over a fixed distance (12.2 m) of cotton were two of the more significant sampling characteristics quantified for each method. The arthropod counts obtained, combined with the analyses of the videos, enabled us to estimate arthropod sampling efficiency for each technique based on fixed distance, time, and sample unit measurements. Data revealed that the vacuuming was the most precise method for collecting arthropods in the relatively small cotton research plots. However, data also indicates that the sweepnet method would be more efficient for collecting most of the cotton-dwelling arthropod taxa, especially if the sampler could continuously sweep for at least 1 min or ≥80 m (e.g., in larger research plots). The B-MACs are inexpensive and non-cumbersome, the video images generated are outstanding, and they can be archived to provide permanent documentation of a research project. The methods described here could be useful for other types of field-based research to enhance data collection efficiency.

ELECTROFISHING IN BOATABLE RIVERS: DOES SAMPLING DESIGN AFFECT BIOASSESSMENT METRICS?

EPA Science Inventory

The accurate bioassessment of boatable rivers using fish assemblage data requires that a representative sample of the assemblage be collected. In this study, data were collected using an electrofishing design that permitted comparisons of the effects of designs and distances on ...

A FIELD VALIDATION OF TWO SEDIMENT-AMPHIPOD TOXICITY TESTS

EPA Science Inventory

A field validation study of two sediment-amphipod toxicity tests was conducted using sediment samples collected subtidally in the vicinity of a polycyclic aromatic hydrocarbon (PAH)-contaminated Superfund site in Elliott Bay, WA, USA. Sediment samples were collected at 30 stati...

A SEDIMENT TOXICITY EVALUATION OF THREE LARGE RIVER SYSTEMS

EPA Science Inventory

Sediment toxicity samples were collected from selected sites on the Ohio River, Missouri River and upper Mississippi River as part of the 2004 and 2005 Environmental Monitoring and Assessment Program-Great Rivers Ecosystems Study (EMAP-GRE). Samples were collected by compositing...

Database of the United States Coal Pellet Collection of the U.S. Geological Survey Organic Petrology Laboratory

USGS Publications Warehouse

Deems, Nikolaus J.; Hackley, Paul C.

2012-01-01

The Organic Petrology Laboratory (OPL) of the U.S. Geological Survey (USGS) Eastern Energy Resources Science Center in Reston, Virginia, contains several thousand processed coal sample materials that were loosely organized in laboratory drawers for the past several decades. The majority of these were prepared as 1-inch-diameter particulate coal pellets (more than 6,000 pellets; one sample usually was prepared as two pellets, although some samples were prepared in as many as four pellets), which were polished and used in reflected light petrographic studies. These samples represent the work of many scientists from the 1970s to the present, most notably Ron Stanton, who managed the OPL until 2001 (see Warwick and Ruppert, 2005, for a comprehensive bibliography of Ron Stanton's work). The purpose of the project described herein was to organize and catalog the U.S. part of the petrographic sample collection into a comprehensive database (available with this report as a Microsoft Excel file) and to compile and list published studies associated with the various sample sets. Through this work, the extent of the collection is publicly documented as a resource and sample library available to other scientists and researchers working in U.S. coal basins previously studied by organic petrologists affiliated with the USGS. Other researchers may obtain samples in the OPL collection on loan at the discretion of the USGS authors listed in this report and its associated Web page.

Composite analysis for Escherichia coli at coastal beaches

USGS Publications Warehouse

Bertke, E.E.

2007-01-01

At some coastal beaches, concentrations of fecal-indicator bacteria can differ substantially between multiple points at the same beach at the same time. Because of this spatial variability, the recreational water quality at beaches is sometimes determined by stratifying a beach into several areas and collecting a sample from each area to analyze for the concentration of fecal-indicator bacteria. The average concentration of bacteria from those points is often used to compare to the recreational standard for advisory postings. Alternatively, if funds are limited, a single sample is collected to represent the beach. Compositing the samples collected from each section of the beach may yield equally accurate data as averaging concentrations from multiple points, at a reduced cost. In the study described herein, water samples were collected at multiple points from three Lake Erie beaches and analyzed for Escherichia coli on modified mTEC agar (EPA Method 1603). From the multiple-point samples, a composite sample (n = 116) was formed at each beach by combining equal aliquots of well-mixed water from each point. Results from this study indicate that E. coli concentrations from the arithmetic average of multiple-point samples and from composited samples are not significantly different (t = 1.59, p = 0.1139) and yield similar measures of recreational water quality; additionally, composite samples could result in a significant cost savings.

Comparison of semen parameters in samples collected by masturbation at a clinic and at home.

PubMed

Elzanaty, Saad; Malm, Johan

2008-06-01

To investigate differences in semen quality between samples collected by masturbation at a clinic and at home. Cross-sectional study. Fertility center. Three hundred seventy-nine men assessed for infertility. None. Semen was analyzed according to World Health Organization guidelines. Seminal markers of epididymal (neutral alpha-glucosidase), prostatic (prostate-specific antigen and zinc), and seminal vesicle (fructose) function were measured. Two patient groups were defined according to sample collection location: at a clinic (n = 273) or at home (n = 106). Compared with clinic-collected semen, home-collected samples had statistically significantly higher values for sperm concentration, total sperm count, rapid progressive motility, and total count of progressive motility. Semen volume, proportion of normal sperm morphology, neutral alpha-glucosidase, prostate-specific antigen, zinc, and fructose did not differ significantly between groups. An abnormal sperm concentration (<20 x 10(6)/mL) was seen in statistically significantly fewer of the samples obtained at home (19/106, 18%) than at the clinic (81/273, 30%), and the same applied to proportions of samples with abnormal (< 25%) rapid progressive motility (68/106 [64%] and 205/273 [75%], respectively). The present results demonstrate superior semen quality in samples collected by masturbation at home compared with at a clinic. This should be taken into consideration in infertility investigations.

Fogwater Chemistry and Air Quality in the Texas-Louisiana Gulf Coast Corridor

NASA Astrophysics Data System (ADS)

Kommalapati, R. R.; Raja, S.; Ravikrishna, R.; Murugesan, K.; Collett, J. L.; Valsaraj, K.

2007-05-01

The presence of fog water in polluted atmosphere can influence atmospheric chemistry and air quality. The study of interactions between fog water and atmospheric gases and aerosols are very important in understanding the atmospheric fate of the pollutants. In this Study several air samples and fogwater samples were collected in the heavily industrialized area of Gulf Coast corridor( Houston, TX and Baton Rouge, LA). A total of 32 fogwater samples were collected, comprising of nine fog events in Baton Rouge (Nov 2004 to Feb 2005) and two fog events in Houston (Feb, 2006), during the fog sampling campaigns. These samples were analyzed for pH, total and dissolved carbon, major inorganic ions, organic acids, and aromatics, aldehydes, VOCs, and linear alkanes organic compounds. Fogwater samples collected in Houston show clear influence of marine and anthropogenic environment, while Baton Rouge samples reveal a relatively less polluted environment. Also, a time series observation of air samples indicated that fog event at the monitoring site impacted the air concentrations of the pollutants. This is attributed to presence of surface active organic matter in fog water.

Efficiency of Different Sampling Tools for Aquatic Macroinvertebrate Collections in Malaysian Streams

PubMed Central

Ghani, Wan Mohd Hafezul Wan Abdul; Rawi, Che Salmah Md; Hamid, Suhaila Abd; Al-Shami, Salman Abdo

2016-01-01

This study analyses the sampling performance of three benthic sampling tools commonly used to collect freshwater macroinvertebrates. Efficiency of qualitative D-frame and square aquatic nets were compared to a quantitative Surber sampler in tropical Malaysian streams. The abundance and diversity of macroinvertebrates collected using each tool evaluated along with their relative variations (RVs). Each tool was used to sample macroinvertebrates from three streams draining different areas: a vegetable farm, a tea plantation and a forest reserve. High macroinvertebrate diversities were recorded using the square net and Surber sampler at the forested stream site; however, very low species abundance was recorded by the Surber sampler. Relatively large variations in the Surber sampler collections (RVs of 36% and 28%) were observed for the vegetable farm and tea plantation streams, respectively. Of the three sampling methods, the square net was the most efficient, collecting a greater diversity of macroinvertebrate taxa and a greater number of specimens (i.e., abundance) overall, particularly from the vegetable farm and the tea plantation streams (RV<25%). Fewer square net sample passes (<8 samples) were sufficient to perform a biological assessment of water quality, but each sample required a slightly longer processing time (±20 min) compared with those gathered via the other samplers. In conclusion, all three apparatuses were suitable for macroinvertebrate collection in Malaysian streams and gathered assemblages that resulted in the determination of similar biological water quality classes using the Family Biotic Index (FBI) and the Biological Monitoring Working Party (BMWP). However, despite a slightly longer processing time, the square net was more efficient (lowest RV) at collecting samples and more suitable for the collection of macroinvertebrates from deep, fast flowing, wadeable streams with coarse substrates. PMID:27019685

Urban contributions of glyphosate and its degradate AMPA to streams in the United States

USGS Publications Warehouse

Kolpin, D.W.; Thurman, E.M.; Lee, E.A.; Meyer, M.T.; Furlong, E.T.; Glassmeyer, S.T.

2006-01-01

Glyphosate is the most widely used herbicide in the world, being routinely applied to control weeds in both agricultural and urban settings. Microbial degradation of glyphosate produces aminomethyl phosphonic acid (AMPA). The high polarity and water-solubility of glyphosate and AMPA has, until recently, made their analysis in water samples problematic. Thus, compared to other herbicides (e.g. atrazine) there are relatively few studies on the environmental occurrence of glyphosate and AMPA. In 2002, treated effluent samples were collected from 10 wastewater treatment plants (WWTPs) to study the occurrence of glyphosate and AMPA. Stream samples were collected upstream and downstream of the 10 WWTPs. Two reference streams were also sampled. The results document the apparent contribution of WWTP effluent to stream concentrations of glyphosate and AMPA, with roughly a two-fold increase in their frequencies of detection between stream samples collected upstream and those collected downstream of the WWTPs. Thus, urban use of glyphosate contributes to glyphosate and AMPA concentrations in streams in the United States. Overall, AMPA was detected much more frequently (67.5%) compared to glyphosate (17.5%).

Creatinine as a normalization factor to estimate the representativeness of urine sample - Intra-subject and inter-subject variability studies.

PubMed

Sawant, Pramilla D; Kumar, Suja Arun; Wankhede, Sonal; Rao, D D

2018-06-01

In-vitro bioassay monitoring generally involves analysis of overnight urine samples (~12 h) collected from radiation workers to estimate the excretion rate of radionuclides from the body. The unknown duration of sample collection (10-16 h) adds to the overall uncertainty in computation of internal dose. In order to minimize this, IAEA recommends measurement of specific gravity or creatinine excretion rate in urine. Creatinine is excreted at a steady rate with normally functioning kidneys therefore, can be used as a normalization factor to infer the duration of collection and/or dilution of the sample, if any. The present study reports the chemical procedure standardized and its application for the estimation of creatinine as well as creatinine co-efficient in normal healthy individuals. Observations indicate higher inter-subject variability and lower constancy in daily excretion of creatinine for the same subject. Thus creatinine excretion rate may not be a useful indicator for extrapolating to 24 h sample collection. Copyright © 2018 Elsevier Ltd. All rights reserved.

Data on Streamflow and Quality of Water and Bottom Sediment in and near Humboldt Wildlife Management Area, Churchill and Pershing Counties, Nevada, 1998-2000

USGS Publications Warehouse

Paul, Angela P.; Thodal, Carl E.

2003-01-01

This study was initiated to expand upon previous findings that indicated concentrations of dissolved solids, arsenic, boron, mercury, molybdenum, selenium, and uranium were either above geochemical background concentrations or were approaching or exceeding ecological criteria in the lower Humboldt River system. Data were collected from May 1998 to September 2000 to further characterize streamflow and surface-water and bottom-sediment quality in the lower Humboldt River, selected agricultural drains, Upper Humboldt Lake, and Lower Humboldt Drain (ephemeral outflow from Humboldt Sink). During this study, flow in the lower Humboldt River was either at or above average. Flows in Army and Toulon Drains generally were higher than reported in previous investigations. An unnamed agricultural drain contributed a small amount to the flow measured in Army Drain. In general, measured concentrations of sodium, chloride, dissolved solids, arsenic, boron, molybdenum, and uranium were higher in water from agricultural drains than in Humboldt River water during this study. Mercury concentrations in water samples collected during the study period typically were below the laboratory reporting level. However, low-level mercury analyses showed that samples collected in August 1999 from Army Drain had higher mercury concentrations than those collected from the river or Toulon Drain or the Lower Humboldt Drain. Ecological criteria and effect concentrations for sodium, chloride, dissolved solids, arsenic, boron, mercury, and molybdenum were exceeded in some water samples collected as part of this study. Although water samples from the agricultural drains typically contained higher concentrations of sodium, chloride, dissolved solids, arsenic, boron, and uranium, greater instantaneous loads of these constituents were carried in the river near Lovelock than in agricultural drains during periods of high flow or non-irrigation. During this study, the high flows in the lower Humboldt River produced the maximum instantaneous loads of sodium, chloride, dissolved solids, arsenic, boron, molybdenum, and uranium at all river-sampling sites, except molybdenum near Imlay. Nevada Division of Environmental Protection monitoring reports on mine-dewatering discharge for permitted releases of treated effluent to the surface waters of the Humboldt River and its tributaries were reviewed for reported discharges and trace-element concentrations from June 1998 to September 1999. These data were compared with similar information for the river near Imlay. In all bottom sediments collected for this study, arsenic concentrations exceeded the Canadian Freshwater Interim Sediment-Quality Guideline for the protection of aquatic life and probable-effect level (concentration). Sediments collected near Imlay, Rye Patch Reservoir, Lovelock, and from Toulon Drain and Army Drain were found to contain cadmium and chromium concentrations that exceeded Canadian criteria. Chromium concentrations in sediments collected from these sites also exceeded the consensus-based threshold-effect concentration. The Canadian criterion for sediment copper concentration was exceeded in sediments collected from the Humboldt River near Lovelock and from Toulon, Army, and the unnamed agricultural drains. Mercury in sediments collected near Imlay and from Toulon Drain in August 1999 exceeded the U.S. Department of the Interior sediment probable-effect level. Nickel concentrations in sediments collected during this study were above the consensus-based threshold-effect concentration. All other river and drain sediments had constituent concentrations below protective criteria and toxicity thresholds. In Upper Humboldt Lake, chloride, dissolved solids, arsenic, boron, molybdenum, and uranium concentrations in surface-water samples collected near the mouth of the Humboldt River generally were higher than in samples collected near the mouth of Army Drain. Ecological criteria or effect con

Determination of Vanadium, Tin and Mercury in Atmospheric Particulate Matter and Cement Dust Samples by Direct Current Plasma Atomic Emission Spectrometry.

ERIC Educational Resources Information Center

Hindy, Kamal T.; And Others

1992-01-01

An atmospheric pollution study applies direct current plasma atomic emission spectrometry (DCP-AES) to samples of total suspended particulate matter collected in two industrial areas and one residential area, and cement dust collected near major cement factories. These samples were analyzed for vanadium, tin, and mercury. The results indicate the…

NHEXAS PHASE I MARYLAND STUDY--STANDARD OPERATING PROCEDURE FOR COLLECTION, STORAGE, AND SHIPMENT OF BLOOD SAMPLES FOR METAL, PESTICIDE, PAH, VOC, AND LIPID ANALYSIS (F11)

EPA Science Inventory

The purpose of this SOP is to describe collection, storage, and shipment requirements of blood samples for metal, pesticide, polynuclear aromatic hydrocarbons (PAHs), volatile organic compound (VOC), and lipid analysis. Seven samples were taken from a single puncture: two 3-mL t...

Alternatives to Three-Mode Factor Analysis: A Case Study with Data Evaluating Perceived Barriers to Medical School Training.

ERIC Educational Resources Information Center

Thomson, William A.; And Others

While educational researchers frequently collect data from a sample of individuals on a sample of variables, they sometimes collect data involving samples of: (1) subjects; (2) variables; and (3) occasions of measurement. A multistage procedure for analyzing such three-mode data is presented, focusing on effect sizes and graphic confidence…

Guano exposed: Impact of aerobic conditions on bat fecal microbiota.

PubMed

Fofanov, Viacheslav Y; Furstenau, Tara N; Sanchez, Daniel; Hepp, Crystal M; Cocking, Jill; Sobek, Colin; Pagel, Nicole; Walker, Faith; Chambers, Carol L

2018-06-01

Bats and their associated guano microbiota provide important terrestrial and subterranean ecosystem services and serve as a reservoir for a wide range of epizootic and zoonotic diseases. Unfortunately, large-scale studies of bats and their guano microbiotas are limited by the time and cost of sample collection, which requires specially trained individuals to work at night to capture bats when they are most active. Indirectly surveying bat gut microbiota through guano deposits could be a more cost-effective alternative, but it must first be established whether the postdefecation exposure to an aerobic environment has a large impact on the guano microbial community. A number of recent studies on mammalian feces have shown that the impact of aerobic exposure is highly species specific; therefore, it is difficult to predict how exposure will affect the bat guano microbiota without empirical data. In our study, we collected fresh guano samples from 24 individuals of 10 bat species that are common throughout the arid environments of the American southwest and subjected the samples to 0, 1, and 12 hr of exposure. The biodiversity decreased rapidly after the shift from an anaerobic to an aerobic environment-much faster than previously reported in mammalian species. However, the relative composition of the core guano microbiota remained stable and, using highly sensitive targeted PCR methods, we found that pathogens present in the original, non-exposed samples could still be recovered after 12 hr of exposure. These results suggest that with careful sample analysis protocols, a more efficient passive collection strategy is feasible; for example, guano could be collected on tarps placed near the roost entrance. Such passive collection methods would greatly reduce the cost of sample collection by allowing more sites or roosts to be surveyed with a fraction of trained personnel, time, and effort investments needed.

Planning of a Demonstration Project for Main Channel Disposal of Dredged Material.

DTIC Science & Technology

1980-07-01

S imon Eng lieerlng Reserch Center Y.. C Colorado State University Fort C.Ilin, Colredo- 0 -d - *-¢ i ,.., . . . FOREWORD This study was...program which identifies data needs, equipment needs and methods for collection and analyses of samples , sampling frequencies and spacing and cost...4.3.1 Data Needs .. ........ ....... 65 4.3.2 Equipment Needs and Methods for Collection and Analyses of Samples . 5 4.3.3 Sampling Frequencies and

Assessment of the Effects of Holding Time and Temperature on Escherichia coli Densities in Surface Water Samples

PubMed Central

Pope, Misty L.; Bussen, Michelle; Feige, Mary Ann; Shadix, Lois; Gonder, Sharon; Rodgers, Crystal; Chambers, Yildiz; Pulz, Jessica; Miller, Ken; Connell, Kevin; Standridge, Jon

2003-01-01

Escherichia coli is a routinely used microbiological indicator of water quality. To determine whether holding time and storage conditions had an effect on E. coli densities in surface water, studies were conducted in three phases, encompassing 24 sites across the United States and four commonly used monitoring methods. During all three phases of the study, E. coli samples were analyzed at time 0 and at 8, 24, 30, and 48 h after sample collection. During phase 1, when 4°C samples were evaluated by Colilert or by placing a membrane onto mFC medium followed by transfer to nutrient agar containing 4-methylumbelliferyl-β-d-glucuronide (mFC/NA-MUG), three of four sites showed no significant differences throughout the 48-h study. During phase 2, five of seven sites showed no significant difference between time 0 and 24 h by membrane filtration (mFC/NA-MUG). When evaluated by the Colilert method, five of seven sites showed no significant difference in E. coli density between time 0 and 48 h. During phase 3, 8 of 13 sites showed no significant differences in E. coli densities between time 0 and the 48-h holding time, regardless of method. Based on the results of these studies, it appears that if samples are held below 10°C and are not allowed to freeze, most surface water E. coli samples analyzed by commonly used methods beyond 8 h after sample collection can generate E. coli data comparable to those generated within 8 h of sample collection. Notwithstanding this conclusion, E. coli samples collected from surface waters should always be analyzed as soon as possible. PMID:14532081

Influence of the collection tube on metabolomic changes in serum and plasma.

PubMed

López-Bascón, M A; Priego-Capote, F; Peralbo-Molina, A; Calderón-Santiago, M; Luque de Castro, M D

2016-04-01

Major threats in metabolomics clinical research are biases in sampling and preparation of biological samples. Bias in sample collection is a frequently forgotten aspect responsible for uncontrolled errors in metabolomics analysis. There is a great diversity of blood collection tubes for sampling serum or plasma, which are widely used in metabolomics analysis. Most of the existing studies dealing with the influence of blood collection on metabolomics analysis have been restricted to comparison between plasma and serum. However, polymeric gel tubes, which are frequently proposed to accelerate the separation of serum and plasma, have not been studied. In the present research, samples of serum or plasma collected in polymeric gel tubes were compared with those taken in conventional tubes from a metabolomics perspective using an untargeted GC-TOF/MS approach. The main differences between serum and plasma collected in conventional tubes affected to critical pathways such as the citric acid cycle, metabolism of amino acids, fructose and mannose metabolism and that of glycerolipids, and pentose and glucuronate interconversion. On the other hand, the polymeric gel only promoted differences at the metabolite level in serum since no critical differences were observed between plasma collected with EDTA tubes and polymeric gel tubes. Thus, the main changes were attributable to serum collected in gel and affected to the metabolism of amino acids such as alanine, proline and threonine, the glycerolipids metabolism, and two primary metabolites such as aconitic acid and lactic acid. Therefore, these metabolite changes should be taken into account in planning an experimental protocol for metabolomics analysis. Copyright © 2016 Elsevier B.V. All rights reserved.

Impact of Use of Smaller Volume, Smaller Vacuum Blood Collection Tubes on Hemolysis in Emergency Department Blood Samples.

PubMed

Phelan, Michael P; Reineks, Edmunds Z; Berriochoa, Jacob P; Schold, Jesse D; Hustey, Fredric M; Chamberlin, Janelle; Kovach, Annmarie

2017-10-01

Hemolyzed blood samples commonly occur in hospital emergency departments (EDs). Our objective was to determine whether replacing standard large-volume/high-vacuum sample tubes with low-volume/low-vacuum tubes would significantly affect ED hemolysis. This was a prospective intervention of the use of small-volume/vacuum collection tubes. We evaluated all potassium samples in ED patients and associated hemolysis. We used χ2 tests to compare hemolysis incidence prior to and following utilization of small tubes for chemistry collection. There were 35,481 blood samples collected during the study period. Following implementation of small-volume tubes, overall hemolysis decreased from a baseline of 11.8% to 2.9% (P < .001) with corresponding reductions in hemolysis with comment (8.95% vs 1.99%; P < .001) gross hemolysis (2.84% vs 0.90%; P < .007). This work demonstrates that significant improvements in ED hemolysis can be achieved by utilization of small-volume/vacuum sample collection tubes. © American Society for Clinical Pathology, 2017. All rights reserved. For permissions, please e-mail: journals.permissions@oup.com

Comparative evaluation of saliva collection methods for proteome analysis.

PubMed

Golatowski, Claas; Salazar, Manuela Gesell; Dhople, Vishnu Mukund; Hammer, Elke; Kocher, Thomas; Jehmlich, Nico; Völker, Uwe

2013-04-18

Saliva collection devices are widely used for large-scale screening approaches. This study was designed to compare the suitability of three different whole-saliva collection approaches for subsequent proteome analyses. From 9 young healthy volunteers (4 women and 5 men) saliva samples were collected either unstimulated by passive drooling or stimulated using a paraffin gum or Salivette® (cotton swab). Saliva volume, protein concentration and salivary protein patterns were analyzed comparatively. Samples collected using paraffin gum showed the highest saliva volume (4.1±1.5 ml) followed by Salivette® collection (1.8±0.4 ml) and drooling (1.0±0.4 ml). Saliva protein concentrations (average 1145 μg/ml) showed no significant differences between the three sampling schemes. Each collection approach facilitated the identification of about 160 proteins (≥2 distinct peptides) per subject, but collection-method dependent variations in protein composition were observed. Passive drooling, paraffin gum and Salivette® each allows similar coverage of the whole saliva proteome, but the specific proteins observed depended on the collection approach. Thus, only one type of collection device should be used for quantitative proteome analysis in one experiment, especially when performing large-scale cross-sectional or multi-centric studies. Copyright © 2013 Elsevier B.V. All rights reserved.

Adaptation of Laser Microdissection Technique for the Study of a Spontaneous Metastatic Mammary Carcinoma Mouse Model by NanoString Technologies

PubMed Central

Saylor, Karen L.; Anver, Miriam R.; Salomon, David S.; Golubeva, Yelena G.

2016-01-01

Laser capture microdissection (LCM) of tissue is an established tool in medical research for collection of distinguished cell populations under direct microscopic visualization for molecular analysis. LCM samples have been successfully analyzed in a number of genomic and proteomic downstream molecular applications. However, LCM sample collection and preparation procedure has to be adapted to each downstream analysis platform. In this present manuscript we describe in detail the adaptation of LCM methodology for the collection and preparation of fresh frozen samples for NanoString analysis based on a study of a model of mouse mammary gland carcinoma and its lung metastasis. Our adaptation of LCM sample preparation and workflow to the requirements of the NanoString platform allowed acquiring samples with high RNA quality. The NanoString analysis of such samples provided sensitive detection of genes of interest and their associated molecular pathways. NanoString is a reliable gene expression analysis platform that can be effectively coupled with LCM. PMID:27077656

Nutrient Limitation Dynamics of a Coastal Cape Cod Pond: Seasonal Trends in Alkaline Phosphatase Activity

DTIC Science & Technology

2000-11-13

Collection and Nutrient Analyses Ashumet Pond water column profiles and samples were taken by the School for Marine Science and Technology (SMAST) at the...Collection & Analysis ........................................ .......... 77 4.3.1 SMAST Water Sampling Plan/Collection and Nutrient Analyses...suited as an indicator of phosphate limitation in natural waters . In this study alkaline phosphatase is used to understand the nutrient limitation

Assessment of a Rotating Time Sampling Procedure: Implications for Interobserver Agreement and Response Measurement

ERIC Educational Resources Information Center

Becraft, Jessica L.; Borrero, John C.; Davis, Barbara J.; Mendres-Smith, Amber E.

2016-01-01

The current study was designed to evaluate a rotating momentary time sampling (MTS) data collection system. A rotating MTS system has been used to measure activity preferences of preschoolers but not to collect data on responses that vary in duration and frequency (e.g., talking). We collected data on talking for 10 preschoolers using a 5-s MTS…

Metagenomic survey of bacterial diversity in the atmosphere of Mexico City using different sampling methods.

PubMed

Serrano-Silva, N; Calderón-Ezquerro, M C

2018-04-01

The identification of airborne bacteria has traditionally been performed by retrieval in culture media, but the bacterial diversity in the air is underestimated using this method because many bacteria are not readily cultured. Advances in DNA sequencing technology have produced a broad knowledge of genomics and metagenomics, which can greatly improve our ability to identify and study the diversity of airborne bacteria. However, researchers are facing several challenges, particularly the efficient retrieval of low-density microorganisms from the air and the lack of standardized protocols for sample collection and processing. In this study, we tested three methods for sampling bioaerosols - a Durham-type spore trap (Durham), a seven-day recording volumetric spore trap (HST), and a high-throughput 'Jet' spore and particle sampler (Jet) - and recovered metagenomic DNA for 16S rDNA sequencing. Samples were simultaneously collected with the three devices during one week, and the sequencing libraries were analyzed. A simple and efficient method for collecting bioaerosols and extracting good quality DNA for high-throughput sequencing was standardized. The Durham sampler collected preferentially Cyanobacteria, the HST Actinobacteria, Proteobacteria and Firmicutes, and the Jet mainly Proteobacteria and Firmicutes. The HST sampler collected the largest amount of airborne bacterial diversity. More experiments are necessary to select the right sampler, depending on study objectives, which may require monitoring and collecting specific airborne bacteria. Copyright © 2017 Elsevier Ltd. All rights reserved.

Ecological and Genetic Differences between Cacopsylla melanoneura (Hemiptera, Psyllidae) Populations Reveal Species Host Plant Preference

PubMed Central

Malagnini, Valeria; Pedrazzoli, Federico; Papetti, Chiara; Cainelli, Christian; Zasso, Rosaly; Gualandri, Valeria; Pozzebon, Alberto; Ioriatti, Claudio

2013-01-01

The psyllid Cacopsylla melanoneura is considered one of the vectors of ‘Candidatus Phytoplasma mali’, the causal agent of apple proliferation disease. In Northern Italy, overwintered C. melanoneura adults reach apple and hawthorn around the end of January. Nymph development takes place between March and the end of April. The new generation adults migrate onto conifers around mid-June and come back to the host plant species after overwintering. In this study we investigated behavioural differences, genetic differentiation and gene flow between samples of C. melanoneura collected from the two different host plants. Further analyses were performed on some samples collected from conifers. To assess the ecological differences, host-switching experiments were conducted on C. melanoneura samples collected from apple and hawthorn. Furthermore, the genetic structure of the samples was studied by genotyping microsatellite markers. The examined C. melanoneura samples performed better on their native host plant species. This was verified in terms of oviposition and development of the offspring. Data resulting from microsatellite analysis indicated a low, but statistically significant difference between collected-from-apple and hawthorn samples. In conclusion, both ecological and genetic results indicate a differentiation between C. melanoneura samples associated with the two host plants. PMID:23874980

Vaginal Prostate Specific Antigen (PSA) Is a Useful Biomarker of Semen Exposure Among HIV-Infected Ugandan Women.

PubMed

Woolf-King, Sarah E; Muyindike, Winnie; Hobbs, Marcia M; Kusasira, Adrine; Fatch, Robin; Emenyonu, Nneka; Johnson, Mallory O; Hahn, Judith A

2017-07-01

The practical feasibility of using prostate specific antigen (PSA) as a biomarker of semen exposure was examined among HIV-infected Ugandan women. Vaginal fluids were obtained with self-collected swabs and a qualitative rapid test (ABAcard ® p30) was used to detect PSA. Trained laboratory technicians processed samples on-site and positive PSA tests were compared to self-reported unprotected vaginal sex (UVS) in the last 48 h. A total of 77 women submitted 126 samples for PSA testing at up to three study visits. Of these samples, 31 % (n = 39/126) were PSA positive, and 64 % (n = 25/39) of the positive PSA samples were accompanied by self-report of no UVS at the study visit the PSA was collected. There were no reported difficulties with specimen collection, storage, or processing. These findings provide preliminary data on high levels of misreported UVS among HIV-infected Ugandan women using practically feasible methods for PSA collection and processing.

Assessment of geochemical and hydrologic conditions near Old Yuma Mine in Saguaro National Park, Arizona, 2014–17

USGS Publications Warehouse

Beisner, Kimberly R.; Gray, Floyd

2018-03-13

The Old Yuma Mine is an abandoned copper, lead, zinc, silver, and gold mine located within the boundaries of Saguaro National Park, Tucson Mountain District, Arizona. This study analyzed the geochemistry of sediments associated with the Old Yuma Mine and assessed hydrologic and geochemical conditions of groundwater to evaluate the area surrounding the Old Yuma Mine. The purpose of the study was to establish the geochemical signature of material associated with the Old Yuma Mine and to compare it with background material and groundwater in the area. Few groundwater samples exceeded the U.S. Environmental Protection Agency (EPA) drinking water standards. Concentrations of several elements were elevated in the waste rock and mine tailings compared with concentrations in sediments collected in background areas. A subset of 15 sediment samples was leached to simulate precipitation interacting with the solid material. Analysis of leachate samples compared to groundwater samples suggests that groundwater samples collected in this study are distinct from leachate samples associated with mining related material. Results suggest that at this time groundwater samples collected during this investigation are not influenced by elements leached from Old Yuma Mine materials.

The Impact of Using Different Methods to Assess Completeness of 24-Hour Urine Collection on Estimating Dietary Sodium.

PubMed

Wielgosz, Andreas; Robinson, Christopher; Mao, Yang; Jiang, Ying; Campbell, Norm R C; Muthuri, Stella; Morrison, Howard

2016-06-01

The standard for population-based surveillance of dietary sodium intake is 24-hour urine testing; however, this may be affected by incomplete urine collection. The impact of different indirect methods of assessing completeness of collection on estimated sodium ingestion has not been established. The authors enlisted 507 participants from an existing community study in 2009 to collect 24-hour urine samples. Several methods of assessing completeness of urine collection were tested. Mean sodium intake varied between 3648 mg/24 h and 7210 mg/24 h depending on the method used. Excluding urine samples collected for longer or shorter than 24 hours increased the estimated urine sodium excretion, even when corrections for the variation in timed collections were applied. Until an accurate method of indirectly assessing completeness of urine collection is identified, the gold standard of administering para-aminobenzoic acid is recommended. Efforts to ensure participants collect complete urine samples are also warranted. ©2015 Wiley Periodicals, Inc.

Radon-222 content of natural gas samples from Upper and Middle Devonian sandstone and shale reservoirs in Pennsylvania—preliminary data

USGS Publications Warehouse

Rowan, E.L.; Kraemer, T.F.

2012-01-01

Samples of natural gas were collected as part of a study of formation water chemistry in oil and gas reservoirs in the Appalachian Basin. Nineteen samples (plus two duplicates) were collected from 11 wells producing gas from Upper Devonian sandstones and the Middle Devonian Marcellus Shale in Pennsylvania. The samples were collected from valves located between the wellhead and the gas-water separator. Analyses of the radon content of the gas indicated 222Rn (radon-222) activities ranging from 1 to 79 picocuries per liter (pCi/L) with an overall median of 37 pCi/L. The radon activities of the Upper Devonian sandstone samples overlap to a large degree with the activities of the Marcellus Shale samples.

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

Broxton, D.E.

A total of 338 water and 1877 sediment samples were collected over a 20,700-km/sup 2/ area from 2125 locations at a nominal density of one sample per 10 km/sup 2/. Water samples were collected from wells, streams, springs, and artificial ponds. Sediment samples were collected from streams, springs, natural ponds, and artificial ponds. Arbitrary anomaly thresholds of two standard deviations above the mean were chosen for both water and sediment sample populations. The U concentrations in waters collected in the Tularosa quadrangle range from below the detection limit of 0.2 parts per billion (ppB) to 57.8 ppB. Most clusters ofmore » water samples containing anomalously high uranium concentrations were collected from locations in uplifts underlain either by volcanic rocks of the mid-Tertiary Datil group or by sedimentary rocks of late Paleozoic and Mesozoic age. Other groups of anomalous waters are from wells that tap Cenozoic aquifers in the intermontane basins. In those areas where the water-sample location coverage is adequate, the known U occurrences are generally associated with high or anomalous U concentrations in water samples. With the exception of one sample with a U concentration of 67.7 ppM, sediments collected in this study have U concentrations that range between 0.2 and 15.2 ppM. Most sediments with U concentrations above the arbitrary anomaly threshold value are from locations which occur in or parallel outcrops of Precambrian crystalline rock exposed in the San Andres and Oscura Mountains. Other anomalous sediments occur as more discreet groups in areas underlain by mid-Tertiary volcanic rocks of the Datil group. Several anomalous samples from the Mogollon-Datil volcanic field were collected along ring fracture systems that surround large volcanic cauldrons.« less

The UK Biobank sample handling and storage validation studies.

PubMed

Peakman, Tim C; Elliott, Paul

2008-04-01

and aims UK Biobank is a large prospective study in the United Kingdom to investigate the role of genetic factors, environmental exposures and lifestyle in the causes of major diseases of late and middle age. It involves the collection of blood and urine from 500 000 individuals aged between 40 and 69 years. How the samples are collected, processed and stored will have a major impact on the future scientific usefulness of the UK Biobank resource. A series of validation studies was recommended to test the robustness of the draft sample handling and storage protocol. Samples of blood and urine were collected from 40 healthy volunteers and either processed immediately according to the protocol or maintained at specified temperatures (4 degrees C for all tubes with the exception of vacutainers containing acid citrate dextrose that were maintained at 18 degrees C) for 12, 24 or 36 h prior to processing. A further sample was maintained for 24 h at 4 degrees C, processed and the aliquots frozen at -80 degrees C for 20 days and then thawed under controlled conditions. The stability of the samples was compared for the different times in a wide variety of assays. The samples maintained at 4 degrees C were stable for at least 24 h after collection for a wide range of assays. Small but significant changes were observed in metabonomic studies in samples maintained at 4 degrees C for 36 h. There was no degradation of the samples for a range of biochemical assays after short-term freezing and thawing under controlled conditions. Whole blood maintained at 18 degrees C for 24 h in vacutainers containing acid citrate dextrose is suitable for viral immortalization techniques. The validation studies reported in this supplement provide justification for the sample handling and storage procedures adopted in the UK Biobank project.

The precision of wet atmospheric deposition data from national atmospheric deposition program/national trends network sites determined with collocated samplers

USGS Publications Warehouse

Nilles, M.A.; Gordon, J.D.; Schroder, L.J.

1994-01-01

A collocated, wet-deposition sampler program has been operated since October 1988 by the U.S. Geological Survey to estimate the overall sampling precision of wet atmospheric deposition data collected at selected sites in the National Atmospheric Deposition Program and National Trends Network (NADP/NTN). A duplicate set of wet-deposition sampling instruments was installed adjacent to existing sampling instruments at four different NADP/NTN sites for each year of the study. Wet-deposition samples from collocated sites were collected and analysed using standard NADP/NTN procedures. Laboratory analyses included determinations of pH, specific conductance, and concentrations of major cations and anions. The estimates of precision included all variability in the data-collection system, from the point of sample collection through storage in the NADP/NTN database. Sampling precision was determined from the absolute value of differences in the analytical results for the paired samples in terms of median relative and absolute difference. The median relative difference for Mg2+, Na+, K+ and NH4+ concentration and deposition was quite variable between sites and exceeded 10% at most sites. Relative error for analytes whose concentrations typically approached laboratory method detection limits were greater than for analytes that did not typically approach detection limits. The median relative difference for SO42- and NO3- concentration, specific conductance, and sample volume at all sites was less than 7%. Precision for H+ concentration and deposition ranged from less than 10% at sites with typically high levels of H+ concentration to greater than 30% at sites with low H+ concentration. Median difference for analyte concentration and deposition was typically 1.5-2-times greater for samples collected during the winter than during other seasons at two northern sites. Likewise, the median relative difference in sample volume for winter samples was more than double the annual median relative difference at the two northern sites. Bias accounted for less than 25% of the collocated variability in analyte concentration and deposition from weekly collocated precipitation samples at most sites.A collocated, wet-deposition sampler program has been operated since OCtober 1988 by the U.S Geological Survey to estimate the overall sampling precision of wet atmospheric deposition data collected at selected sites in the National Atmospheric Deposition Program and National Trends Network (NADP/NTN). A duplicate set of wet-deposition sampling instruments was installed adjacent to existing sampling instruments four different NADP/NTN sites for each year of the study. Wet-deposition samples from collocated sites were collected and analysed using standard NADP/NTN procedures. Laboratory analyses included determinations of pH, specific conductance, and concentrations of major cations and anions. The estimates of precision included all variability in the data-collection system, from the point of sample collection through storage in the NADP/NTN database.

Variability of indoor fungal microbiome of green and non-green low-income homes in Cincinnati, Ohio.

PubMed

Coombs, Kanistha; Taft, Diana; Ward, Doyle V; Green, Brett J; Chew, Ginger L; Shamsaei, Behrouz; Meller, Jaroslaw; Indugula, Reshmi; Reponen, Tiina

2018-01-01

"Green" housing is designed to use low-impact materials, increase energy efficiency and improve occupant health. However, little is known about the indoor mycobiome of green homes. The current study is a subset of a multicenter study that aims to investigate the indoor environment of green homes and the respiratory health of asthmatic children. In the current study, the mycobiome in air, bed dust and floor dust was compared between green (study site) and non-green (control site), low-income homes in Cincinnati, Ohio. The samples were collected at baseline (within four months following renovation), and 12months after the baseline at the study site. Parallel sample collection was conducted in non-green control homes. Air samples were collected by PM2.5 samplers over 5-days. Bed and floor dust samples were vacuumed after the air sampling was completed. The DNA sample extracts were analyzed using ITS amplicon sequencing. Analysis indicated that there was no clear trend in the fungal communities between green and non-green homes. Instead, fungal community differences were greatest between sample types - air, bed, and floor. Microbial communities also changed substantially between sampling intervals in both green and non-green homes for all sample types, potentially indicating that there was very little stability in the mycobiomes. Research gaps remain regarding how indoor mycobiome fluctuates over time. Longer follow-up periods might elucidate the effect of green renovation on microbial load in buildings. Copyright © 2017 Elsevier B.V. All rights reserved.

Effectiveness of bowl trapping and netting for inventory of a bee community

USGS Publications Warehouse

Grundel, R.; Frohnapple, K.J.; Jean, R.P.; Pavlovic, N.B.

2011-01-01

Concern over the status of bees has increased the need to inventory bee communities and, consequently, has increased the need to understand effectiveness of different bee sampling methods. We sampled bees using bowl traps and netting at 25 northwest Indiana sites ranging from open grasslands to forests. Assemblages of bees captured in bowl traps and by netting were very similar, but this similarity was driven by similar relative abundances of commonly captured species. Less common species were often not shared between collection methods (bowls, netting) and only about half of the species were shared between methods. About one-quarter of species were more often captured by one of the two collection methods. Rapid accumulation of species was aided by sampling at temporal and habitat extremes. In particular, collecting samples early and late in the adult flight season and in open and forest habitats was effective in capturing the most species with the fewest samples. The number of samples estimated necessary to achieve a complete inventory using bowls and netting together was high. For example, ≈72% of species estimated capturable in bowls were captured among the 3,159 bees collected in bowls in this study, but ≈30,000–35,000 additional bees would need to be collected to achieve a 100% complete inventory. For bowl trapping, increasing the number of sampling dates or sampling sites was more effective than adding more bowls per sampling date in completing the inventory with the fewest specimens collected.

The UK Biobank sample handling and storage protocol for the collection, processing and archiving of human blood and urine.

PubMed

Elliott, Paul; Peakman, Tim C

2008-04-01

UK Biobank is a large prospective study in the UK to investigate the role of genetic factors, environmental exposures and lifestyle in the causes of major diseases of late and middle age. Extensive data and biological samples are being collected from 500,000 participants aged between 40 and 69 years. The biological samples that are collected and how they are processed and stored will have a major impact on the future scientific usefulness of the UK Biobank resource. The aim of the UK Biobank sample handling and storage protocol is to specify methods for the collection and storage of participant samples that give maximum scientific return within the available budget. Processing or storage methods that, as far as can be predicted, will preclude current or future assays have been avoided. The protocol was developed through a review of the literature on sample handling and processing, wide consultation within the academic community and peer review. Protocol development addressed which samples should be collected, how and when they should be processed and how the processed samples should be stored to ensure their long-term integrity. The recommended protocol was extensively tested in a series of validation studies. UK Biobank collects about 45 ml blood and 9 ml of urine with minimal local processing from each participant using the vacutainer system. A variety of preservatives, anti-coagulants and clot accelerators is used appropriate to the expected end use of the samples. Collection of other material (hair, nails, saliva and faeces) was also considered but rejected for the full cohort. Blood and urine samples from participants are transported overnight by commercial courier to a central laboratory where they are processed and aliquots of urine, plasma, serum, white cells and red cells stored in ultra-low temperature archives. Aliquots of whole blood are also stored for potential future production of immortalized cell lines. A standard panel of haematology assays is completed on whole blood from all participants, since such assays need to be conducted on fresh samples (whereas other assays can be done on stored samples). By the end of the recruitment phase, 15 million sample aliquots will be stored in two geographically separate archives: 9.5 million in a -80 degrees C automated archive and 5.5 million in a manual liquid nitrogen archive at -180 degrees C. Because of the size of the study and the numbers of samples obtained from participants, the protocol stipulates a highly automated approach for the processing and storage of samples. Implementation of the processes, technology, systems and facilities has followed best practices used in manufacturing industry to reduce project risk and to build in quality and robustness. The data produced from sample collection, processing and storage are highly complex and are managed by a commercially available LIMS system fully integrated with the entire process. The sample handling and storage protocol adopted by UK Biobank provides quality assured and validated methods that are feasible within the available funding and reflect the size and aims of the project. Experience from recruiting and processing the first 40,000 participants to the study demonstrates that the adopted methods and technologies are fit-for-purpose and robust.

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

Copeland, Timothy; Putnam, Scott

The goal of Idaho Steelhead Monitoring and Evaluation Studies is to collect monitoring data to evaluate wild and natural steelhead populations in the Clearwater and Salmon river drainages. During 2007, intensive population data were collected in Fish Creek (Lochsa River tributary) and Rapid River (Little Salmon River tributary); extensive data were collected in other selected spawning tributaries. Weirs were operated in Fish Creek and Rapid River to estimate adult escapement and to collect samples for age determination and genetic analysis. Snorkel surveys were conducted in Fish Creek, Rapid River, and Boulder Creek (Little Salmon River tributary) to estimate parr density.more » Screw traps were operated in Fish Creek, Rapid River, Secesh River, and Big Creek to estimate juvenile emigrant abundance, to tag fish for survival estimation, and to collect samples for age determination and genetic analysis. The estimated wild adult steelhead escapement in Fish Creek was 81 fish and in Rapid River was 32 fish. We estimate that juvenile emigration was 24,127 fish from Fish Creek; 5,632 fish from Rapid River; and 43,674 fish from Big Creek. The Secesh trap was pulled for an extended period due to wildfires, so we did not estimate emigrant abundance for that location. In cooperation with Idaho Supplementation Studies, trap tenders PIT tagged 25,618 steelhead juveniles at 18 screw trap sites in the Clearwater and Salmon river drainages. To estimate age composition, 143 adult steelhead and 5,082 juvenile steelhead scale samples were collected. At the time of this report, 114 adult and 1,642 juvenile samples have been aged. Project personnel collected genetic samples from 122 adults and 839 juveniles. We sent 678 genetic samples to the IDFG Eagle Fish Genetics Laboratory for analysis. Water temperature was recorded at 37 locations in the Clearwater and Salmon river drainages.« less

Using dried blood spot sampling to improve data quality and reduce animal use in mouse pharmacokinetic studies.

PubMed

Wickremsinhe, Enaksha R; Perkins, Everett J

2015-03-01

Traditional pharmacokinetic analysis in nonclinical studies is based on the concentration of a test compound in plasma and requires approximately 100 to 200 μL blood collected per time point. However, the total blood volume of mice limits the number of samples that can be collected from an individual animal-often to a single collection per mouse-thus necessitating dosing multiple mice to generate a pharmacokinetic profile in a sparse-sampling design. Compared with traditional methods, dried blood spot (DBS) analysis requires smaller volumes of blood (15 to 20 μL), thus supporting serial blood sampling and the generation of a complete pharmacokinetic profile from a single mouse. Here we compare plasma-derived data with DBS-derived data, explain how to adopt DBS sampling to support discovery mouse studies, and describe how to generate pharmacokinetic and pharmacodynamic data from a single mouse. Executing novel study designs that use DBS enhances the ability to identify and streamline better drug candidates during drug discovery. Implementing DBS sampling can reduce the number of mice needed in a drug discovery program. In addition, the simplicity of DBS sampling and the smaller numbers of mice needed translate to decreased study costs. Overall, DBS sampling is consistent with 3Rs principles by achieving reductions in the number of animals used, decreased restraint-associated stress, improved data quality, direct comparison of interanimal variability, and the generation of multiple endpoints from a single study.

Using Dried Blood Spot Sampling to Improve Data Quality and Reduce Animal Use in Mouse Pharmacokinetic Studies

PubMed Central

Wickremsinhe, Enaksha R; Perkins, Everett J

2015-01-01

Traditional pharmacokinetic analysis in nonclinical studies is based on the concentration of a test compound in plasma and requires approximately 100 to 200 µL blood collected per time point. However, the total blood volume of mice limits the number of samples that can be collected from an individual animal—often to a single collection per mouse—thus necessitating dosing multiple mice to generate a pharmacokinetic profile in a sparse-sampling design. Compared with traditional methods, dried blood spot (DBS) analysis requires smaller volumes of blood (15 to 20 µL), thus supporting serial blood sampling and the generation of a complete pharmacokinetic profile from a single mouse. Here we compare plasma-derived data with DBS-derived data, explain how to adopt DBS sampling to support discovery mouse studies, and describe how to generate pharmacokinetic and pharmacodynamic data from a single mouse. Executing novel study designs that use DBS enhances the ability to identify and streamline better drug candidates during drug discovery. Implementing DBS sampling can reduce the number of mice needed in a drug discovery program. In addition, the simplicity of DBS sampling and the smaller numbers of mice needed translate to decreased study costs. Overall, DBS sampling is consistent with 3Rs principles by achieving reductions in the number of animals used, decreased restraint-associated stress, improved data quality, direct comparison of interanimal variability, and the generation of multiple endpoints from a single study. PMID:25836959

Archival policies and collections database for the Woods Hole Science Center's marine sediment samples

USGS Publications Warehouse

Buczkowski, Brian J.; Kelsey, Sarah A.

2007-01-01

The Woods Hole Science Center of the U.S. Geological Survey (USGS) has been an active member of the Woods Hole research community, Woods Hole, Massachusetts, for over 40 years. In that time there have been many projects that involved the collection of sediment samples conducted by USGS scientists and technicians for the research and study of seabed environments and processes. These samples were collected at sea or near shore and then brought back to the Woods Hole Science Center (WHSC) for analysis. While at the center, samples are stored in ambient temperature, refrigerated and freezing conditions ranging from +2º Celsius to -18º Celsius, depending on the best mode of preparation for the study being conducted or the duration of storage planned for the samples. Recently, storage methods and available storage space have become a major concern at the WHSC. The core and sediment archive program described herein has been initiated to set standards for the management, methods, and duration of sample storage. A need has arisen to maintain organizational consistency and define storage protocol. This handbook serves as a reference and guide to all parties interested in using and accessing the WHSC's sample archive and also defines all the steps necessary to construct and maintain an organized collection of geological samples. It answers many questions as to the way in which the archive functions.

Molecular identification of Blastocystis sp. subtypes in water samples collected from Black sea, Turkey.

PubMed

Koloren, Zeynep; Gulabi, Berivan Basak; Karanis, Panagiotis

2018-04-01

The aim of this study was to identify the subtypes of Blastocystis sp. and complete a phylogenetic analysis of 268 water samples that were collected from the Samsun, Amasya and Sinop Provinces of the Black Sea in Turkey, between the years 2011 and 2014. Blastocystis sp. was investigated in 48 uncultured sea water samples that were collected from 4 sites within the Sinop Province. A total of 100 river water samples were collected from 37 sites in the Samsun Province and 120 river water samples were collected from 10 sampling sites within the Amasya Province. The small subunit (SSU) rDNA gene Polymerase chain reaction (PCR) were performed for the detection of Blastocytis sp. and the PCR-positive samples were sequenced. Subsequently, the (SSU) rDNA sequences were aligned by Bioedit and phylogenetic trees were constructed for Blastocystis with reference to the genotypes from GenBank. Blastocystis sp. were found in 3 out of the 75 (4%) river water samples that were collected from the Samsun Province. Six of the 120 (5%) river water samples and 1 out of the 48 (2%) seawater samples were positive for Blastocystis in the Amasya and Sinop Provinces. There were two different subtypes (ST; 1 and 3) found from sequencing all of the samples from the investigated sites. Two and one PCR products were found to be positive for ST1 and ST3 from the different samples collected within the Samsun Province. Two and 4 PCR products from the Amasya Province were ST1 and ST3, respectively and only one sample from the Sinop Province was found to be positive for ST1. This is the first report to identify and report the occurrence of Blastocystis subtypes within the Black Sea of Turkey. Copyright © 2018 Elsevier B.V. All rights reserved.

Apollo Missions to the Lunar Surface

NASA Technical Reports Server (NTRS)

Graff, Paige V.

2018-01-01

Six Apollo missions to the Moon, from 1969-1972, enabled astronauts to collect and bring lunar rocks and materials from the lunar surface to Earth. Apollo lunar samples are curated by NASA Astromaterials at the NASA Johnson Space Center in Houston, TX. Samples continue to be studied and provide clues about our early Solar System. Learn more and view collected samples at: https://curator.jsc.nasa.gov/lunar.

Impact of Pre-analytic Blood Sample Collection Factors on Metabolomics.

PubMed

Townsend, Mary K; Bao, Ying; Poole, Elizabeth M; Bertrand, Kimberly A; Kraft, Peter; Wolpin, Brian M; Clish, Clary B; Tworoger, Shelley S

2016-05-01

Many epidemiologic studies are using metabolomics to discover markers of carcinogenesis. However, limited data are available on the influence of pre-analytic blood collection factors on metabolite measurement. We quantified 166 metabolites in archived plasma from 423 Health Professionals Follow-up Study and Nurses' Health Study participants using liquid chromatography-tandem mass spectrometry (LC-MS). We compared multivariable-adjusted geometric mean metabolite LC-MS peak areas across fasting time, season of blood collection, and time of day of blood collection categories. The majority of metabolites (160 of 166 metabolites) had geometric mean peak areas that were within 15% comparing samples donated after fasting 9 to 12 versus ≥13 hours; greater differences were observed in samples donated after fasting ≤4 hours. Metabolite peak areas generally were similar across season of blood collection, although levels of certain metabolites (e.g., bile acids and purines/pyrimidines) tended to be different in the summer versus winter months. After adjusting for fasting status, geometric mean peak areas for bile acids and vitamins, but not other metabolites, differed by time of day of blood collection. Fasting, season of blood collection, and time of day of blood collection were not important sources of variability in measurements of most metabolites in our study. However, considering blood collection variables in the design or analysis of studies may be important for certain specific metabolites, particularly bile acids, purines/pyrimidines, and vitamins. These results may be useful for investigators formulating analysis plans for epidemiologic metabolomics studies, including determining which metabolites to a priori exclude from analyses. Cancer Epidemiol Biomarkers Prev; 25(5); 823-9. ©2016 AACR. ©2016 American Association for Cancer Research.

Virological and molecular epidemiological investigations into the role of wild birds in the epidemiology of influenza A/H5N1 in central Thailand.

PubMed

Siengsanan-Lamont, J; Robertson, I; Blacksell, S D; Ellis, T; Fenwick, S; Saengchoowong, S; Suwanpukdee, S; Yongyuttawichai, P; Sariya, L; Prompiram, P; Chaichoun, K; Wiriyarat, W; Pothieng, D; Ratanakorn, P

2011-03-24

A serological and virological surveillance program to investigate the HPAI H5N1 virus in wild bird populations was undertaken from February 2007 to October 2008. The purpose of the survey was to investigate the infection status in free ranging wild birds in Banglane district, Nakhon Pathom province, central Thailand. Samples from wild birds were collected every two months. Choanal and cloacal swabs, serum and tissue samples were collected from 421 birds comprising 44 species. Sero-prevalence of the virus tested by H5N1 serum neutralization test (using a H5N1 virus clade 1; A/chicken/Thailand/vsmu-3-BKK/2004) was 2.1% (8 out of 385 samples; 95% CI 0.7, 3.5). Species that were antibody positive included rock pigeons (Columba livia), Asian pied starling (Gracupica contra), spotted dove (Streptopelia chinensis), oriental magpie robin (Copsychus saularis), blue-tailed bee-eater (Merops philippinus), myna (Acridotheres spp.), and pond heron (Ardeola spp.). Prevalence by H5N1 virus isolation was 0.5% (2 out of 421 samples; 95% CI 0.0, 1.1); the two H5N1 virus-positive samples were from Asian pied starling (Gracupica contra) and white vented myna (Acridotheres grandis). Positive virological samples were collected in June 2007 while all positive serology samples were collected between May and August except for one sample collected in December 2007. No positive samples were collected in 2008. Molecular studies revealed that the wild bird H5N1 viruses were closely related to poultry viruses isolated in other parts of Thailand. However, there was no poultry H5N1 prevalence study performed in the study site during the time of this wild bird survey. Interpretation of source of virus isolates would include spill-over of H5N1 viruses from contaminated sources due to movement of domestic poultry and/or fomites from other areas; or infection of wild birds within the outbreak locations and then translocation by wild bird movement and interaction with wild birds inhabiting distant locations. Copyright © 2010 Elsevier B.V. All rights reserved.

Effects of Specimen Collection Methodologies and Storage Conditions on the Short-Term Stability of Oral Microbiome Taxonomy.

PubMed

Luo, Ting; Srinivasan, Usha; Ramadugu, Kirtana; Shedden, Kerby A; Neiswanger, Katherine; Trumble, Erika; Li, Jiean J; McNeil, Daniel W; Crout, Richard J; Weyant, Robert J; Marazita, Mary L; Foxman, Betsy

2016-09-15

Community profiling of the oral microbiome requires the recovery of quality sequences in order to accurately describe microbial community structure and composition. Our objective was to assess the effects of specimen collection method, storage medium, and storage conditions on the relative abundance of taxa in saliva and plaque identified using 16S rRNA genes. We also assessed short-term changes in taxon composition and relative abundance and compared the salivary and dental plaque communities in children and adults. Over a 2-week period, four successive saliva and dental plaque specimens were collected from four adults with no dental decay (108 samples), and two successive specimens were collected from six children with four or more erupted teeth (48 samples). There were minimal differences in community composition at the phylum and operational taxonomic unit levels between dental plaque collection using a scaler and collection using a CytoSoft brush. Plaque samples stored in OMNIgene medium showed higher within-sample Shannon diversity, were compositionally different, and were more similar to each other than plaque stored in liquid dental transport medium. Saliva samples stored in OMNIgene recovered similar communities for at least a week following storage at room temperature. However, the microbial communities recovered from plaque and saliva stored in OMNIgene were significantly different in composition from their counterparts stored in liquid dental transport medium. Dental plaque communities collected from the same tooth type over four successive visits from the same adult did not significantly differ in structure or composition. Large-scale epidemiologic studies require collection over time and space, often with multiple teams collecting, storing, and processing data. Therefore, it is essential to understand how sensitive study results are to modest changes in collection and storage protocols that may occur with variation in personnel, resources available at a study site, and shipping requirements. The research presented in this paper measures the effects of multiple storage parameters and collection methodologies on the measured ecology of the oral microbiome from healthy adults and children. These results will potentially enable investigators to conduct oral microbiome studies at maximal efficiency by guiding informed administrative decisions pertaining to the necessary field or clinical work. Copyright © 2016, American Society for Microbiology. All Rights Reserved.

Effects of Specimen Collection Methodologies and Storage Conditions on the Short-Term Stability of Oral Microbiome Taxonomy

PubMed Central

Luo, Ting; Srinivasan, Usha; Ramadugu, Kirtana; Shedden, Kerby A.; Neiswanger, Katherine; Trumble, Erika; Li, Jiean J.; McNeil, Daniel W.; Crout, Richard J.; Weyant, Robert J.; Marazita, Mary L.

2016-01-01

ABSTRACT Community profiling of the oral microbiome requires the recovery of quality sequences in order to accurately describe microbial community structure and composition. Our objective was to assess the effects of specimen collection method, storage medium, and storage conditions on the relative abundance of taxa in saliva and plaque identified using 16S rRNA genes. We also assessed short-term changes in taxon composition and relative abundance and compared the salivary and dental plaque communities in children and adults. Over a 2-week period, four successive saliva and dental plaque specimens were collected from four adults with no dental decay (108 samples), and two successive specimens were collected from six children with four or more erupted teeth (48 samples). There were minimal differences in community composition at the phylum and operational taxonomic unit levels between dental plaque collection using a scaler and collection using a CytoSoft brush. Plaque samples stored in OMNIgene medium showed higher within-sample Shannon diversity, were compositionally different, and were more similar to each other than plaque stored in liquid dental transport medium. Saliva samples stored in OMNIgene recovered similar communities for at least a week following storage at room temperature. However, the microbial communities recovered from plaque and saliva stored in OMNIgene were significantly different in composition from their counterparts stored in liquid dental transport medium. Dental plaque communities collected from the same tooth type over four successive visits from the same adult did not significantly differ in structure or composition. IMPORTANCE Large-scale epidemiologic studies require collection over time and space, often with multiple teams collecting, storing, and processing data. Therefore, it is essential to understand how sensitive study results are to modest changes in collection and storage protocols that may occur with variation in personnel, resources available at a study site, and shipping requirements. The research presented in this paper measures the effects of multiple storage parameters and collection methodologies on the measured ecology of the oral microbiome from healthy adults and children. These results will potentially enable investigators to conduct oral microbiome studies at maximal efficiency by guiding informed administrative decisions pertaining to the necessary field or clinical work. PMID:27371581

Feasibility of collecting 24-h urine to monitor sodium intake in the National Health and Nutrition Examination Survey123

PubMed Central

Terry, Ana L; Cogswell, Mary E; Wang, Chia-Yih; Chen, Te-Ching; Loria, Catherine M; Wright, Jacqueline D; Zhang, Xinli; Lacher, David A; Merritt, Robert K; Bowman, Barbara A

2016-01-01

Background: Twenty-four–hour urine sodium excretion is recommended for monitoring population sodium intake. Because of concerns about participation and completion, sodium excretion has not been collected previously in US nationally representative surveys. Objective: We assessed the feasibility of implementing 24-h urine collections as part of a nationally representative survey. Design: We selected a random half sample of nonpregnant US adults aged 20–69 y in 3 geographic locations of the 2013 NHANES. Participants received explicit instructions, started and ended the urine collection in a urine study mobile examination center, and answered questions about their collection. Among those with a complete 24-h urine collection, a random one-half were asked to collect a second 24-h urine sample. Sodium, potassium, chloride, and creatinine excretion were analyzed. Results: The final NHANES examination response rate for adults aged 20–69 y in these 3 study locations was 71%. Of those examined (n = 476), 282 (59%) were randomly selected to participate in the 24-h urine collection. Of these, 212 persons [75% of those selected for 24-h urine collection; 53% (equal to 71% × 75% of those selected for the NHANES)] collected a complete initial 24-h specimen and 92 persons (85% of 108 selected) collected a second complete 24-h urine sample. More men than women completed an initial collection (P = 0.04); otherwise, completion did not vary by sociodemographic characteristics, body mass index, education, or employment status for either collection. Mean 24-h urine volume and sodium excretion were 1964 ± 1228 mL and 3657 ± 2003 mg, respectively, for the first 24-h urine sample, and 2048 ± 1288 mL and 3773 ± 1891 mg, respectively, for the second collection. Conclusion: Given the 53% final component response rate and 75% completion rate, 24-h urine collections were deemed feasible and implemented in the NHANES 2014 on a subsample of adults aged 20–69 y to assess population sodium intake. This study was registered at clinicaltrials.gov as NCT02723682. PMID:27413136

Surface sampling for endotoxin assessment using electrostatic wiping cloths.

PubMed

Thorne, Peter S; Metwali, Nervana; Avol, Ed; McConnell, Rob S

2005-07-01

Much of the cost of exposure assessment for studies of residential cohorts is in scheduling and travel time for field staff. One way to reduce costs is to simplify methods such that subjects can sample their own residence. Analysis of settled dust is being widely used for assessment of exposures to allergens, lead and pesticides and can also be used for endotoxins. While vacuum sampling is the most common surface sampling method, wipe sampling has the advantage that it can be readily performed by the resident when convenient and samples can then be mailed to researchers. Thus, we evaluated the feasibility of wipe sampling for endotoxin environmental assessment using electrostatic wipes with or without the use of disposable examination gloves. Multiple lots of six types of commercial wipes and eight types of gloves were extracted and analyzed for endotoxin content using the kinetic chromogenic Limulus amebocyte lysate assay. Wipes were compared across brands, between lots, within lots, between pairs depending on proximity to cardboard packaging, and in wipe tests with or without gloves. Collected dust samples of known concentration were also tested in spiking assays for endotoxin recovery. The most striking finding was the high variability of endotoxin contamination of both wipes and gloves across brands and between various lots. The content of endotoxin in unused gloves ranged from <1.5 to 5810 endotoxin units (EU). The range for unused wipes was 3.6-87.8 EU. Surfaces of equal loading and area were sampled using three types of cloths that had low initial endotoxin contamination. The cloths were very good at collecting dust and endotoxin could be assayed from aqueous extracts of the wipes. Samples collected using cloths with bare washed hands yielded higher endotoxin loading per mass of collected dust versus samples collected wearing endotoxin-free gloves. This demonstrated additional endotoxin loading from the subject's hand. This study shows that wipe sampling while wearing medical gloves can be an effective method for collecting and assessing endotoxin on surfaces, so long as each lot of wipes and gloves have been tested and determined to be low in endotoxin.

Surface- and Ground-Water Monitoring and Mapping of Selected Features at the Blue Ridge Parkway Mt. Pisgah Campground, Haywood County, North Carolina, 2002

USGS Publications Warehouse

Smith, Douglas G.

2004-01-01

During 2002, a baseline study of hydrologic conditions was conducted, and selected features were mapped within the Mt. Pisgah campground on the Blue Ridge Parkway in Haywood County, North Carolina. Field surveys were performed by using global positioning system equipment one time (January 2002) during the study to locate hydrologic and other types of features in the study area. Water-level and streamflow data and seasonal water-quality samples were collected from a stream that receives all surface-water drainage from the campground area. During 2002, water levels (stage) in the stream ranged from 1.09 to 1.89 feet above gage datum (4,838.06 to 4,838.86 feet above mean sea level). Flow in the stream ranged from 0.05 to 9.7 cubic feet per second. Annual daily mean flow for calendar year 2002 was approximately 0.35 cubic foot per second (about 226,000 gallons per day). Samples collected from the stream had low concentrations of all constituents measured. Four compounds associated with human activity (camphor, N,N-diethyl-meta-toluamide (the insect repellent DEET), tributylphosphate, and methylsalicylate) were detected in the stream samples; however, concentrations were less than detection levels. Stream samples collected in April and September and analyzed for fecal coliform bacteria had densities of 76 and 110 colonies per 100 milliliters of water, respectively. No violations of water-quality standards were noted for any constituent measured in the stream samples. Seven shallow ground-water wells were installed near a natural area in the center of the campground. Ground-water levels measured periodically in these wells and in two existing shallow piezometers generally were highest in the spring and lowest in the fall. Water temperature, pH, and specific conductance were measured in samples collected from the shallow wells in April and September 2002. Measured pH values were consistently lowest in samples from two wells on the west side of the natural area and highest in samples from the well located near the center of the natural area. Specific-conductance values measured in samples from wells on the east side of the natural area were lower than those measured in samples from the other wells. Specific-conductance values measured in samples from two wells on the west side and from one well near the center of the natural area generally were two to three times higher than the specific-conductance values measured in samples from wells on the east side of the natural area. Samples for fecal coliform bacteria were collected from six wells on September 11, 2002. The fecal coliform densities in samples from most of the wells were less than or equal to 8 colonies per 100 milliliters. Samples from two of the three wells on the west side of the natural area had coliform densities of 16 and 480 colonies per 100 milliliters. Other ground-water samples collected on September 11 and September 24 were analyzed with a spectrophotometer in the U.S. Geological Survey (USGS) North Carolina District Office for nitrate concentrations only. From the samples collected on September 11, estimated nitrate concentrations of 1 milligram per liter or less were detected in three wells, two on the west side and one on the east side of the natural area. Nitrate was not detected with a spectrophotometer in any of the ground-water samples collected on September 24. Indicator test strips also were used in the field to screen for nitrate and nitrite in ground-water samples collected on September 24. Nitrate was detected by test strips in one well on the west side of the natural area, with estimated concentrations of 1 milligram per liter or less indicated. Nitrite was not detected by the test strips in samples collected from any of the wells.

a Comparison of Morphological Taxonomy and Next Generation DNA Sequencing for the Assessment of Zooplankton Diversity

NASA Astrophysics Data System (ADS)

Harvey, J.; Fisher, J. L.; Johnson, S.; Morgan, S.; Peterson, W. T.; Satterthwaite, E. V.; Vrijenhoek, R. C.

2016-02-01

Our ability to accurately characterize the diversity of planktonic organisms is affected by both the methods we use to collect water samples and our approaches to assessing sample contents. Plankton nets collect organisms from high volumes of water, but integrate sample contents along the net's path. In contrast, plankton pumps collect water from discrete depths. Autonomous underwater vehicles (AUVs) can collect water samples with pinpoint accuracy from physical features such as upwelling fronts or biological features such as phytoplankton blooms, but sample volumes are necessarily much smaller than those possible with nets. Characterization of plankton diversity and abundances in water samples may also vary with the assessment method we apply. Morphological taxonomy provides visual identification and enumeration of organisms via microscopy, but is labor intensive. Next generation DNA sequencing (NGS) shows great promise for assessing plankton diversity in water samples but accurate assessment of relative abundances may not be possible in all cases. Comparison of morphological taxonomy to molecular approaches is necessary to identify areas of overlap and also areas of disagreement between these methods. We have compared morphological taxonomic assessments to mitochondrial COI and nuclear 28S ribosomal RNA NGS results for plankton net samples collected in Monterey bay, California. We have made a similar comparison for plankton pump samples, and have also applied our NGS methods to targeted, small volume water samples collected by an AUV. Our goal is to communicate current results and lessons learned regarding application of traditional taxonomy and novel molecular approaches to the study of plankton diversity in spatially and temporally variable, coastal marine environments.

Supercritical Fluid Extraction and Analysis of Tropospheric Aerosol Particles

NASA Astrophysics Data System (ADS)

Hansen, Kristen J.

An integrated sampling and supercritical fluid extraction (SFE) cell has been designed for whole-sample analysis of organic compounds on tropospheric aerosol particles. The low-volume extraction cell has been interfaced with a sampling manifold for aerosol particle collection in the field. After sample collection, the entire SFE cell was coupled to a gas chromatograph; after on-line extraction, the cryogenically -focused sample was separated and the volatile compounds detected with either a mass spectrometer or a flame ionization detector. A 20-minute extraction at 450 atm and 90 ^circC with pure supercritical CO _2 is sufficient for quantitative extraction of most volatile compounds in aerosol particle samples. A comparison between SFE and thermal desorption, the traditional whole-sample technique for analyses of this type, was performed using ambient aerosol particle samples, as well as samples containing known amounts of standard analytes. The results of these studies indicate that SFE of atmospheric aerosol particles provides quantitative measurement of several classes of organic compounds. SFE provides information that is complementary to that gained by the thermal desorption analysis. The results also indicate that SFE with CO _2 can be validated as an alternative to thermal desorption for quantitative recovery of several organic compounds. In 1989, the organic constituents of atmospheric aerosol particles collected at Niwot Ridge, Colorado, along with various physical and meteorological data, were measured during a collaborative field study. Temporal changes in the composition of samples collected during summertime at the rural site were studied. Thermal desorption-GC/FID was used to quantify selected compounds in samples collected during the field study. The statistical analysis of the 1989 Niwot Ridge data set is presented in this work. Principal component analysis was performed on thirty-one variables selected from the data set in order to ascertain different source and process components, and to examine concentration changes in groups of variables with respect to time of day and meteorological conditions. Seven orthogonal groups of variables resulted from the statistical analysis; the groups serve as molecular markers for different biologic and anthropogenic emission sources. In addition, the results of the statistical analysis were used to investigate how several emission source contributions vary with respect to local atmospheric dynamics. Field studies were conducted in the urban environment in and around Boulder, CO. to characterize the dynamics, chemistry, and emission sources which affect the composition and concentration of different size-fractions of aerosol particles in the Boulder air mass. Relationships between different size fractions of particles and some gas-phase pollutants were elucidated. These field studies included an investigation of seasonal variations in the organic content and concentration of aerosol particles, and how these characteristics are related to local meteorology and to the concentration of some gas-phase pollutants. The elemental and organic composition of aerosol particles was investigated according to particle size in preliminary studies of size-differentiated samples of aerosol particles. In order to aid in future studies of urban aerosol particles, samples were collected at a forest fire near Boulder. Molecular markers specific to wood burning processes will be useful indicators of residential wood burning activities in future field studies.

A compilation of K-Ar-ages for southern California

USGS Publications Warehouse

Miller, Fred K.; Morton, Douglas M.; Morton, Janet L.; Miller, David M.

2014-01-01

The purpose of this report is to make available a large body of conventional K-Ar ages for granitic, volcanic, and metamorphic rocks collected in southern California. Although one interpretive map is included, the report consists primarily of a systematic listing, without discussion or interpretation, of published and unpublished ages that may be of value in future regional and other geologic studies. From 1973 to 1979, 468 rock samples from southern California were collected for conventional K-Ar dating under a regional geologic mapping project of Southern California (predecessor of the Southern California Areal Mapping Project). Most samples were collected and dated between 1974 and 1977. For 61 samples (13 percent of those collected), either they were discarded for varying reasons, or the original collection data were lost. For the remaining samples, 518 conventional K-Ar ages are reported here; coexisting mineral pairs were dated from many samples. Of these K-Ar ages, 225 are previously unpublished, and identified as such in table 1. All K-Ar ages are by conventional K-Ar analysis; no 40Ar/39Ar dating was done. Subsequent to the rock samples collected in the 1970s and reported here, 33 samples were collected and 38 conventional K-Ar ages determined under projects directed at (1) characterization of the Mesozoic and Cenozoic igneous rocks in and on both sides of the Transverse Ranges and (2) clarifying the Mesozoic and Cenozoic tectonics of the eastern Mojave Desert. Although previously published (Beckerman et al., 1982), another eight samples and 11 conventional K-Ar ages are included here, because they augment those completed under the previous two projects.

Water-quality, streamflow, and ancillary data for nutrients in streams and rivers across the nation, 1992-2001

USGS Publications Warehouse

Mueller, David K.; Spahr, Norman E.

2005-01-01

Introduction: This report is the companion data report for: Nutrients in Streams and Rivers Across the Nation - 1992-2001 (D.K. Mueller and N.E. Spahr, U.S. Geological Survey written commun., 2005). The data contained in this report were collected as part of the National Water-Quality Assessment (NAWQA) Program. Investigations were conducted in 51 large river basins and aquifer systems, which are referred to as 'study units.' Implementation of study-unit investigations were phased so that high-intensity sampling occurred in about one-third of the study units at a time. Investigations in the first 20 study units began in 1991, and stream sampling began in 1992; however, most samples were collected during water years 1993-95. (Water year is defined as the period from October through September and is identified by the year in which it ends.) A second group of 16 study-unit investigations began in 1994, with most of the sampling completed during water years 1996-98. A third group, consisting of 15 study units, began in 1997 with most of the data collected during water years 1999-2001. At some sites, additional sampling continued after the high-intensity time period. Gilliom and others (1995) provide additional information about study-unit sampling design. Additional information about the NAWQA program is available at http://water.usgs.gov/nawqa/index.html.

Astromaterials Acquisition and Curation Office (KT) Overview

NASA Technical Reports Server (NTRS)

Allen, Carlton

2014-01-01

The Astromaterials Acquisition and Curation Office has the unique responsibility to curate NASA's extraterrestrial samples - from past and forthcoming missions - into the indefinite future. Currently, curation includes documentation, preservation, physical security, preparation, and distribution of samples from the Moon, asteroids, comets, the solar wind, and the planet Mars. Each of these sample sets has a unique history and comes from a unique environment. The curation laboratories and procedures developed over 40 years have proven both necessary and sufficient to serve the evolving needs of a worldwide research community. A new generation of sample return missions to destinations across the solar system is being planned and proposed. The curators are developing the tools and techniques to meet the challenges of these new samples. Extraterrestrial samples pose unique curation requirements. These samples were formed and exist under conditions strikingly different from those on the Earth's surface. Terrestrial contamination would destroy much of the scientific significance of extraterrestrial materials. To preserve the research value of these precious samples, contamination must be minimized, understood, and documented. In addition, the samples must be preserved - as far as possible - from physical and chemical alteration. The elaborate curation facilities at JSC were designed and constructed, and have been operated for many years, to keep sample contamination and alteration to a minimum. Currently, JSC curates seven collections of extraterrestrial samples: (a)) Lunar rocks and soils collected by the Apollo astronauts, (b) Meteorites collected on dedicated expeditions to Antarctica, (c) Cosmic dust collected by high-altitude NASA aircraft,t (d) Solar wind atoms collected by the Genesis spacecraft, (e) Comet particles collected by the Stardust spacecraft, (f) Interstellar dust particles collected by the Stardust spacecraft, and (g) Asteroid soil particles collected by the Japan Aerospace Exploration Agency (JAXA) Hayabusa spacecraft Each of these sample sets has a unique history and comes from a unique environment. We have developed specialized laboratories and practices over many years to preserve and protect the samples, not only for current research but for studies that may be carried out in the indefinite future.

76 FR 50457 - Taking and Importing Marine Mammals; Military Training Activities and Research Conducted Within...

Federal Register 2010, 2011, 2012, 2013, 2014

2011-08-15

... were taken for species identification and individual recognition. Surveys conducted around Saipan and... individual recognition. Photo Data Collection and Biopsy Sampling In conjunction with the vessel surveys from... biopsy samples were collected. Photos will be used to study social behavior and movement patterns of...

U.S.-MEXICO BORDER PROGRAM ARIZONA BORDER STUDY--PESTICIDES IN DERMAL ANALYTICAL RESULTS

EPA Science Inventory

The Pesticides in Dermal Wipes data set contains analytical results for measurements of up to 8 pesticides in 86 dermal wipe samples over 86 households. Each sample was collected from the primary respondent within each household. The Dermal/Pesticide hand wipe was collected 7 d...

COMPARISON OF SAMPLING METHODS FOR SEMI-VOLATILE ORGANIC CARBON (SVOC) ASSOCIATED WITH PM 2.5

EPA Science Inventory

This study evaluates the influence of denuder sampling methods and filter collection media on the measurement of semi-volatile organic carbon (SVOC) associated with PM2.5. Two types of collection media, charcoal (activated carbon) and XAD, were used both in diffusion denuders ...

COMPARISON OF SAMPLING METHODS FOR SEMI-VOLATILE ORGANIC CARBON ASSOCIATED WITH PM 2.5

EPA Science Inventory

This study evaluates the influence of denuder sampling methods and filter collection media on the measurement of semi-volatile organic carbon (SVOC) associated with PM2.5. Two types of collection media, charcoal (activated carbon) and XAD, were used both in diffusion denuders ...

College Students' Perceptions of Collective Efficacy: Results from a Nonurban Sample

ERIC Educational Resources Information Center

Domoff, Sarah E.; Hayman, Jennifer; Tompsett, Carolyn J.

2012-01-01

Although the relationship between neighborhood characteristics and collective efficacy is well established in urban populations with community samples, it is unclear if this relationship holds in rural areas. The current study fills this gap by assessing the perceptions of adolescents from nonurban areas to examine the relationships between…

EFFECT OF IMPACTION, BOUNCE AND REAEROSOLIZATION ON THE COLLECTION EFFICIENCY OF IMPINGERS

EPA Science Inventory

The collection efficiency of liquid impingers was studied experimentally as a function of the sampling flow rate with test particles in the bacterial size range. Three impingers were tested: two All-Glass Impingers(AGI-4 and AGI-30),widely used for bioaerosol sampling, and a newl...

Establishment of a cervical cancer bio-bank for the Chinese population: from project-based sample collection to routine management.

PubMed

Yang, Ru; Li, Xiong; Zhou, Hang; Jia, Yao; Zhou, Jin; Huang, Kecheng; Tang, Fangxu; Hu, Ting; Shen, Jian; Chen, Zhilan; Wang, Shaoshuai; Sun, Haiying; Guo, Lili; Wang, Lin; Wang, Hui; Ma, Ding; Li, Shuang

2015-08-01

There is an increasing need for the establishment of a cervical cancer bio-bank that will facilitate both clinical and basic research. The cervical cancer bio-bank was first established in January 1999 and included two stages. First, a GWAS-based sample collection was conducted with special emphasis on the diagnosis and the retrieval of the corresponding bio-specimens, especially blood samples. Second, clinical data and their corresponding bio-specimens were routinely collected and handled. Notably, these bio-specimens also included samples from Wufeng Tujia Autonomous County, which has the highest incidence of cervical cancer in China. The specimens were collected from patients with cervical cancer and those with cervical intraepithelial neoplasia, while the control samples were collected from normal individuals. With special emphasis on clinical data and blood samples for the GWAS analysis, the collection of other bio-specimens was slow, and the pairing of specimens and clinical data was poor during the first stage. However, in the second stage, the pairing of the clinical data and its corresponding bio-specimens improved. At present, the samples procured and preserved in the bio-bank cover most regions of China and different ethnic groups for both the normal controls and cervical cancer patients of different pathological categories. This bio-bank of cervical cancer specimens from the Chinese population will greatly promote the studies of cervical cancer in China.

Molecular identification of Cryptosporidium spp. in seagulls, pigeons, dogs, and cats in Thailand

PubMed Central

Koompapong, Khuanchai; Mori, Hirotake; Thammasonthijarern, Nipa; Prasertbun, Rapeepun; Pintong, Ai-rada; Popruk, Supaluk; Rojekittikhun, Wichit; Chaisiri, Kittipong; Sukthana, Yaowalark; Mahittikorn, Aongart

2014-01-01

Zoonotic Cryptosporidium spp., particularly C. meleagridis, C. canis, and C. felis, are enteric protozoa responsible for major public health concerns around the world. To determine the spread of this parasite in Thailand, we conducted molecular identification of Cryptosporidium spp. from animal samples around the country, by collecting and investigating the feces of seagulls (Chroicocephalus brunnicephalus and Chroicocephalus ridibundus), domestic pigeons (Columba livia domestica), dogs, and cats. Seagull and pigeon samples were collected at the seaside and on the riverside to evaluate their potential for waterborne transmission. Ten pigeon samples were combined into one set, and a total of seven sets were collected. Seventy seagull samples were combined into one set, and a total of 13 sets were collected. In addition, 111 dog samples were collected from cattle farms, and 95 dog and 80 cat samples were collected from a temple. We identified C. meleagridis in pigeons, Cryptosporidium avian genotype III in seagulls, C. canis in dogs, and C. felis in cats. In the temple, the prevalence was 2.1% (2/95) for dogs and 2.5% (2/80) for cats. No Cryptosporidium was found in dog samples from cattle farms. These are the first findings of C. meleagridis in domestic pigeons, and Cryptosporidium avian genotype III in seagulls. Our study invites further molecular epidemiological investigations of Cryptosporidium in these animals and their environment to evaluate the public health risk in Thailand. PMID:25297887

Drug residues in serum of dogs receiving anticancer chemotherapy.

PubMed

Knobloch, A; Mohring, S A I; Eberle, N; Nolte, I; Hamscher, G; Simon, D

2010-01-01

The presence of drug residues in blood samples can represent an occupational hazard. However, studies on cytotoxic drug residues in serum of dogs are lacking in veterinary oncology. To evaluate possible occupational hazards associated with handling of blood samples from dogs receiving oncolytic drugs 7 days after treatment. Twenty-seven client-owned dogs treated for lymphoma or mast cell tumors with vincristine, vinblastine, cyclophosphamide, or doxorubicin. Prospective, observational study. Serum samples were either taken 7 days after administration of vincristine, cyclophosphamide, doxorubicin (lymphoma), and vinblastine (mast cell tumor), or 1-2 days after the last concurrent oral administration of cyclophosphamide (mast cell tumor). Additionally, serum was collected within 5 minutes of treatment. Measurement of drug residues in serum was performed by liquid chromatography tandem mass spectrometry (LC/MS/MS). In 33 samples collected within 5 minute of treatment, the median serum concentrations were vincristine: 37 microg/L (range: 11-87 microg/L), vinblastine: 13 microg/L (range: 13-35 microg/L), cyclophosphamide: 2,484 microg/L (range: 1,209-2,778 microg/L), doxorubicin: 404 microg/L (range: 234-528 microg/L). In 81 serum samples collected 7 days after treatment vinblastine (7 microg/L) was detected in 1 sample, and cyclophosphamide (7 and 9 microg/L) in 2 samples collected 1-2 days after oral administration of cyclophosphamide. Medications were not detected in any of the other samples. Handling of blood samples from dogs receiving oncolytic chemotherapy 7 days after treatment with vincristine, vinblastine, cyclophosphamide, and doxorubicin should not present a health hazard.

Hydrological, water-quality, and ecological data for streams in Independence, Missouri, June 2005 through September 2013

USGS Publications Warehouse

Niesen, Shelley L.; Christensen, Eric D.

2015-01-01

Water-quality, hydrological, and ecological data collected from June 2005 through September 2013 from the Little Blue River and smaller streams within the City of Independence, Missouri, are presented in this report. These data were collected as a part of an ongoing cooperative study between the U.S. Geological Survey and the City of Independence Water Pollution Control Department to characterize the water quality and ecological condition of Independence streams. The quantities, sources of selected constituents, and processes affecting water quality and aquatic life were evaluated to determine the resulting ecological condition of streams within Independence. Data collected for this study fulfill the municipal separate sewer system permit requirements for the City of Independence and can be used to provide a baseline with which city managers can determine the effectiveness of current (2014) and future best management practices within Independence. Continuous streamflow and water-quality data, collected during base flow and stormflow, included physical and chemical properties, inorganic constituents, common organic micro-constituents, pesticides in streambed sediment and surface water, fecal indicator bacteria and microbial source tracking data, and suspended sediment. Dissolved oxygen, pH, specific conductance, water temperature, and turbidity data were measured continuously at seven sites within Independence. Base-flow and stormflow samples were collected at eight gaged and two ungaged sites. Fecal sources samples were collected for reference for microbial source tracking, and sewage influent samples were collected as additional source samples. Dry-weather screening was done on 11 basins within Independence to identify potential contaminant sources to the streams. Benthic macroinvertebrate community surveys and habitat assessments were done on 10 stream sites and 2 comparison sites outside the city. Sampling and laboratory procedures and quality-assurance and quality-control methods used in data collection for this study are described in this report.

Adrenal activity in maned wolves is higher on farmlands and park boundaries than within protected areas.

PubMed

Spercoski, Katherinne M; Morais, Rosana N; Morato, Ronaldo G; de Paula, Rogério C; Azevedo, Fernanda C; May-Júnior, Joares A; Santos, Jean P; Reghelin, Angela L; Wildt, David E; Songsasen, Nucharin

2012-11-01

In this study we measured excreted fecal corticoid metabolites (FCM) in maned wolves (Chrysocyon brachyurus) living within a protected reserve, on farmlands or in a boundary zone between the two habitats, and determined the impacts of season and reproductive status on adrenal activity. Feces were collected within a national park (n=191 samples), a park boundary zone (n=39) and on nearby farmlands (n=27), processed and analyzed by enzyme immunoassay. FCM amounts from samples collected on farmlands were higher (P<0.05) than in those collected inside the reserve and from the boundary zone. In relation to seasonality, FCM were elevated (P<0.05) in spring (September-November) when wolf pairs were raising young. We then divided the samples collected during breeding season (March-August) into cycling females and male/non-cycling females based on fecal progesterone: fecal testosterone ratio. FCM concentrations of the former collected inside the park were higher than (P<0.05) than the latter group. However, there were no differences in FCM levels between the two groups for samples collected in the boundary zone and on farmlands. Furthermore, FCM concentrations of male/non-cycling females samples collected on farmlands were 2- to 5-fold higher (P<0.05) than in counterparts collected inside the park. The consistently high FCM concentrations in samples collected on farmlands indicate that, in addition to seasonality, gender and reproductive status, anthropogenic pressures also contribute to elevating adrenal steroid for individuals living in altered habitat. Copyright © 2012 Elsevier Inc. All rights reserved.

Dried Blood Spot Collection of Health Biomarkers to Maximize Participation in Population Studies

PubMed Central

Ostler, Michael W.; Porter, James H.; Buxton, Orfeu M.

2014-01-01

Biomarkers are directly-measured biological indicators of disease, health, exposures, or other biological information. In population and social sciences, biomarkers need to be easy to obtain, transport, and analyze. Dried Blood Spots meet this need, and can be collected in the field with high response rates. These elements are particularly important in longitudinal study designs including interventions where attrition is critical to avoid, and high response rates improve the interpretation of results. Dried Blood Spot sample collection is simple, quick, relatively painless, less invasive then venipuncture, and requires minimal field storage requirements (i.e. samples do not need to be immediately frozen and can be stored for a long period of time in a stable freezer environment before assay). The samples can be analyzed for a variety of different analytes, including cholesterol, C-reactive protein, glycosylated hemoglobin, numerous cytokines, and other analytes, as well as provide genetic material. DBS collection is depicted as employed in several recent studies. PMID:24513728

Are We Biologically Safe with Snow Precipitation? A Case Study in Beijing

PubMed Central

Shen, Fangxia; Yao, Maosheng

2013-01-01

In this study, the bacterial and fungal abundances, diversities, conductance levels as well as total organic carbon (TOC) were investigated in the snow samples collected from five different snow occurrences in Beijing between January and March, 2010. The collected snow samples were melted and cultured at three different temperatures (4, 26 and 37°C). The culturable bacterial concentrations were manually counted and the resulting colony forming units (CFUs) at 26°C were further studied using V3 region of 16 S rRNA gene-targeted polymerase chain reaction -denaturing gradient gel electrophoresis (PCR-DGGE). The clone library was constructed after the liquid culturing of snow samples at 26°C. And microscopic method was employed to investigate the fungal diversity in the samples. In addition, outdoor air samples were also collected using mixed cellulose ester (MCE) filters and compared with snow samples with respect to described characteristics. The results revealed that snow samples had bacterial concentrations as much as 16000 CFU/ml for those cultured at 26°C, and the conductance levels ranged from 5.6×10−6 to 2.4×10−5 S. PCR-DGGE, sequencing and microscopic analysis revealed remarkable bacterial and fungal diversity differences between the snow samples and the outdoor air samples. In addition, DGGE banding profiles for the snow samples collected were also shown distinctly different from one another. Absent from the outdoor air, certain human, plant, and insect fungal pathogens were found in the snow samples. By calculation, culturable bacteria accounted for an average of 3.38% (±1.96%) of TOC for the snow samples, and 0.01% for that of outdoor air samples. The results here suggest that snow precipitations are important sources of fungal pathogens and ice nucleators, thus could affect local climate, human health and agriculture security. PMID:23762327

Are we biologically safe with snow precipitation? A case study in beijing.

PubMed

Shen, Fangxia; Yao, Maosheng

2013-01-01

In this study, the bacterial and fungal abundances, diversities, conductance levels as well as total organic carbon (TOC) were investigated in the snow samples collected from five different snow occurrences in Beijing between January and March, 2010. The collected snow samples were melted and cultured at three different temperatures (4, 26 and 37°C). The culturable bacterial concentrations were manually counted and the resulting colony forming units (CFUs) at 26°C were further studied using V3 region of 16 S rRNA gene-targeted polymerase chain reaction -denaturing gradient gel electrophoresis (PCR-DGGE). The clone library was constructed after the liquid culturing of snow samples at 26°C. And microscopic method was employed to investigate the fungal diversity in the samples. In addition, outdoor air samples were also collected using mixed cellulose ester (MCE) filters and compared with snow samples with respect to described characteristics. The results revealed that snow samples had bacterial concentrations as much as 16000 CFU/ml for those cultured at 26°C, and the conductance levels ranged from 5.6×10(-6) to 2.4×10(-5) S. PCR-DGGE, sequencing and microscopic analysis revealed remarkable bacterial and fungal diversity differences between the snow samples and the outdoor air samples. In addition, DGGE banding profiles for the snow samples collected were also shown distinctly different from one another. Absent from the outdoor air, certain human, plant, and insect fungal pathogens were found in the snow samples. By calculation, culturable bacteria accounted for an average of 3.38% (±1.96%) of TOC for the snow samples, and 0.01% for that of outdoor air samples. The results here suggest that snow precipitations are important sources of fungal pathogens and ice nucleators, thus could affect local climate, human health and agriculture security.

Implementation of Wi-Fi Signal Sampling on an Android Smartphone for Indoor Positioning Systems.

PubMed

Liu, Hung-Huan; Liu, Chun

2017-12-21

Collecting and maintaining radio fingerprint for wireless indoor positioning systems involves considerable time and labor. We have proposed the quick radio fingerprint collection (QRFC) algorithm which employed the built-in accelerometer of Android smartphones to implement step detection in order to assist in collecting radio fingerprints. In the present study, we divided the algorithm into moving sampling (MS) and stepped MS (SMS), and describe the implementation of both algorithms and their comparison. Technical details and common errors concerning the use of Android smartphones to collect Wi-Fi radio beacons were surveyed and discussed. The results of signal sampling experiments performed in a hallway measuring 54 m in length showed that in terms of the amount of time required to complete collection of access point (AP) signals, static sampling (SS; a traditional procedure for collecting Wi-Fi signals) took at least 2 h, whereas MS and SMS took approximately 150 and 300 s, respectively. Notably, AP signals obtained through MS and SMS were comparable to those obtained through SS in terms of the distribution of received signal strength indicator (RSSI) and positioning accuracy. Therefore, MS and SMS are recommended instead of SS as signal sampling procedures for indoor positioning algorithms.

Implementation of Wi-Fi Signal Sampling on an Android Smartphone for Indoor Positioning Systems

PubMed Central

Liu, Chun

2017-01-01

Collecting and maintaining radio fingerprint for wireless indoor positioning systems involves considerable time and labor. We have proposed the quick radio fingerprint collection (QRFC) algorithm which employed the built-in accelerometer of Android smartphones to implement step detection in order to assist in collecting radio fingerprints. In the present study, we divided the algorithm into moving sampling (MS) and stepped MS (SMS), and describe the implementation of both algorithms and their comparison. Technical details and common errors concerning the use of Android smartphones to collect Wi-Fi radio beacons were surveyed and discussed. The results of signal sampling experiments performed in a hallway measuring 54 m in length showed that in terms of the amount of time required to complete collection of access point (AP) signals, static sampling (SS; a traditional procedure for collecting Wi-Fi signals) took at least 2 h, whereas MS and SMS took approximately 150 and 300 s, respectively. Notably, AP signals obtained through MS and SMS were comparable to those obtained through SS in terms of the distribution of received signal strength indicator (RSSI) and positioning accuracy. Therefore, MS and SMS are recommended instead of SS as signal sampling procedures for indoor positioning algorithms. PMID:29267234

Interim results of quality-control sampling of surface water for the Upper Colorado River National Water-Quality Assessment Study Unit, water years 1995-96

USGS Publications Warehouse

Spahr, N.E.; Boulger, R.W.

1997-01-01

Quality-control samples provide part of the information needed to estimate the bias and variability that result from sample collection, processing, and analysis. Quality-control samples of surface water collected for the Upper Colorado River National Water-Quality Assessment study unit for water years 1995?96 are presented and analyzed in this report. The types of quality-control samples collected include pre-processing split replicates, concurrent replicates, sequential replicates, post-processing split replicates, and field blanks. Analysis of the pre-processing split replicates, concurrent replicates, sequential replicates, and post-processing split replicates is based on differences between analytical results of the environmental samples and analytical results of the quality-control samples. Results of these comparisons indicate that variability introduced by sample collection, processing, and handling is low and will not affect interpretation of the environmental data. The differences for most water-quality constituents is on the order of plus or minus 1 or 2 lowest rounding units. A lowest rounding unit is equivalent to the magnitude of the least significant figure reported for analytical results. The use of lowest rounding units avoids some of the difficulty in comparing differences between pairs of samples when concentrations span orders of magnitude and provides a measure of the practical significance of the effect of variability. Analysis of field-blank quality-control samples indicates that with the exception of chloride and silica, no systematic contamination of samples is apparent. Chloride contamination probably was the result of incomplete rinsing of the dilute cleaning solution from the outlet ports of the decaport sample splitter. Silica contamination seems to have been introduced by the blank water. Sampling and processing procedures for water year 1997 have been modified as a result of these analyses.

Leveraging Digital Health Technologies and Outpatient Sampling in Clinical Drug Development: A Phase 1 Exploratory Study.

PubMed

Dockendorf, Marissa F; Murthy, Gowri; Bateman, Kevin P; Kothare, Prajakti A; Anderson, Melanie; Xie, Iris; Sachs, Jeff R; Burlage, Rubi; Goldman, Andra; Moyer, Matthew; Shah, Jyoti; Ruba, Rachel; Shipley, Lisa; Harrelson, Jane

2018-06-09

Merck & Co., Inc. (Kenilworth, New Jersey) is investing in approaches to enrich clinical trial data and augment decision-making through utilization of digital health technologies, outpatient sampling, and real-time data access. As part of this strategy, a Phase 1 study was conducted to explore a few technologies of interest. In this fixed-sequence, two-period trial, 16 healthy subjects were administered 50-mg once-daily sitagliptin packaged in a bottle that electronically captured the date and time study medication was dispensed (Period 1) and in a traditional pharmacy bottle (Period 2). Dried blood spot (DBS) samples were collected for sitagliptin concentration analysis on select study days, both in-clinic and at-home, with collection time recorded using an electronic diary in Period 1 and by clinic staff in Period 2. Study results demonstrated the feasibility and subject acceptance of collecting digital adherence data and outpatient DBS samples in clinical trials and highlighted areas for future improvements. This article is protected by copyright. All rights reserved. This article is protected by copyright. All rights reserved.

Geochemical survey of the Chattahoochee Roadless Area, Towns, Union, and White counties, Georgia

USGS Publications Warehouse

Koeppen, Robert P.; Nelson, Arthur E.

1989-01-01

Th U.S. Geological Survey made a reconnaissance geochemical survey of the Chattahoochee Roadless Area (fig. 1) to search for unexposed mineral deposits which might be recognized by a geochemical signature in the abundance or distribution patterns of trace elements. As part of a regional geochemical reconnaissance, M/ Hurst (University of Georgia) collected 51 fine-grained stream-sediment samples and 45 planned-concentrate samples  of alluvial gravels in the Chattahoochee study area (see figure 1). A.E. Nelson, in conjunction with detailed geologic mapping (Nelso, 1983), collected 10 rock-chip samples for geochemical analysis in addition to a large number of hand specimens for thin-section study. In order to evaluate isolated anomalies indicated by the earlier sampling, R.P. Koeppen, D.M. Sutphin, and P.D. Schruben collected several additional panned-concentrate, stream-sediment, and rock samples from the area in 1986. Both the geologic study by Nelson (1983) and this geochemical survey provide the basis for our mineral-resource assessment of the Chattahoochee Roadless Area (Nelson and others, 1983). 

Nanopipettes: probes for local sample analysis.

PubMed

Saha-Shah, Anumita; Weber, Anna E; Karty, Jonathan A; Ray, Steven J; Hieftje, Gary M; Baker, Lane A

2015-06-01

Nanopipettes (pipettes with diameters <1 μm) were explored as pressure-driven fluid manipulation tools for sampling nanoliter volumes of fluids. The fundamental behavior of fluids confined in the narrow channels of the nanopipette shank was studied to optimize sampling volume and probe geometry. This method was utilized to collect nanoliter volumes (<10 nL) of sample from single Allium cepa cells and live Drosophila melanogaster first instar larvae. Matrix assisted laser desorption/ionization-mass spectrometry (MALDI-MS) was utilized to characterize the collected sample. The use of nanopipettes for surface sampling of mouse brain tissue sections was also explored. Lipid analyses were performed on mouse brain tissues with spatial resolution of sampling as small as 50 μm. Nanopipettes were shown to be a versatile tool that will find further application in studies of sample heterogeneity and population analysis for a wide range of samples.

Clinical forensic sample collection techniques following consensual intercourse in volunteers - cervical canal brush compared to conventional swabs.

PubMed

Joki-Erkkilä, Minna; Tuomisto, Sari; Seppänen, Mervi; Huhtala, Heini; Ahola, Arja; Rainio, Juha; Karhunen, Pekka J

2014-10-01

The purpose of the research was to evaluate gynecological evidence collection techniques; the benefit of cervical canal brush sample compared to vaginal fornix and cervical swab samples and the time frame for detecting Y-chromosomal material QiAmp DNA Mini Kit(®) and Quantifiler Y Human Male DNA Quantification Kit(®) in adult volunteers following consensual intercourse. Eighty-four adult female volunteers following consensual intercourse were recruited for the study. By combining all sample collecting techniques, 81.0% of the volunteers were Y-DNA positive. Up to 60 h the conventional swab sampling techniques detected more Y-DNA positive samples when compared to the brush technique. However, after 60 h, the cervical canal brush sample technique showed its benefit by detecting 27.3% (6/22) of Y-DNA positive samples, which were Y-DNA negative in both conventional swab sampling techniques. By combining swab and brush techniques, 75% of the volunteers were still Y-DNA positive in 72-144 post-coital hours. The rate of measurable Y-DNA decreased approximately 3% per hour. Despite reported consensual intercourse, 6.8% (3/44) of volunteers were Y-DNA negative within 48 h. Y-DNA was not detected after 144 post-coital hours (6 days). In conclusion, the brush as a forensic evidence collection method may provide additional biological trace evidence from the cervical canal, although the best biological trace evidence collection can be obtained by combining all three sampling techniques. The time frame for gynecological forensic evidence sample collection should be considered to be at least a week if sexual violence is suspected. Copyright © 2014 Elsevier Ltd and Faculty of Forensic and Legal Medicine. All rights reserved.

Optimising the collection of female genital tract fluid for cytokine analysis in pregnant women.

PubMed

Short, C S; Quinlan, R; Bennett, P; Shattock, R J; Taylor, G P

2018-07-01

To better understand the immunology of pregnancy, study of female genital tract fluid (FGF) is desirable. However the optimum method of collection of FGF in pregnant women for immunological methods, specifically cytokine measurement, is unknown. A prospective study of HIV-uninfected pregnant women comparing two methods of FGF collection: polyvinyl acetal sponge collection of cervical fluid (CF) and menstrual cup collection of cervicovaginal fluid (CVF). Samples were collected at 3 time points across the second and third trimesters: 14-21, 22-25 and 26-31 weeks. Multiplex chemi-luminescent assays were used to measure: IFN-γ, IL-1β, IL-2, IL-4, IL-6, IL-8, IL-10, IL-12, IL-13 and TNF-α. Optimal methodology for cytokine normalisation (sample weight, volume and total protein) was explored. All cytokines were measurable in both fluid types. IL-1β, IL-8 and IL-6 were detected at the highest concentrations (ranking order CF > CVF > plasma). CVF collection was simpler, provided the largest volume of sample (median 0.5 g) with the potential for undiluted usage, and allowed for self-insertion. CF cytokine concentrations were intrinsically associated with sample weight and protein concentration however CVF cytokines were independent of these. Both methods of collection are robust for measurement of FGF cytokines during pregnancy. We recommend CVF collection using a menstrual cup as a viable option in pregnant women for high dimensional biological techniques. Copyright © 2018 The Authors. Published by Elsevier B.V. All rights reserved.

Isolation of Acanthamoeba Spp. from Drinking Waters in Several Hospitals of Iran

PubMed Central

Bagheri, HR; Shafiei, R; Shafiei, F; Sajjadi, SA

2010-01-01

Background Acanthamoeba is an opportunistic amphizoic protozoan found in different water sources including swimming pool as well as in sewage. The aim of this study was to investigate the prevalence of Acanthamoeba in tap-water samples in Iran. Method In this descriptive cross-sectional study, 94 samples of cold and warm tap-water were collected from different wards of hospitals in 13 cities of Iran in 2007–2008. Free residual chlorine, pH, and temperature of samples were measured. After filtration through multipore nylon membrane, samples were cultured on non-nutrient agar. Then we investigated existence of Acanthamoeba by reverse contrast phase microscope. Results Acanthamoeba was found in 45 samples (48%). Thirty-four and 11 positive samples were collected from cold and warm tap water, respectively. The samples belonged to the category of 20–30°C temperature with 0–2 ppm free residual chlorine and pH 6–7.4 showed the most coincidence to the positive cases. The greatest proportion of positive samples was obtained from Mashhad hospitals, while all samples collected from Arak and Semnan hospitals were negative. Conclusion considering the results of this study and the pathogenic role of this protozoan on patients with immunodeficiency, as well as capability of this microorganism in carrying other pathogens such as Legionella, further studies are needed. What is more important, potable water in hospitals should follow the procedure of treatment and sanitation, in order to prevent the relevant nosocomial infections. PMID:22347240

NHEXAS PHASE I ARIZONA STUDY--METALS IN BLOOD ANALYTICAL RESULTS

EPA Science Inventory

The Metals in Blood data set contains analytical results for measurements of up to 2 metals in 165 blood samples over 165 households. Each sample was collected as a venous sample from the primary respondent within each household during Stage III of the NHEXAS study. The samples...

Can ex situ plant collections differ in effectiveness, even 1 between closely related species?

USDA-ARS?s Scientific Manuscript database

Conservation of imperiled plant species often requires ex situ (offsite) living collections. Protocols for developing these collections most often emphasize sampling depth, but little is known about the genetics of such collections. This study compares how well a single collecting protocol can captu...

Total airborne mold particle sampling: evaluation of sample collection, preparation and counting procedures, and collection devices.

PubMed

Godish, Diana; Godish, Thad

2008-02-01

This study was conducted to evaluate (i) procedures used to collect, prepare, and count total airborne mold spore/particle concentrations, and (ii) the relative field performance of three commercially available total airborne mold spore/particle sampling devices. Differences between factory and laboratory airflow calibration values of axial fan-driven sampling instruments (used in the study) indicated a need for laboratory calibration using a mass flow meter to ensure that sample results were accurately calculated. An aniline blue-amended Calberla's solution adjusted to a pH of 4.2-4.4 provided good sample mounting/counting results using Dow Corning high vacuum grease, Dow Corning 280A adhesive, and Dow Corning 316 silicone release spray for samples collected using mini-Burkard and Allergenco samplers. Count variability among analysts was most pronounced in 5% counts of relatively low mold particle deposition density samples and trended downward with increased count percentage and particle deposition density. No significant differences were observed among means of 5, 10, and 20% counts and among analysts; a significant interaction effect was observed between analysts' counts and particle deposition densities. Significantly higher mini-Burkard and Air-O-Cell total mold spore/particle counts for 600x vs. 400x (1.9 and 2.3 x higher, respectively), 1000x vs. 600x (1.9 and 2.2 x higher, respectively) and 1000x vs. 400x (3.6 and 4.6 x higher, respectively) comparisons indicated that 1000x magnification counts best quantified total airborne mold spore/particles using light microscopy, and that lower magnification counts may result in unacceptable underreporting of airborne mold spore/particle concentrations. Modest but significantly higher (1.2x) total mold spore concentrations were observed with Allergenco vs. mini-Burkard samples collected in co-located, concurrently operated sampler studies; moderate but significantly higher mini-Burkard count values (1.4x) were observed in similar studies with Air-O-Cell samplers. These count differences were relatively small compared with the large differences observed among three count magnifications.

Salmonella Prevalence and Antimicrobial Susceptibility from the National Animal Health Monitoring System Sheep 2011 Study.

PubMed

Dargatz, David A; Marshall, Katherine L; Fedorka-Cray, Paula J; Erdman, Matthew M; Kopral, Christine A

2015-12-01

Salmonella is a major cause of foodborne illness and can cause clinical disease in animals. Understanding the on-farm ecology of Salmonella will be helpful in decreasing the risk of foodborne transmission. An objective of this study was to determine the prevalence of Salmonella among fecal samples collected on sheep operations in the United States. Another objective was to compare the use of composite fecal samples with fecal samples collected from individual sheep as a tool for screening sheep flocks for Salmonella. Sheep fecal samples (individual and composite) were collected on operations in 22 states. Salmonella isolates were characterized with regard to species, serotype, and antimicrobial susceptibility profile. Most operations (72.1%) had at least one positive sample and overall 26.9% of samples were positive. The percentage of positive samples varied by animal age class. Composite and individual samples gave similar results. The majority of the isolates (94%) were Salmonella enterica subspecies diarizonae serotype 61:-:1,5,7. Nearly all of the isolates (91.2%) tested for antimicrobial susceptibility were susceptible to all antimicrobials in the panel. The findings suggest that salmonellae typically associated with foodborne disease transmission are infrequently found on sheep operations in the United States.

Supplementing electronic health records through sample collection and patient diaries: A study set within a primary care research database.

PubMed

Joseph, Rebecca M; Soames, Jamie; Wright, Mark; Sultana, Kirin; van Staa, Tjeerd P; Dixon, William G

2018-02-01

To describe a novel observational study that supplemented primary care electronic health record (EHR) data with sample collection and patient diaries. The study was set in primary care in England. A list of 3974 potentially eligible patients was compiled using data from the Clinical Practice Research Datalink. Interested general practices opted into the study then confirmed patient suitability and sent out postal invitations. Participants completed a drug-use diary and provided saliva samples to the research team to combine with EHR data. Of 252 practices contacted to participate, 66 (26%) mailed invitations to patients. Of the 3974 potentially eligible patients, 859 (22%) were at participating practices, and 526 (13%) were sent invitations. Of those invited, 117 (22%) consented to participate of whom 86 (74%) completed the study. We have confirmed the feasibility of supplementing EHR with data collected directly from patients. Although the present study successfully collected essential data from patients, it also underlined the requirement for improved engagement with both patients and general practitioners to support similar studies. © 2017 The Authors. Pharmacoepidemiology & Drug Safety published by John Wiley & Sons Ltd.

Use of Naturally Available Reference Targets to Calibrate Airborne Laser Scanning Intensity Data

PubMed Central

Vain, Ants; Kaasalainen, Sanna; Pyysalo, Ulla; Krooks, Anssi; Litkey, Paula

2009-01-01

We have studied the possibility of calibrating airborne laser scanning (ALS) intensity data, using land targets typically available in urban areas. For this purpose, a test area around Espoonlahti Harbor, Espoo, Finland, for which a long time series of ALS campaigns is available, was selected. Different target samples (beach sand, concrete, asphalt, different types of gravel) were collected and measured in the laboratory. Using tarps, which have certain backscattering properties, the natural samples were calibrated and studied, taking into account the atmospheric effect, incidence angle and flying height. Using data from different flights and altitudes, a time series for the natural samples was generated. Studying the stability of the samples, we could obtain information on the most ideal types of natural targets for ALS radiometric calibration. Using the selected natural samples as reference, the ALS points of typical land targets were calibrated again and examined. Results showed the need for more accurate ground reference data, before using natural samples in ALS intensity data calibration. Also, the NIR camera-based field system was used for collecting ground reference data. This system proved to be a good means for collecting in situ reference data, especially for targets with inhomogeneous surface reflection properties. PMID:22574045

The Dutch Pancreas Biobank Within the Parelsnoer Institute: A Nationwide Biobank of Pancreatic and Periampullary Diseases.

PubMed

Strijker, Marin; Gerritsen, Arja; van Hilst, Jony; Bijlsma, Maarten F; Bonsing, Bert A; Brosens, Lodewijk A; Bruno, Marco J; van Dam, Ronald M; Dijk, Frederike; van Eijck, Casper H; Farina Sarasqueta, Arantza; Fockens, Paul; Gerhards, Michael F; Groot Koerkamp, Bas; van der Harst, Erwin; de Hingh, Ignace H; van Hooft, Jeanin E; Huysentruyt, Clément J; Kazemier, Geert; Klaase, Joost M; van Laarhoven, Cornelis J; van Laarhoven, Hanneke W; Liem, Mike S; de Meijer, Vincent E; van Rijssen, L Bengt; van Santvoort, Hjalmar C; Suker, Mustafa; Verhagen, Judith H; Verheij, Joanne; Verspaget, Hein W; Wennink, Roos A; Wilmink, Johanna W; Molenaar, I Quintus; Boermeester, Marja A; Busch, Olivier R; Besselink, Marc G

2018-04-01

Large biobanks with uniform collection of biomaterials and associated clinical data are essential for translational research. The Netherlands has traditionally been well organized in multicenter clinical research on pancreatic diseases, including the nationwide multidisciplinary Dutch Pancreatic Cancer Group and Dutch Pancreatitis Study Group. To enable high-quality translational research on pancreatic and periampullary diseases, these groups established the Dutch Pancreas Biobank. The Dutch Pancreas Biobank is part of the Parelsnoer Institute and involves all 8 Dutch university medical centers and 5 nonacademic hospitals. Adult patients undergoing pancreatic surgery (all indications) are eligible for inclusion. Preoperative blood samples, tumor tissue from resected specimens, pancreatic cyst fluid, and follow-up blood samples are collected. Clinical parameters are collected in conjunction with the mandatory Dutch Pancreatic Cancer Audit. Between January 2015 and May 2017, 488 patients were included in the first 5 participating centers: 4 university medical centers and 1 nonacademic hospital. Over 2500 samples were collected: 1308 preoperative blood samples, 864 tissue samples, and 366 follow-up blood samples. Prospective collection of biomaterials and associated clinical data has started in the Dutch Pancreas Biobank. Subsequent translational research will aim to improve treatment decisions based on disease characteristics.

Characterization of nutrients and fecal indicator bacteria at a concentrated swine feeding operation in Wake County, North Carolina, 2009-2011

USGS Publications Warehouse

Harden, Stephen L.; Rogers, Shane W.; Jahne, Michael A.; Shaffer, Carrie E.; Smith, Douglas G.

2012-01-01

Study sites were sampled for laboratory analysis of nutrients, total suspended solids (TSS), and (or) fecal indicator bacteria (FIB). Nutrient analyses included measurement of dissolved ammonia, total and dissolved ammonia + organic nitrogen, dissolved nitrate + nitrite, dissolved orthophosphate, and total phosphorus. The FIB analyses included measurement of Escherichia coli and enterococci. Samples of wastewater at the swine facility were collected from a pipe outfall from the swine housing units, two storage lagoons, and the spray fields for analysis of nutrients, TSS, and FIB. Soil samples collected from a spray field were analyzed for FIB. Monitoring locations were established for collecting discharge and water-quality data during storm events at three in-field runoff sites and two sites on the headwater stream (one upstream and one downstream) next to the swine facility. Stormflow samples at the five monitoring locations were collected for four storm events during 2009 to 2010 and analyzed for nutrients, TSS, and FIB. Monthly water samples also were collected during base-flow conditions at all four stream sites for laboratory analysis of nutrients, TSS, and (or) FIB.

Benthic macroinvertebrate field sampling effort required to ...

EPA Pesticide Factsheets

This multi-year pilot study evaluated a proposed field method for its effectiveness in the collection of a benthic macroinvertebrate sample adequate for use in the condition assessment of streams and rivers in the Neuquén Province, Argentina. A total of 13 sites, distributed across three rivers, were sampled. At each site, benthic macroinvertebrates were collected at 11 transects. Each sample was processed independently in the field and laboratory. Based on a literature review and resource considerations, the collection of 300 organisms (minimum) at each site was determined to be necessary to support a robust condition assessment, and therefore, selected as the criterion for judging the adequacy of the method. This targeted number of organisms was collected at all sites, at a minimum, when collections from all 11 transects were combined. Subsequent bootstrapping analysis of data was used to estimate whether collecting at fewer transects would reach the minimum target number of organisms for all sites. In a subset of sites, the total number of organisms frequently fell below the target when fewer than 11 transects collections were combined.Site conditions where <300 organisms might be collected are discussed. These preliminary results suggest that the proposed field method results in a sample that is adequate for robust condition assessment of the rivers and streams of interest. When data become available from a broader range of sites, the adequacy of the field

An assessment of polyurethane foam passive samplers for atmospheric metals compared with active samplers.

PubMed

Li, Qilu; Yang, Kong; Li, Jun; Zeng, Xiangying; Yu, Zhiqiang; Zhang, Gan

2018-05-01

In this study, we conducted an assessment of polyurethane foam (PUF) passive sampling for metals combining active sampling. Remarkably, we found that the metals collected in the passive samples differed greatly from those collected in active samples. By composition, Cu and Ni accounted for significantly higher proportions in passive samples than in active samples, leading to significantly higher uptake rates of Cu and Ni. In assessing seasonal variation, metals in passive samples had higher concentrations in summer (excluding Heshan), which differed greatly from the pattern of active samples (winter > summer), indicating that the uptake rates of most metals were higher in summer than in winter. Overall, due to the stable passive uptake rates, we considered that PUF passive samplers can be applied to collect atmospheric metals. Additionally, we created a snapshot of the metal pollution in the Pearl River Delta using principal component analysis of PUF samples and their source apportionment. Copyright © 2018 Elsevier Ltd. All rights reserved.

Sampling effort and estimates of species richness based on prepositioned area electrofisher samples

USGS Publications Warehouse

Bowen, Z.H.; Freeman, Mary C.

1998-01-01

Estimates of species richness based on electrofishing data are commonly used to describe the structure of fish communities. One electrofishing method for sampling riverine fishes that has become popular in the last decade is the prepositioned area electrofisher (PAE). We investigated the relationship between sampling effort and fish species richness at seven sites in the Tallapoosa River system, USA based on 1,400 PAE samples collected during 1994 and 1995. First, we estimated species richness at each site using the first-order jackknife and compared observed values for species richness and jackknife estimates of species richness to estimates based on historical collection data. Second, we used a permutation procedure and nonlinear regression to examine rates of species accumulation. Third, we used regression to predict the number of PAE samples required to collect the jackknife estimate of species richness at each site during 1994 and 1995. We found that jackknife estimates of species richness generally were less than or equal to estimates based on historical collection data. The relationship between PAE electrofishing effort and species richness in the Tallapoosa River was described by a positive asymptotic curve as found in other studies using different electrofishing gears in wadable streams. Results from nonlinear regression analyses indicted that rates of species accumulation were variable among sites and between years. Across sites and years, predictions of sampling effort required to collect jackknife estimates of species richness suggested that doubling sampling effort (to 200 PAEs) would typically increase observed species richness by not more than six species. However, sampling effort beyond about 60 PAE samples typically increased observed species richness by < 10%. We recommend using historical collection data in conjunction with a preliminary sample size of at least 70 PAE samples to evaluate estimates of species richness in medium-sized rivers. Seventy PAE samples should provide enough information to describe the relationship between sampling effort and species richness and thus facilitate evaluation of a sampling effort.

Comparative study of the vapor analytes of trinitrotoluene (TNT)

NASA Astrophysics Data System (ADS)

Edge, Cindy C.; Gibb, Julie; Dugan, Regina E.

1998-12-01

Trinitrotoluene (TNT) is a high explosive used in most antipersonnel and antitank landmines. The Institute for Biological Detection Systems (IBDS) has developed a quantitative vapor delivery system, termed olfactometer, for conducting canine olfactory research. The research is conducted utilizing dynamic conditions, therefore, it is imperative to evaluate the headspace of TNT to ensure consistency with the dynamic generation of vapor. This study quantified the vapor headspace of military- grade TNT utilizing two different vapor generated methodologies, static and dynamic, reflecting differences between field and laboratory environments. Static vapor collection, which closely mimics conditions found during field detection, is defined as vapor collected in an open-air environment at ambient temperature. Dynamic vapor collection incorporates trapping of gases from a high flow vapor generation cell used during olfactometer operation. Analysis of samples collected by the two methodologies was performed by gas chromatography/mass spectrometry and the results provided information with regard to the constituents detected. However, constituent concentration did vary between the sampling methods. This study provides essential information regarding the vapor constituents associated with the TNT sampled using different sampling methods. These differences may be important in determining the detection signature dogs use to recognize TNT.

Analysis of the research sample collections of Uppsala biobank.

PubMed

Engelmark, Malin T; Beskow, Anna H

2014-10-01

Uppsala Biobank is the joint and only biobank organization of the two principals, Uppsala University and Uppsala University Hospital. Biobanks are required to have updated registries on sample collection composition and management in order to fulfill legal regulations. We report here the results from the first comprehensive and overall analysis of the 131 research sample collections organized in the biobank. The results show that the median of the number of samples in the collections was 700 and that the number of samples varied from less than 500 to over one million. Blood samples, such as whole blood, serum, and plasma, were included in the vast majority, 84.0%, of the research sample collections. Also, as much as 95.5% of the newly collected samples within healthcare included blood samples, which further supports the concept that blood samples have fundamental importance for medical research. Tissue samples were also commonly used and occurred in 39.7% of the research sample collections, often combined with other types of samples. In total, 96.9% of the 131 sample collections included samples collected for healthcare, showing the importance of healthcare as a research infrastructure. Of the collections that had accessed existing samples from healthcare, as much as 96.3% included tissue samples from the Department of Pathology, which shows the importance of pathology samples as a resource for medical research. Analysis of different research areas shows that the most common of known public health diseases are covered. Collections that had generated the most publications, up to over 300, contained a large number of samples collected systematically and repeatedly over many years. More knowledge about existing biobank materials, together with public registries on sample collections, will support research collaborations, improve transparency, and bring us closer to the goals of biobanks, which is to save and prolong human lives and improve health and quality of life.

Geosamples.org: Shared Cyberinfrastructure for Geoscience Samples

NASA Astrophysics Data System (ADS)

Lehnert, Kerstin; Allison, Lee; Arctur, David; Klump, Jens; Lenhardt, Christopher

2014-05-01

Many scientific domains, specifically in the geosciences, rely on physical samples as basic elements for study and experimentation. Samples are collected to analyze properties of natural materials and features that are key to our knowledge of Earth's dynamical systems and evolution, and to preserve a record of our environment over time. Huge volumes of samples have been acquired over decades or even centuries and stored in a large number and variety of institutions including museums, universities and colleges, state geological surveys, federal agencies, and industry. All of these collections represent highly valuable, often irreplaceable records of nature that need to be accessible so that they can be re-used in future research and for educational purposes. Many sample repositories are keen to use cyberinfrastructure capabilities to enhance access to their collections on the internet and to support and streamline collection management (accessioning of new samples, labeling, handling sample requests, etc.), but encounter substantial challenges and barriers to integrate digital sample management into their daily routine. They lack the resources (staff, funding) and infrastructure (hardware, software, IT support) to develop and operate web-enabled databases, to migrate analog sample records into digital data management systems, and to transfer paper- or spreadsheet-based workflows to electronic systems. Use of commercial software is often not an option as it incurs high costs for licenses, requires IT expertise for installation and maintenance, and often does not match the needs of the smaller repositories, being designed for large museums or different types of collections (art, archeological, biological). Geosamples.org is an alliance of sample repositories (academic, US federal and state surveys, industry) and data facilities that aims to develop a cyberinfrastructure that will dramatically advance access to physical samples for the research community, government agencies, students, educators, and the general public, while supporting, simplifying, and standardizing the work of curators in repositories, museums, and universities, and even for individual investigators who manage personal or project-based sample collections in their lab. Geosamples.org builds upon best practices and cyberinfrastructure for sample identification, registration, and documentation developed by the IGSN e.V., an international organization that governs the International Geosample Number, a persistent unique identifier for physical samples. Geosamples.org will develop a Digital Environment for Sample Curation (DESC) that will facilitate the creation, identification, and registration of 'virtual samples' and network them into an 'Internet of Samples' that will allow to discover, access, and track online physical samples, the data derived by their study, and the publications that contain these data. DESC will provide easy-to-use software tools for curators to maintain digital catalogs of their collections, to provide online access to the catalog to search for and request samples, manage sample requests and users, track collection usage and impact. Geosamples.org will also work toward joint practices for the recognition of intellectual property, build mechanisms to create sustainable business models for continuing maintenance and evolution of managing sample resources, and integrate the sample management life-cycle into professional and cultural practice of science.

Evaluation of Buccal Cell Samples for Studies of Oral Microbiota.

PubMed

Yu, Guoqin; Phillips, Steve; Gail, Mitchell H; Goedert, James J; Humphrys, Michael; Ravel, Jacques; Ren, Yanfang; Caporaso, Neil E

2017-02-01

The human microbiota is postulated to affect cancer risk, but collecting microbiota specimens with prospective follow-up for diseases will take time. Buccal cell samples have been obtained from mouthwash for the study of human genomic DNA in many cohort studies. Here, we evaluate the feasibility of using buccal cell samples to examine associations of human microbiota and disease risk. We obtained buccal cells from mouthwash in 41 healthy participants using a protocol that is widely employed to obtain buccal cells for the study of human DNA. We compared oral microbiota from buccal cells with that from eight other oral sample types collected by following the protocols of the Human Microbiome Project. Microbiota profiles were determined by sequencing 16S rRNA gene V3-V4 region. Compared with each of the eight other oral samples, the buccal cell samples had significantly more observed species (P < 0.002) and higher alpha diversity (Shannon index, P < 0.02). The microbial communities were more similar (smaller beta diversity) among buccal cells samples than in the other samples (P < 0.001 for 12 of 16 weighted and unweighted UniFrac distance comparisons). Buccal cell microbial profiles closely resembled saliva but were distinct from dental plaque and tongue dorsum. Stored buccal cell samples in prospective cohort studies are a promising resource to study associations of oral microbiota with disease. The feasibility of using existing buccal cell collections in large prospective cohorts allows investigations of the role of oral microbiota in chronic disease etiology in large population studies possible today. Cancer Epidemiol Biomarkers Prev; 26(2); 249-53. ©2016 AACR. ©2016 American Association for Cancer Research.

Urban Background Study Webinar

EPA Pesticide Factsheets

This webinar presented the methodology developed for collecting a city-wide or urban area background data set, general results of southeastern cities data collected to date, and a case study that used this sampling method.

Monitoring the Presence of 13 Active Compounds in Surface Water Collected from Rural Areas in Northwestern Spain

PubMed Central

Iglesias, Alejandra; Nebot, Carolina; Vázquez, Beatriz I.; Coronel-Olivares, Claudia; Franco Abuín, Carlos M.; Cepeda, Alberto

2014-01-01

Drug residues are considered environmental contaminants, and their occurrence has recently become a matter of concern. Analytical methods and monitoring systems are therefore required to control the continuous input of these drug residues into the environment. This article presents a suitable HPLC-ESI-MS/MS method for the simultaneous extraction, detection and quantification of residues of 13 drugs (antimicrobials, glucocorticosteroids, anti-inflammatories, anti-hypertensives, anti-cancer drugs and triphenylmethane dyes) in surface water. A monitoring study with 549 water samples was carried out in northwestern Spain to detect the presence of drug residues over two sampling periods during 2010, 2011 and 2012. Samples were collected from rural areas with and without farming activity and from urban areas. The 13 analytes were detected, and 18% of the samples collected showed positive results for the presence of at least one analyte. More collection sites were located in rural areas than in urban areas. However, more positive samples with higher concentrations and a larger number of analytes were detected in samples collected from sites located after the discharge of a WWTP. Results indicated that the WWTPs seems to act as a concentration point. Positive samples were also detected at a site located near a drinking water treatment plant. PMID:24837665

Monitoring the presence of 13 active compounds in surface water collected from rural areas in northwestern Spain.

PubMed

Iglesias, Alejandra; Nebot, Carolina; Vázquez, Beatriz I; Coronel-Olivares, Claudia; Abuín, Carlos M Franco; Cepeda, Alberto

2014-05-15

Drug residues are considered environmental contaminants, and their occurrence has recently become a matter of concern. Analytical methods and monitoring systems are therefore required to control the continuous input of these drug residues into the environment. This article presents a suitable HPLC-ESI-MS/MS method for the simultaneous extraction, detection and quantification of residues of 13 drugs (antimicrobials, glucocorticosteroids, anti-inflammatories, anti-hypertensives, anti-cancer drugs and triphenylmethane dyes) in surface water. A monitoring study with 549 water samples was carried out in northwestern Spain to detect the presence of drug residues over two sampling periods during 2010, 2011 and 2012. Samples were collected from rural areas with and without farming activity and from urban areas. The 13 analytes were detected, and 18% of the samples collected showed positive results for the presence of at least one analyte. More collection sites were located in rural areas than in urban areas. However, more positive samples with higher concentrations and a larger number of analytes were detected in samples collected from sites located after the discharge of a WWTP. Results indicated that the WWTPs seems to act as a concentration point. Positive samples were also detected at a site located near a drinking water treatment plant.

A mineral reconnaissance sampling manual for Costa Rica: Central American energy and resoure project. Manual para muestreo en el reconocimiento mineral de Costa Rica: Proyecto Centroamericano de energia y recursos naturales (in English and Spanish)

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

Bolivar, S.

This manual describes field procedures for the collection of stream-sediment and rock samples as part of the Mineral Resource Assessment of Costa Rica. It provides guidelines to be followed by personnel collecting, treating, or otherwise handling samples taken as part of this program. The objectives of the manual are to ensure that all samples are collected uniformly and consistent techniques are employed throughout the program. If this is done, the data from this study can be used to identify areas with potential for mineralization. This manual can also be used as a guideline for future geochemical sampling programs in Costamore » Rica.« less

Chemistry of water collected from an unventilated drift, Yucca Mountain, Nevada

USGS Publications Warehouse

Marshall, B.D.; Oliver, T.A.; Peterman, Z.E.

2007-01-01

Water samples (referred to as puddle water samples) were collected from the surfaces of a conveyor belt and plastic sheeting in the unventilated portion of the Enhanced Characterization of the Repository Block (ECRB) Cross Drift in 2003 and 2005 at Yucca Mountain, Nevada. The chemistry of these puddle water samples is very different than that of pore water samples from borehole cores in the same region of the Cross Drift or than seepage water samples collected from the Exploratory Studies Facility tunnel in 2005. The origin of the puddle water is condensation on surfaces of introduced materials and its chemistry is dominated by components of the introduced materials. Large CO2 concentrations may be indicative of localized chemical conditions induced by biologic activity. ?? 2007 Materials Research Society.

The Gulf Long-Term Follow-Up Study (GuLF STUDY): Biospecimen collection at enrollment.

PubMed

Engel, Lawrence S; Kwok, Richard K; Miller, Aubrey K; Blair, Aaron; Curry, Matthew D; McGrath, John A; Sandler, Dale P

2017-01-01

The 2010 Deepwater Horizon (DWH) explosion in the Gulf of Mexico led to the largest ever marine oil spill by volume. The GuLF STUDY is investigating possible adverse human health effects associated with oil spill activities. One objective of the study was to utilize biological specimens from study participants to examine spill-related adverse health effects. This study describes the methods for collecting, processing, shipping, and storing specimens during the enrollment phase of the study. GuLF STUDY participants living in Gulf States (Alabama, Florida, Louisiana, Mississippi, and eastern Texas) were eligible to complete a home visit at enrollment, one to three years after the DWH explosion. During this visit, blood, urine, toenail and hair clippings, and house dust samples were collected. Specimens were shipped overnight to a central processing laboratory in containers with cold and ambient temperature compartments. Most blood and urine specimens were then aliquoted and stored in liquid nitrogen vapor or at -80°C, with some samples stored at -20°C. A total of 11,193 participants completed a home visit, and over 99% provided at least one biospecimen. Most participants provided blood (93%), urine (99%), and toenail clippings (89%), and 40% provided hair. Nearly all participants (95%) provided house-dust samples. Most samples were received by the laboratory one (58%) or two (25%) days after collection. These biospecimens enable investigation of a range of biomarkers of spill-related adverse health effects, and possibly some biomarkers of spill-related exposures. The biospecimen collection, handling, and storage protocols were designed to maximize current and future scientific value within logistical and budgetary constraints and might serve as a template for future studies conducted in similar time-critical and geographically dispersed settings.

Evaluation of a new APTIMA specimen collection and transportation kit for high-risk human papillomavirus E6/E7 messenger RNA in cervical and vaginal samples.

PubMed

Chernesky, Max; Jang, Dan; Gilchrist, Jodi; Elit, Laurie; Lytwyn, Alice; Smieja, Marek; Dockter, Janel; Getman, Damon; Reid, Jennifer; Hill, Craig

2014-06-01

An APTIMA specimen collection and transportation (SCT) kit was developed by Hologic/Gen-Probe. To compare cervical SCT samples to PreservCyt and SurePath samples and self-collected vaginal samples to physician-collected vaginal and cervical SCT samples. To determine ease and comfort of self-collection with the kit. Each woman (n = 580) self-collected a vaginal SCT, then filled out a questionnaire (n = 563) to determine ease and comfort of self-collection. Colposcopy physicians collected a vaginal SCT and cervical PreservCyt, SCT, and SurePath samples. Samples were tested by APTIMA HPV (AHPV) assay. Agreement between testing of cervical SCT and PreservCyt was 91.1% (κ = 0.82), and that of SurePath samples was 86.7% (κ = 0.72). Agreement of self-collected vaginal SCT to physician-collected SCT was 84.7% (κ = 0.68), and that of self-collected vaginal to cervical SCT was 82.0% (κ = 0.63). For 30 patients with CIN2+, AHPV testing of cervical SCT was 100% sensitive and 59.8% specific compared with PreservCyt (96.6% and 66.2%) and SurePath (93.3% and 70.9%). Vaginal SCT sensitivity was 86.7% for self-collection and 80.0% for physician collection. Most patients found that vaginal self-collection was easy, 5.3% reported some difficulty, and 87.6% expressed no discomfort. Cervical samples collected with the new SCT kit compared well to traditional liquid-based samples tested by AHPV. Although there was good agreement between self-collected and physician-collected samples with the SCT, in a limited number of 30 women, vaginal sampling identified fewer with CIN2+ precancerous cervical lesions than cervical SCT sampling. Comfort, ease of use, and detection of high-risk HPV demonstrated that the kit could be used for cervical and vaginal sampling.

PAH and PCB in the Baltic -- A budget approach including fluxes, occurrence and concentration variability in air, suspended and settling particulates in water, surface sediments and river water

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

Broman, D.; Axelman, J.; Bandh, C.

In order to study the fate and occurrence of two groups of hydrophobic compounds in the Baltic aquatic environment a large number of samples were collected from the southern Baltic proper to the northern Bothnian Bay for the analyses of polychlorinated biphenyls (PCBs) and polycyclic aromatic hydrocarbons (PAHs). The following sample matrices were collected; bottom surface sediments (0--1 cm, collected with gravity corer), settling particulate matter (collected with sediment traps), open water samples and over water samples (suspended particulates and dissolved fraction sampled by filtration) and air samples (aerosols and vapor phase sampled by filtration). All samples (except over watermore » and air) were collected at open sea in the Baltic. The analyses results have been used to make a model approach on the whole Baltic and to elucidate different aspects of the behavior of PAHs and PCBs in the Baltic, such as the occurrence of the compounds in water and sediment, the total content as well as the concentration variabilities over such a large geographical area, Further, the data on settling particulate matter as well as the air concentration data were used to estimate the total fluxes of PAHs and PCBs to the bottoms of the Baltic and t o the total water area of the Baltic, respectively. Further, data on the PAH and PCB content in river water from four major rivers provides rough estimates of the riverine input to the Baltic. The dynamics of PAHs and PCBs within the water mass have also been studied in terms of settling velocities and residence times in the water mass for these type of compounds in the open Baltic.« less

Liver enzymes in patients with chronic kidney disease undergoing peritoneal dialysis and hemodialysis.

PubMed

Liberato, Isabella Ramos de Oliveira; Lopes, Edmundo Pessoa de Almeida; Cavalcante, Maria Alina Gomes de Mattos; Pinto, Tiago Costa; Moura, Izolda Fernades; Loureiro Júnior, Luiz

2012-01-01

The present study was designed to analyze the serum levels of aspartate and alanine aminotransferases, gamma-glutamyl transferase, and the hematocrit in patients with chronic kidney disease who were undergoing peritoneal dialysis or hemodialysis. Twenty patients on peritoneal dialysis and 40 on hemodialysis were assessed, and the patients were matched according to the length of time that they had been on dialysis. Blood samples were collected (both before and after the session for those on hemodialysis) to measure the enzymes and the hematocrit. In the samples from the patients who were undergoing peritoneal dialysis, the aspartate and alanine aminotransferase levels were slightly higher compared with the samples collected from the patients before the hemodialysis session and slightly lower compared with the samples collected after the hemodialysis session. The levels of gamma-glutamyl transferase in the hemodialysis patients were slightly higher than the levels in the patients who were undergoing peritoneal dialysis. In addition, the levels of aminotransferases and gamma-glutamyl transferase that were collected before the hemodialysis session were significantly lower than the values collected after the session. The hematocrit levels were significantly lower in the patients who were on peritoneal dialysis compared with the patients on hemodialysis (both before and after the hemodialysis session), and the levels were also significantly lower before hemodialysis compared with after hemodialysis. The aminotransferase levels in the patients who were undergoing peritoneal dialysis were slightly higher compared with the samples collected before the hemodialysis session, whereas the aminotransferase levels were slightly lower compared with the samples collected after the session. The hematocrits and the aminotransferase and gamma-glutamyl transferase levels of the samples collected after the hemodialysis session were significantly higher than the samples collected before the session. Taken together, the present data suggest that hemodilution could alter the serum levels of liver enzymes.

Investigation of differences between field and laboratory pH measurements of national atmospheric deposition program/national trends network precipitation samples

USGS Publications Warehouse

Latysh, N.; Gordon, J.

2004-01-01

A study was undertaken to investigate differences between laboratory and field pH measurements for precipitation samples collected from 135 weekly precipitation-monitoring sites in the National Trends Network from 12/30/1986 to 12/28/1999. Differences in pH between field and laboratory measurements occurred for 96% of samples collected during this time period. Differences between the two measurements were evaluated for precipitation samples collected before and after January 1994, when modifications to sample-handling protocol and elimination of the contaminating bucket o-ring used in sample shipment occurred. Median hydrogen-ion and pH differences between field and laboratory measurements declined from 3.9 ??eq L-1 or 0.10 pH units before the 1994 protocol change to 1.4 ??eq L-1 or 0.04 pH units after the 1994 protocol change. Hydrogen-ion differences between field and laboratory measurements had a high correlation with the sample pH determined in the field. The largest pH differences between the two measurements occurred for high-pH samples (>5.6), typical of precipitation collected in Western United States; however low- pH samples (<5.0) displayed the highest variability in hydrogen-ion differences between field and laboratory analyses. Properly screened field pH measurements are a useful alternative to laboratory pH values for trend analysis, particularly before 1994 when laboratory pH values were influenced by sample-collection equipment.

Observations of radiation fog chemistry in the Eastern United States

NASA Astrophysics Data System (ADS)

Straub, D.; Hutchings, J.; Herckes, P.

2010-07-01

The chemical composition of radiation fog in the Mid-Atlantic region of the United States has been the focus of an ongoing field campaign based in Selinsgrove, PA. This field study was established to provide a long term record that can be used to identify the effects of meteorology and air mass source regions on fog composition and to shed light on the role that fog can play in the production of secondary inorganic and organic aerosol mass. In the United States, studies that focus on radiation fog have been relatively rare. For the most part, they have been limited geographically to the Central Valley of California, though individual studies have also been conducted in the Central United States and along the Texas-Louisiana Gulf Coast. Sample collection for the current study began during the fall of 2007. Through 2009, samples from 25 radiation fog events have been obtained. A Caltech Heated Rod Cloudwater Collector (CHRCC) having a Dp50 of approximately 8 microns was used to collect one fog sample per event. Samples were typically collected between 2:00 AM and 7:00 AM under conditions of light winds, clear skies, and recent rainfall. Sample volumes ranged from 2.9 ml to 150 ml. Following collection, samples were analyzed for pH and then one of the following: major inorganic ions, dissolved total organic carbon, N-nitrosodimethylamine (NDMA), metals, or organic speciation. Through 2009, sample pH varied between 4.28 and 6.86 and averaged 5.03 based on H+ concentration. Ammonium and sulfate were found to be the most abundant ionic species in the fog samples. Sufficient ammonium was detected in nearly every sample to fully neutralize nitrate and sulfate. The concentrations of sulfate, nitrate, and ammonium observed in this study were lower than values reported in the literature for most other cloud and fog studies conducted in the US. Due to significant ammonium input, pH in the current study was higher than most other studies. Concentrations of total organic carbon averaged 7.22 mgC/L, which is lower than other radiation fogs studies but similar to that for many cloud studies. NDMA concentrations in two analyzed samples were considered high, but not outside the range that could be expected through equilibrium with potential gas phase concentrations.

Comparison of vaginal microbiota sampling techniques: cytobrush versus swab.

PubMed

Mitra, Anita; MacIntyre, David A; Mahajan, Vishakha; Lee, Yun S; Smith, Ann; Marchesi, Julian R; Lyons, Deirdre; Bennett, Phillip R; Kyrgiou, Maria

2017-08-29

Evidence suggests the vaginal microbiota (VM) may influence risk of persistent Human Papillomavirus (HPV) infection and cervical carcinogenesis. Established cytology biobanks, typically collected with a cytobrush, constitute a unique resource to study such associations longitudinally. It is plausible that compared to rayon swabs; the most commonly used sampling devices, cytobrushes may disrupt biofilms leading to variation in VM composition. Cervico-vaginal samples were collected with cytobrush and rayon swabs from 30 women with high-grade cervical precancer. Quantitative PCR was used to compare bacterial load and Illumina MiSeq sequencing of the V1-V3 regions of the 16S rRNA gene used to compare VM composition. Cytobrushes collected a higher total bacterial load. Relative abundance of bacterial species was highly comparable between sampling devices (R 2  = 0.993). However, in women with a Lactobacillus-depleted, high-diversity VM, significantly less correlation in relative species abundance was observed between devices when compared to those with a Lactobacillus species-dominant VM (p = 0.0049). Cytobrush and swab sampling provide a comparable VM composition. In a small proportion of cases the cytobrush was able to detect underlying high-diversity community structure, not realized with swab sampling. This study highlights the need to consider sampling devices as potential confounders when comparing multiple studies and datasets.

[Determination of 235U/238U isotope ratios in camphor tree bark samples by MC-ICP-MS after separation of uranium from matrix elements].

PubMed

Wang, Xiao-Ping; Zhang, Ji-Long

2007-07-01

Twelve camphor (cinnamomum camphora) tree bark samples were collected from Hiroshima and Kyoto, and the matrix element composition and morphology of the outer surface of these camphor tree bark samples were studied by EDXS and SEM respectively. After a dry decomposition, DOWEX 1-X8 anion exchange resin was used to separate uranium from matrix elements in these camphor tree bark samples. Finally, 235U/238 U isotope ratios in purified uranium solutions were determined by MC-ICP-MS. It was demonstrated that the outer surface of these camphor tree bark samples is porous and rough, with Al, Ca, Fe, K, Mg, Si, C, O and S as its matrix element composition. Uranium in these camphor tree bark samples can be efficiently separated and quantitatively recovered from the matrix element composition. Compared with those collected from Kyoto, the camphor tree bark samples collected from Hiroshima have significantly higher uranium contents, which may be due to the increased aerosol mass concentration during the city reconstruction. Moreover, the 235 U/23.U isotope ratios in a few camphor tree bark samples collected from Hiroshima are slightly higher than 0.007 25.

An Analysis on High School Students' Perceptions of Physics Courses in Terms of Gender (A Sample from Turkey)

ERIC Educational Resources Information Center

Baran, Medine

2016-01-01

This study was carried out to determine high school students' perceptions of the courses of Physics and the factors influential on their perceptions with respect to gender. The research sample included 154 high school students (F:78; M:76). In the study, as the data collection tool, a structured interview form was used. The data collected in the…

Evaluation of factors that affect diesel exhaust toxicity. Final report

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

Norbeck, J.M.; Smith, M.R.; Arey, J.

1998-07-01

The scope of this project was to obtain a preliminary assessment of the potential impact of the fuel formulation on the speciation and toxic components of diesel exhaust. The test bed was a Cummins L10 engine operating over the heavy-duty transient test cycle using three diesel fuels: a pre-1993 diesel fuel, a low aromatic diesel fuel, and an alternative formulation diesel fuel. The sampling/analysis plan included: determination of the criteria pollutant emission rates (THC, CO, NOx, and PM); determination of PM(10) and PM(2.5) emission rates; collection and analysis of particulate samples for elemental, inorganic ion and elemental/organic carbon analyses; collectionmore » of bas samples for VOC speciation analyses; collection of 2,4-dinitrophenylhydrazine (DNPH) cartridges for determination of oxygenates; collection of nitrosomorpholine with Thermosorb N cartridges; collection of semi-volatiles on PF/XAD and particulate samples for PAH, nitro-PAH, and mutagenicity studies; and collection and analysis of dioxins for the pre-1993 and alternative formulation diesel fuels.« less

A new method of snowmelt sampling for water stable isotopes

USGS Publications Warehouse

Penna, D.; Ahmad, M.; Birks, S. J.; Bouchaou, L.; Brencic, M.; Butt, S.; Holko, L.; Jeelani, G.; Martinez, D. E.; Melikadze, G.; Shanley, J.B.; Sokratov, S. A.; Stadnyk, T.; Sugimoto, A.; Vreca, P.

2014-01-01

We modified a passive capillary sampler (PCS) to collect snowmelt water for isotopic analysis. Past applications of PCSs have been to sample soil water, but the novel aspect of this study was the placement of the PCSs at the ground-snowpack interface to collect snowmelt. We deployed arrays of PCSs at 11 sites in ten partner countries on five continents representing a range of climate and snow cover worldwide. The PCS reliably collected snowmelt at all sites and caused negligible evaporative fractionation effects in the samples. PCS is low-cost, easy to install, and collects a representative integrated snowmelt sample throughout the melt season or at the melt event scale. Unlike snow cores, the PCS collects the water that would actually infiltrate the soil; thus, its isotopic composition is appropriate to use for tracing snowmelt water through the hydrologic cycle. The purpose of this Briefing is to show the potential advantages of PCSs and recommend guidelines for constructing and installing them based on our preliminary results from two snowmelt seasons.

Subsoil erosion dominates the supply of fine sediment to rivers draining into Princess Charlotte Bay, Australia.

PubMed

Olley, Jon; Brooks, Andrew; Spencer, John; Pietsch, Timothy; Borombovits, Daniel

2013-10-01

The Laura-Normanby River (catchment area: 24,350 km(2)), which drains into Princess Charlotte Bay, has been identified in previous studies as the third largest contributor of sediment to the Great Barrier Reef World Heritage Area. These catchment scale modelling studies also identified surface soil erosion as supplying >80% of the sediment. Here we use activity concentrations of the fallout radionuclides (137)Cs and (210)Pbex to test the hypothesis that surface soil erosion dominates the supply of fine (<10 μm) sediment in the river systems draining into Princess Charlotte Bay. Our results contradict these previous studies, and are consistent with channel and gully erosion being the dominant source of fine sediment in this catchment. The hypothesis that surface soil erosion dominates the supply of fine sediment to Princess Charlotte Bay is rejected. River sediment samples were collected using both time-integrated samplers and sediment drape deposits. We show that there is no detectable difference in (137)Cs and (210)Pbex activity concentrations between samples collected using these two methods. Two methods were also used to collect samples to characterise (137)Cs and (210)Pbex concentrations in sediment derived from surface soil erosion; sampling of surface-wash deposits and deployment of surface runoff traps that collected samples during rain events. While there was no difference in the (137)Cs activity concentrations for samples collected using these two methods, (210)Pbex activity concentrations were significantly higher in the samples collected using the runoff traps. The higher (210)Pbex concentrations are shown to be correlated with loss-on-ignition (r(2) = 0.79) and therefore are likely to be related to higher organic concentrations in the runoff trap samples. As a result of these differences we use a three end member mixing model (channel/gully, hillslope surface-wash and hillslope runoff traps) to determine the relative contribution from surface soil erosion. Probability distributions for (137)Cs and (210)Pbex concentrations were determined for each of the end members, with these distributions then used to estimate the surface soil contribution to each of the collected river sediment samples. The mean estimate of contribution of surface derived sediment for all river samples (n = 70) is 16 ± 2%. This study reinforces the importance of testing model predictions before they are used to target investment in remedial action and adds to the body of evidence that the primary source of sediment delivered to tropical river systems is derived from subsoil erosion. Copyright © 2013 Elsevier Ltd. All rights reserved.

Fate and transport of petroleum hydrocarbons in soil and ground water at Big South Fork National River and Recreation Area, Tennessee and Kentucky, 2002-2003

USGS Publications Warehouse

Williams, Shannon D.; Ladd, David E.; Farmer, James

2006-01-01

In 2002 and 2003, the U.S. Geological Survey (USGS), by agreement with the National Park Service (NPS), investigated the effects of oil and gas production operations on ground-water quality at Big South Fork National River and Recreation Area (BISO) with particular emphasis on the fate and transport of petroleum hydrocarbons in soils and ground water. During a reconnaissance of ground-water-quality conditions, samples were collected from 24 different locations (17 springs, 5 water-supply wells, 1 small stream, and 1 spring-fed pond) in and near BISO. Benzene, toluene, ethylbenzene, and xylene (BTEX) compounds were not detected in any of the water samples, indicating that no widespread contamination of ground-water resources by dissolved petroleum hydrocarbons probably exists at BISO. Additional water-quality samples were collected from three springs and two wells for more detailed analyses to obtain additional information on ambient water-quality conditions at BISO. Soil gas, soil, water, and crude oil samples were collected at three study sites in or near BISO where crude oil had been spilled or released (before 1993). Diesel range organics (DRO) were detected in soil samples from all three of the sites at concentrations greater than 2,000 milligrams per kilogram. Low concentrations (less than 10 micrograms per kilogram) of BTEX compounds were detected in lab-analyzed soil samples from two of the sites. Hydrocarbon-degrading bacteria counts in soil samples from the most contaminated areas of the sites were not greater than counts for soil samples from uncontaminated (background) sites. The elevated DRO concentrations, the presence of BTEX compounds, and the low number of -hydrocarbon-degrading bacteria in contaminated soils indicate that biodegradation of petroleum hydrocarbons in soils at these sites is incomplete. Water samples collected from the three study sites were analyzed for BTEX and DRO. Ground-water samples were collected from three small springs at the two sites located on ridge tops. BTEX and DRO were not detected in any of the water samples, and petroleum hydrocarbons do not appear to have leached into ground water at these sites. Ground-water samples were collected from a small spring and from three auger holes at the third site, which is located in a stream valley. BTEX and DRO were not detected in these ground-water samples, and currently, petroleum hydrocarbons do not appear to be leaching into ground water at this site. Weathered crude oil, however, was detected at the water surface in one of the auger holes, indicating that soluble petroleum hydrocarbons may have leached into the ground water and may have migrated downgradient from the site in the past. The concentration of soluble petroleum hydrocarbons present in the ground water would depend on the concentration of the hydrocarbons in the crude oil at the site. A laboratory study was conducted to examine the dissolution of petroleum hydrocarbons from a fresh crude oil sample collected from one of the study sites. The effective solubility of benzene, toluene, ethylbenzene, and total xylenes for the crude oil sample was determined to be 1,900, 1,800, 220, and 580 micrograms per liter (?g/L), respectively. These results indicate that benzene and toluene could be present at concentrations greater than maximum contaminant levels (5 ?g/L for benzene and 1,000 ?g/L for toluene for drinking water) in ground water that comes into contact with fresh crude oil from the study area.

UTILIZATION OF THE CARBON AND HYDROGEN ISOTOPIC COMPOSITION OF INDIVIDUAL COMPOUNDS IN REFINED HYDROCARBON PRODUCTS TO MONITOR THEIR FATE IN THE ENVIRONMENT

EPA Science Inventory

Isotope effects resulting from biodegradation of MTBE
To conduct the microcosm biodegradation study, sediment samples were collected from sites offering high potential of MTBE biodegradation. Sites where sediment samples were collected for the MTBE microcosm c...

[Health agents' perspective on the incorporation of self-collected samples in HPV screening programs].

PubMed

Curotto, Mariana; Barletta, Paula; Paolino, Melisa; Arrossi, Silvina

2017-06-01

The objective of this study was to analyze health agents' perception of self-collecting of samples for HPV testing among women and the degree of agreement by the agents to incorporate this approach into their daily tasks. A self-administered questionnaire was applied to 127/191 health agents that participated in the EMA Project (Proyecto Evaluación Modalidad Autotoma) in the province of Jujuy, Argentina, in 2012-2013. The health agents with and without the experience of offering self-collected sampling expressed a high degree of agreement towards adoption of the strategy (78.7%), given its potential to prevent cervical cancer and its contribution to health care for the women under their coverage. However, the health agents identified the extra work and problems linking to the formal health system as the main barriers to offering this modality in the future. The study found that self-collecting of samples is a practice that can be adopted by health agents in the province of Jujuy, but that it should be accompanied by support measures from the formal health system.

High-frequency, long-duration water sampling in acid mine drainage studies: a short review of current methods and recent advances in automated water samplers

USGS Publications Warehouse

Chapin, Thomas

2015-01-01

Hand-collected grab samples are the most common water sampling method but using grab sampling to monitor temporally variable aquatic processes such as diel metal cycling or episodic events is rarely feasible or cost-effective. Currently available automated samplers are a proven, widely used technology and typically collect up to 24 samples during a deployment. However, these automated samplers are not well suited for long-term sampling in remote areas or in freezing conditions. There is a critical need for low-cost, long-duration, high-frequency water sampling technology to improve our understanding of the geochemical response to temporally variable processes. This review article will examine recent developments in automated water sampler technology and utilize selected field data from acid mine drainage studies to illustrate the utility of high-frequency, long-duration water sampling.

Algal and water-quality data for Rapid Creek and Canyon Lake near Rapid City, South Dakota, 2007

USGS Publications Warehouse

Hoogestraat, Galen K.; Putnam, Larry D.; Graham, Jennifer L.

2008-01-01

This report summarizes the results of algae and water-quality sampling on Rapid Creek and Canyon Lake during May and September 2007. The overall purpose of the study was to determine the algal community composition of Rapid Creek and Canyon Lake in relation to organisms that are known producers of unwanted tastes and odors in drinking-water supplies. Algal assemblage structure (phytoplankton and periphyton) was examined at 16 sites on Rapid Creek and Canyon Lake during May and September 2007, and actinomycetes bacteria were sampled at the Rapid City water treatment plant intake in May 2007, to determine if taste-and-odor producing organisms were present. During the May 2007 sampling, 3 Rapid Creek sites and 4 Canyon Lake sites were quantitatively sampled for phytoplankton in the water column, 7 Rapid Creek sites were quantitatively sampled for attached periphyton, and 4 lake and retention pond sites were qualitatively sampled for periphyton. Five Rapid Creek sites were sampled for geosmin and 2-methylisoborneol, two common taste-and-odor causing compounds known to affect water supplies. During the September 2007 sampling, 4 Rapid Creek sites were quantitatively sampled for attached periphyton, and 3 Canyon Lake sites were qualitatively sampled for periphyton. Water temperature, dissolved oxygen, pH, and specific conductance were measured during each sampling event. Methods of collection and sample analysis are presented for the various types of biological and chemical constituent samples. Diatoms comprised 91-100 percent of the total algal biovolume in periphyton samples collected during May and September. Cyanobacteria (also called blue-green algae) were detected in 7 of the 11 quantitative periphyton samples and ranged from 0.01 to 2.0 percent of the total biovolume. Cyanobacteria were present in 3 of the 7 phytoplankton samples collected in May, but the relative biovolumes were small (0.01-0.2 percent). Six of seven qualitative samples collected from Canyon Lake and retention ponds during May and September also contained cyanobacteria. Geosmin and 2-methylisoborneol concentrations were less than detection limits (0.005 ug/L) in all five of the Rapid Creek samples collected in May. Actinomycetes bacteria were present at the water treatment plant intake in May 2007, at a concentration of 6 colonies per milliliter. During this study, no taste-and-odor problems with the drinking water within the study area were reported. However, the presence of cyanobacterial taxa known to contain taste-and-odor producing strains (such as Leptolyngbya, Phormidium, and Anabaena) indicates the potential for taste-and-odor problems under certain physical and chemical conditions.

Effect of a commercial anion dietary supplement on acid-base balance, urine volume, and urinary ion excretion in male goats fed oat or grass hay diets.

PubMed

Stratton-Phelps, Meri; House, John K

2004-10-01

To determine whether feeding a commercial anionic dietary supplement as a urinary acidifier to male goats may be useful for management of urolithiasis. 8 adult sexually intact male Toggenburg, Saanen, and Nubian goats. Goats were randomly assigned by age-, breed-, and weight-matched pairs to an oat or grass hay diet that was fed for 12 days. On days 13 to 14 (early sample collection time before supplementation), measurements were made of blood and urine sodium, potassium, calcium, magnesium, chloride, phosphorus, and sulfur concentrations; blood and urine pH; urine production; and water consumption. During the next 28 days, the anionic dietary supplement was added to the oat and grass hay diets to achieve a dietary cation-anion difference of 0 mEq/100g of dry matter. Blood and urine samples were analyzed during dietary supplementation on days 12 to 13 (middle sample collection time) and 27 to 28 (late sample collection time). Blood bicarbonate, pH, and urine pH of goats fed grass hay and goats fed oat hay were significantly decreased during the middle and late sample collection times, compared with the early sample collection time. Water consumption and urine production in all goats increased significantly during the late sample collection time, compared with the early sample collection time. The anionic dietary supplement used in our study increases urine volume, alters urine ion concentrations, and is an efficacious urinary acidifier in goats. Goats treated with prolonged anionic dietary supplementation should be monitored for secondary osteoporosis from chronic urinary calcium loss.

Circulating tumoral cells lack circadian-rhythm in hospitalized metastasic breast cancer patients.

PubMed

García-Sáenz, José Angel; Martín, Miguel; Maestro, Marisa; Vidaurreta, Marta; Veganzones, Silvia; Villalobos, Laura; Rodríguez-Lajusticia, Laura; Rafael, Sara; Sanz-Casla, María Teresa; Casado, Antonio; Sastre, Javier; Arroyo, Manuel; Díaz-Rubio, Eduardo

2006-11-01

The relationship between breast cancer and circadian rhythm variation has been extensively studied. Increased breast tumorigenesis has been reported in melatonin-suppressed experimental models and in observational studies. Circulating Tumor Cells (CTC) circadian- rhythm may optimize the timing of therapies. This is a prospective experimental study to ascertain the day-time and night-time CTC levels in hospitalized metastasic breast cancer (MBC) patients. CTC are isolated and enumerated from a 08:00 AM and 08:00 PM blood collections. 23 MBC and 23 healthy volunteers entered the study. 69 samples were collected (23 samples at 08:00 AM and 23 samples at 08:00 PM from MBC; 23 samples from healthy volunteers). Results from two patients were rejected due to sample processing errors. No CTC were isolated from healthy-volunteers. No-differences between daytime and night-time CTC were observed. Therefore, we could not ascertain CTC circadian-rhythm in hospitalized metastasic breast cancer patients.

Methods of developing core collections based on the predicted genotypic value of rice ( Oryza sativa L.).

PubMed

Li, C T; Shi, C H; Wu, J G; Xu, H M; Zhang, H Z; Ren, Y L

2004-04-01

The selection of an appropriate sampling strategy and a clustering method is important in the construction of core collections based on predicted genotypic values in order to retain the greatest degree of genetic diversity of the initial collection. In this study, methods of developing rice core collections were evaluated based on the predicted genotypic values for 992 rice varieties with 13 quantitative traits. The genotypic values of the traits were predicted by the adjusted unbiased prediction (AUP) method. Based on the predicted genotypic values, Mahalanobis distances were calculated and employed to measure the genetic similarities among the rice varieties. Six hierarchical clustering methods, including the single linkage, median linkage, centroid, unweighted pair-group average, weighted pair-group average and flexible-beta methods, were combined with random, preferred and deviation sampling to develop 18 core collections of rice germplasm. The results show that the deviation sampling strategy in combination with the unweighted pair-group average method of hierarchical clustering retains the greatest degree of genetic diversities of the initial collection. The core collections sampled using predicted genotypic values had more genetic diversity than those based on phenotypic values.

Hydrologic data for urban stormwater studies in the Dallas-Fort Worth area, Texas, 1992-94

USGS Publications Warehouse

Baldys, Stanley; Raines, T.H.; Mansfield, B.L.; Sandlin, J.T.

1997-01-01

This report presents precipitation and waterquality data from analyses of 210 samples collected at 30 storm-sewer outfall stations in the Dallas-Fort Worth area, Texas, during February 1992-November 1994. The data were collected to fulfill requirements mandated by the U.S. Environmental Protection Agency to the cities of Arlington, Dallas, Fort Worth, Garland, Irving, Mesquite, and Piano and to the Dallas and Fort Worth Districts of the Texas Department of Transportation to obtain a National Pollution Discharge Elimination System permit. Data were collected at storm-sewer outfall stations in drainage basins classified as singular land use, either residential, commercial, industrial, or highway. Also included are qualityassurance/quality-control data for samples collected in conjunction with the stormwater samples.

Evaluation of Different Blood Collection Tubes and Blood Storage Conditions for the Preservation and Stability of Cell-Free Circulating DNA for the Analysis of the Methylated mSEPT9 Colorectal Cancer Screening Marker.

PubMed

Distler, Jurgen; Tetzner, Reimo; Weiss, Gunter; König, Thomas; Schlegel, Anne; Bagrowski, Michal

2016-01-01

For the subsequent analysis of the methylated mSEPT9 colorectal cancer screening marker in plasma, different blood collection tubes and blood storage conditions were investigated. The study demonstrated that methylated Septin 9 ( m SEPT9) can be consistently detected in plasma samples derived from whole blood samples collected with S-Monovette® K3E and BD Vacutainer ® K2EDTA tubes stored at 2-8 °C for a maximum of 24 h and for samples collected in S-Monovette CPDA tubes stored at 18-25 °C for up to 48 h.

Maternal blood contamination of collected cord blood can be identified using DNA methylation at three CpGs.

PubMed

Morin, Alexander M; Gatev, Evan; McEwen, Lisa M; MacIsaac, Julia L; Lin, David T S; Koen, Nastassja; Czamara, Darina; Räikkönen, Katri; Zar, Heather J; Koenen, Karestan; Stein, Dan J; Kobor, Michael S; Jones, Meaghan J

2017-01-01

Cord blood is a commonly used tissue in environmental, genetic, and epigenetic population studies due to its ready availability and potential to inform on a sensitive period of human development. However, the introduction of maternal blood during labor or cross-contamination during sample collection may complicate downstream analyses. After discovering maternal contamination of cord blood in a cohort study of 150 neonates using Illumina 450K DNA methylation (DNAm) data, we used a combination of linear regression and random forest machine learning to create a DNAm-based screening method. We identified a panel of DNAm sites that could discriminate between contaminated and non-contaminated samples, then designed pyrosequencing assays to pre-screen DNA prior to being assayed on an array. Maternal contamination of cord blood was initially identified by unusual X chromosome DNA methylation patterns in 17 males. We utilized our DNAm panel to detect contaminated male samples and a proportional amount of female samples in the same cohort. We validated our DNAm screening method on an additional 189 sample cohort using both pyrosequencing and DNAm arrays, as well as 9 publically available cord blood 450K data sets. The rate of contamination varied from 0 to 10% within these studies, likely related to collection specific methods. Maternal blood can contaminate cord blood during sample collection at appreciable levels across multiple studies. We have identified a panel of markers that can be used to identify this contamination, either post hoc after DNAm arrays have been completed, or in advance using a targeted technique like pyrosequencing.

Insights from two industrial hygiene pilot e-cigarette passive vaping studies.

PubMed

Maloney, John C; Thompson, Michael K; Oldham, Michael J; Stiff, Charles L; Lilly, Patrick D; Patskan, George J; Shafer, Kenneth H; Sarkar, Mohamadi A

2016-01-01

While several reports have been published using research methods of estimating exposure risk to e-cigarette vapors in nonusers, only two have directly measured indoor air concentrations from vaping using validated industrial hygiene sampling methodology. Our first study was designed to measure indoor air concentrations of nicotine, menthol, propylene glycol, glycerol, and total particulates during the use of multiple e-cigarettes in a well-characterized room over a period of time. Our second study was a repeat of the first study, and it also evaluated levels of formaldehyde. Measurements were collected using active sampling, near real-time and direct measurement techniques. Air sampling incorporated industrial hygiene sampling methodology using analytical methods established by the National Institute of Occupational Safety and Health and the Occupational Safety and Health Administration. Active samples were collected over a 12-hr period, for 4 days. Background measurements were taken in the same room the day before and the day after vaping. Panelists (n = 185 Study 1; n = 145 Study 2) used menthol and non-menthol MarkTen prototype e-cigarettes. Vaping sessions (six, 1-hr) included 3 prototypes, with total number of puffs ranging from 36-216 per session. Results of the active samples were below the limit of quantitation of the analytical methods. Near real-time data were below the lowest concentration on the established calibration curves. Data from this study indicate that the majority of chemical constituents sampled were below quantifiable levels. Formaldehyde was detected at consistent levels during all sampling periods. These two studies found that indoor vaping of MarkTen prototype e-cigarette does not produce chemical constituents at quantifiable levels or background levels using standard industrial hygiene collection techniques and analytical methods.

Collecting Research-Grade Data With Volunteers: A Case Study from Montana's Wilderness to the Sea

NASA Astrophysics Data System (ADS)

Kautz, M.

2016-12-01

Collecting Research-Grade Data With Volunteers: A Case Study from Montana's Wilderness Waterways to the SeaKautz, M (1), Barrows, A (2)(1) Adventurers and Scientists for Conservation. Bozeman, Montana, United States - mike@adventureandscience.org(2) College of the Atlantic. Bar Harbor, Maine, United States - abby.barrows@coa.eduSince World War II, global plastic production and consumption has increased dramatically. Plastics released into the environment may break down into smaller pieces through physical, biological and chemical processes. These small particles, referred to as microplastics, are less than 5mm in size and are a pollutant of emerging concern in both marine and freshwater environments. Since 2013, researcher Abigail Barrows and ASC have been conducting a global survey of microplastic distribution by utilizing the outdoor skills of adventurers. ASC recruits, trains and manages volunteers with specialized skills (surfers, long-distance open-ocean rowers, sailors, hikers, mountaineers, kayakers and others) to collect marine and freshwater samples from remote environments. Of the nearly 1500 samples collected worldwide to date (from areas as remote as the edge of Antarctica and the wilderness of Alaska) 90% contain microplastic, with an average of 8 pieces/1L of water. Samples are also in preparation for micro-Raman spectroscopy to determine source materials. In 2016 and 2017 the survey is focusing on freshwater around the globe. In the United States samples are being collected from the length of the 4th longest river system in the world, the Missouri-Mississippi. ASC has adventurous citizen scientists sampling in the mountain headwaters near Yellowstone National Park to the delta of the Mississippi River near New Orleans. This citizen-driven observation allows research at a geographic scale simply not possible through traditional methods. ASC works closely with Barrows and other researchers to develop water sampling protocols that allow volunteers to collect research grade data. This includes the use of POV cameras to review volunteers' sample collection methods, incorporating self-assessment into data collection, online training and refreshers, and app-based field data recording.

Evaluation of sampling and storage procedures on preserving the community structure of stool microbiota: A simple at-home toilet-paper collection method.

PubMed

Al, Kait F; Bisanz, Jordan E; Gloor, Gregory B; Reid, Gregor; Burton, Jeremy P

2018-01-01

The increasing interest on the impact of the gut microbiota on health and disease has resulted in multiple human microbiome-related studies emerging. However, multiple sampling methods are being used, making cross-comparison of results difficult. To avoid additional clinic visits and increase patient recruitment to these studies, there is the potential to utilize at-home stool sampling. The aim of this pilot study was to compare simple self-sampling collection and storage methods. To simulate storage conditions, stool samples from three volunteers were freshly collected, placed on toilet tissue, and stored at four temperatures (-80, 7, 22 and 37°C), either dry or in the presence of a stabilization agent (RNAlater®) for 3 or 7days. Using 16S rRNA gene sequencing by Illumina, the effect of storage variations for each sample was compared to a reference community from fresh, unstored counterparts. Fastq files may be accessed in the NCBI Sequence Read Archive: Bioproject ID PRJNA418287. Microbial diversity and composition were not significantly altered by any storage method. Samples were always separable based on participant, regardless of storage method suggesting there was no need for sample preservation by a stabilization agent. In summary, if immediate sample processing is not feasible, short term storage of unpreserved stool samples on toilet paper offers a reliable way to assess the microbiota composition by 16S rRNA gene sequencing. Copyright © 2017 Elsevier B.V. All rights reserved.

Use of FTA cards for direct sampling of patients' lesions in the ecological study of cutaneous leishmaniasis.

PubMed

Kato, Hirotomo; Cáceres, Abraham G; Mimori, Tatsuyuki; Ishimaru, Yuka; Sayed, Amal S M; Fujita, Megumi; Iwata, Hiroyuki; Uezato, Hiroshi; Velez, Lenin N; Gomez, Eduardo A L; Hashiguchi, Yoshihisa

2010-10-01

The FTA card (Whatman) was assessed for its utility as a molecular epidemiological tool in collecting samples from patients with leishmaniasis in Peru because the card has a variety of merits; it is less invasive for patients and easy to handle for both physicians and other medical personnel for sample collection or diagnosis, in addition to its simplicity and easy countrywide and/or intercountry transportation for analysis. Samples were collected from 132 patients suspected of having leishmaniasis, and Leishmania species were successfully identified in samples from 81 patients in 15 departments of Peru by cytochrome b and mannose phosphate isomerase gene analyses. Of these, 61.7% were identified as Leishmania (Viannia) peruviana, 22.2% as L. (V.) braziliensis, 12.3% as L. (V.) guyanensis, 2.5% as L. (V.) shawi, and 1.2% as L. (V.) lainsoni. The three predominant species, L. (V.) peruviana, L. (V.) braziliensis, and L. (V.) guyanensis, were mainly found in the Andean highlands, in the tropical rainforest, and in northern and central rainforest regions, respectively. This is the first time L. (V.) shawi has been identified outside Brazil. The present study showed that the FTA card will be a useful tool for the ecological study of different forms of leishmaniasis. Furthermore, collecting samples directly from patients' lesions by using the FTA card eliminates (i) the possibility of contamination of Leishmania isolates during short- and/or long-term passages of culture in vitro in each laboratory and (ii) pain and suffering of patients from taking samples by skin biopsy.

Use of FTA Cards for Direct Sampling of Patients' Lesions in the Ecological Study of Cutaneous Leishmaniasis ▿

PubMed Central

Kato, Hirotomo; Cáceres, Abraham G.; Mimori, Tatsuyuki; Ishimaru, Yuka; Sayed, Amal S. M.; Fujita, Megumi; Iwata, Hiroyuki; Uezato, Hiroshi; Velez, Lenin N.; Gomez, Eduardo A. L.; Hashiguchi, Yoshihisa

2010-01-01

The FTA card (Whatman) was assessed for its utility as a molecular epidemiological tool in collecting samples from patients with leishmaniasis in Peru because the card has a variety of merits; it is less invasive for patients and easy to handle for both physicians and other medical personnel for sample collection or diagnosis, in addition to its simplicity and easy countrywide and/or intercountry transportation for analysis. Samples were collected from 132 patients suspected of having leishmaniasis, and Leishmania species were successfully identified in samples from 81 patients in 15 departments of Peru by cytochrome b and mannose phosphate isomerase gene analyses. Of these, 61.7% were identified as Leishmania (Viannia) peruviana, 22.2% as L. (V.) braziliensis, 12.3% as L. (V.) guyanensis, 2.5% as L. (V.) shawi, and 1.2% as L. (V.) lainsoni. The three predominant species, L. (V.) peruviana, L. (V.) braziliensis, and L. (V.) guyanensis, were mainly found in the Andean highlands, in the tropical rainforest, and in northern and central rainforest regions, respectively. This is the first time L. (V.) shawi has been identified outside Brazil. The present study showed that the FTA card will be a useful tool for the ecological study of different forms of leishmaniasis. Furthermore, collecting samples directly from patients' lesions by using the FTA card eliminates (i) the possibility of contamination of Leishmania isolates during short- and/or long-term passages of culture in vitro in each laboratory and (ii) pain and suffering of patients from taking samples by skin biopsy. PMID:20720027

Spatial and Temporal Dynamics of Fecal Coliform and Associated with Suspended Solids and Water within Five Northern California Estuaries.

PubMed

Lewis, David J; Atwill, Edward R; Pereira, Maria das Graças C; Bond, Ronald

2013-01-01

Fecal coliform and associated with suspended solids (SS) and water in five northern California estuaries were studied to document process influences and water quality monitoring biases affecting indicator bacteria concentrations. We collected and analyzed 2371 samples during 10 sampling events for the five studied estuaries. Concentrations during wet-season stormflow conditions were greater than during wet-season base flow and dry-season base flow conditions. Results also document concentration gradients across the length of the studied estuaries and with depth of sample collection. Highest concentrations were associated with shallow samples collected furthest inland. Corresponding decreases occurred the deeper and closer to the estuary mouth a sample was collected. Results also identify direct relationships of wind speed and discharge velocity and indirect relationship of tide stage to indicator bacteria concentrations. Bacteria associated with suspended solids (SS), after conversion to the same units of measurement (mass), were three orders of magnitude greater than in the water fraction. However, the mean proportion contributed by SS to composite water sample concentrations was 8% (SE 0.3) for fecal coliform and 7% (SE 0.3) for . Bacteria from the SS proportion is related to seasonality, tide stage, and discharge velocity that are consistent with mechanisms for entrainment, transport of SS, and reduced particle settling. These results are important for both managing and monitoring these systems by improving sample spatial and temporal context and corresponding bacteria concentration values across the freshwater-saltwater interface. Copyright © by the American Society of Agronomy, Crop Science Society of America, and Soil Science Society of America, Inc.

Wetland paleoecological study of southwest coastal Louisiana: sediment cores and diatom calibration dataset

USGS Publications Warehouse

Smith, Kathryn E. L.; Flocks, James G.; Steyer, Gregory D.; Piazza, Sarai C.

2015-01-01

Wetland sediment data were collected in 2009 and 2010 throughout the southwest Louisiana Chenier Plain as part of a pilot study to develop a diatom-based proxy for past wetland water chemistry and the identification of sediment deposits from tropical storms. The complete dataset includes forty-six surface sediment samples and nine sediment cores. The surface sediment samples were collected in fresh, intermediate, and brackish marsh and are located coincident with Coastwide Reference Monitoring System (CRMS) sites. The nine sediment cores were collected at the Rockefeller Wildlife Refuge (RWR) located in Grand Chenier, La.

Summary of inorganic compositional data for groundwater, soil-water, and surface-water samples collected at the Headgate Draw subsurface drip irrigation site, Johnson County, Wyoming

USGS Publications Warehouse

Geboy, Nicholas J.; Engle, Mark A.; Schroeder, Karl T.; Zupancic, John W.

2011-01-01

As part of a 5-year project on the impact of subsurface drip irrigation (SDI) application of coalbed-methane (CBM) produced waters, water samples were collected from the Headgate Draw SDI site in the Powder River Basin, Wyoming, USA. This research is part of a larger study to understand short- and long-term impacts on both soil and water quality from the beneficial use of CBM waters to grow forage crops through use of SDI. This document provides a summary of the context, sampling methodology, and quality assurance and quality control documentation of samples collected prior to and over the first year of SDI operation at the site (May 2008-October 2009). This report contains an associated database containing inorganic compositional data, water-quality criteria parameters, and calculated geochemical parameters for samples of groundwater, soil water, surface water, treated CBM waters, and as-received CBM waters collected at the Headgate Draw SDI site.

Occurrence of emerging contaminants in water and bed material in the Missouri River, North Dakota, 2007

USGS Publications Warehouse

Damschen, William C.; Lundgren, Robert F.

2009-01-01

The U.S. Geological Survey (USGS), in cooperation with the Standing Rock Sioux Tribe, conducted a reconnaissance study to determine the occurrence of emerging contaminants in water and bed sediment within the Missouri River upstream and downstream from the cities of Bismarck and Mandan, North Dakota, and upstream from the city of Fort Yates, North Dakota, during September-October 2007. At each site, water samples were collected twice and bed-sediment samples were collected once. Samples were analyzed for more than 200 emerging contaminants grouped into four compound classes - wastewater compounds, human-health pharmaceutical compounds, hormones, and antibiotics. Only sulfamethoxazole, an antibiotic, was present at a concentration higher than minimum detection limits. It was detected in a water sample collected downstream from the cities of Bismarck and Mandan, and in bed-sediment samples collected at the two sites downstream from the cities of Bismarck and Mandan and upstream from Fort Yates. Sulfamethoxazole is an antibiotic commonly used for treating bacterial infections in humans and animals.

Estimation of respirable dust exposure among coal miners in South Africa.

PubMed

Naidoo, Rajen; Seixas, Noah; Robins, Thomas

2006-06-01

The use of retrospective occupational hygiene data for epidemiologic studies is useful in determining exposure-outcome relationships, but the potential for exposure misclassification is high. Although dust sampling in the South African coal industry has been a legal requirement for several decades, these historical data are not readily adequate for estimating past exposures. This study describes the respirable coal mine dust levels in three South African coal mines over time. Each of the participating mining operations had well-documented dust sampling information that was used to describe historical trends in dust exposure. Investigator-collected personal dust samples were taken using standardized techniques from the face, backbye (underground jobs not at the coal face), and surface from 50 miners at each mine, repeated over three sampling cycles. Job histories and exposure information was obtained from a sample of 684 current miners and 188 ex-miners. Linear models were developed to estimate the exposure levels associated with work in each mine, exposure zone, and over time using a combination of operator-collected historical data and investigator-collected samples. The estimated levels were then combined with work history information to calculate cumulative exposure metrics for the miner cohort. The mean historical and investigator-collected respirable dust levels were within international norms and South African standards. Silica content of the dust samples was also below the 5% regulatory action level. Mean respirable dust concentrations at the face, based on investigator-collected samples, were 0.9 mg/m(3), 1.3 mg/m(3), and 1.9 mg/m(3) at Mines 1, 2, and 3, respectively. The operator-collected samples showed considerable variability across exposure zones, mines, and time, with the annual means at the face ranging from 0.4 mg/m(3) to 2.9 mg/m(3). Statistically significant findings were found between operator- and investigator-collected dust samples. Model-based arithmetic mean dust estimates at the face were 1.2 mg/m(3), 2.0 mg/m(3), and 0.9 mg/m(3) for Mines 1, 2, and 3, respectively. Using these levels, the mean cumulative exposure for the cohort was 56.8 mg-years/m(3). Current miners had a mean cumulative exposure of 66.5 mg-years/m(3), compared with ex-miners of 26.8 mg-years/m(3). Improvements in dust management or the use of different sampling equipment could account for the significant differences seen between operator- and investigator-collected data. Regression modeling for estimating mean dust levels over time using combined historical and investigator-collected data seems a reasonable method and useful in constructing models to describe cumulative exposures in a cohort of current and ex-miners.

Elemental analysis using a handheld X-Ray fluorescence spectrometer

USGS Publications Warehouse

Groover, Krishangi D.; Izbicki, John

2016-06-24

The U.S. Geological Survey is collecting geologic samples from local stream channels, aquifer materials, and rock outcrops for studies of trace elements in the Mojave Desert, southern California. These samples are collected because geologic materials can release a variety of elements to the environment when exposed to water. The samples are to be analyzed with a handheld X-ray fluorescence (XRF) spectrometer to determine the concentrations of up to 27 elements, including chromium.

Reconnaissance geochemical survey of the At Taif-Al Bahah region, southern Hijaz, Kingdom of Saudi Arabia

USGS Publications Warehouse

Du Bray, E.A.; Doebrich, J.L.

1982-01-01

An area south of At Taif containing significant tungsten was confirmed and found to be larger than initially determined. A possible porphyry copper pluton was discovered 50 km south-southeast of At Taif. Thirty kilometers south of At Taif, a low-grade tin anomaly associated with an S-type granite was identified. In addition, the sampling identified seven anomalous areas attributable to rock geochemically atypical of the study region. Finally, although samples from the A1 Lith-Hajrah area collected for an earlier study were found to contain anomalous concentrations of tungsten, samples collected there during this study do not support those findings.

76 FR 56141 - Notice of Intent To Request New Information Collection

Federal Register 2010, 2011, 2012, 2013, 2014

2011-09-12

... level surveys of similar scope and size. The sample for each selected community will be strategically... of 2 hours per sample community. Full Study: The maximum sample size for the full study is 2,812... questionnaires. The initial sample size for this phase of the research is 100 respondents (10 respondents per...

Uncertainties in stormwater runoff data collection from a small urban catchment, Southeast China.

PubMed

Huang, Jinliang; Tu, Zhenshun; Du, Pengfei; Lin, Jie; Li, Qingsheng

2010-01-01

Monitoring data are often used to identify stormwater runoff characteristics and in stormwater runoff modelling without consideration of their inherent uncertainties. Integrated with discrete sample analysis and error propagation analysis, this study attempted to quantify the uncertainties of discrete chemical oxygen demand (COD), total suspended solids (TSS) concentration, stormwater flowrate, stormwater event volumes, COD event mean concentration (EMC), and COD event loads in terms of flow measurement, sample collection, storage and laboratory analysis. The results showed that the uncertainties due to sample collection, storage and laboratory analysis of COD from stormwater runoff are 13.99%, 19.48% and 12.28%. Meanwhile, flow measurement uncertainty was 12.82%, and the sample collection uncertainty of TSS from stormwater runoff was 31.63%. Based on the law of propagation of uncertainties, the uncertainties regarding event flow volume, COD EMC and COD event loads were quantified as 7.03%, 10.26% and 18.47%.

Glyphosate in Irish adults - A pilot study in 2017.

PubMed

Connolly, Alison; Leahy, Michelle; Jones, Kate; Kenny, Laura; Coggins, Marie A

2018-08-01

Glyphosate is the highest volume herbicide used globally and has recently been classified as a 2 A 'probably carcinogenic to humans' by the International Agency for Research on Cancer (IARC). There is limited data to evaluate the public health impacts from glyphosate exposure. The objective of this study is to conduct an exploratory glyphosate exposure assessment study among Irish adults, who were non-occupational users of glyphosate. A convenient sampling method was used, collecting one first morning void spot urine sample from each participant. A biomonitoring survey involving the collection and analysis of 20 ml spot urine samples from 50 Irish adults was conducted in June 2017. Participants completed a short questionnaire to collect information on demographics, dietary habits and lifestyle. Glyphosate was extracted using solid phase extraction (SPE) and analysed by liquid chromatography tandem mass spectrometry (LC-MC/MS). Of the 50 urine samples analysed, 10 (20%) contained detectable levels of glyphosate (0.80-1.35 µg L -1 ). Exposure concentrations are higher than those reported in comparable studies of European and American adults. Glyphosate was detectable in 20% of the samples collected from Irish adults. The low proportion of detectable glyphosate levels could be due to lower localised use of pesticides, having a small sample size or the higher analytical detection limit used in this study (0.5 µg L -1 ), which could underestimate the true exposure and warrants further investigation. Given the widespread use of glyphosate, further information on population exposure is required to advance our understanding of the relationship between chronic low dose exposure to glyphosate and human health risk. Copyright © 2018 Elsevier Inc. All rights reserved.

Molecular identification of Cryptosporidium spp. in seagulls, pigeons, dogs, and cats in Thailand.

PubMed

Koompapong, Khuanchai; Mori, Hirotake; Thammasonthijarern, Nipa; Prasertbun, Rapeepun; Pintong, Ai-rada; Popruk, Supaluk; Rojekittikhun, Wichit; Chaisiri, Kittipong; Sukthana, Yaowalark; Mahittikorn, Aongart

2014-01-01

Zoonotic Cryptosporidium spp., particularly C. meleagridis, C. canis, and C. felis, are enteric protozoa responsible for major public health concerns around the world. To determine the spread of this parasite in Thailand, we conducted molecular identification of Cryptosporidium spp. from animal samples around the country, by collecting and investigating the feces of seagulls (Chroicocephalus brunnicephalus and Chroicocephalus ridibundus), domestic pigeons (Columba livia domestica), dogs, and cats. Seagull and pigeon samples were collected at the seaside and on the riverside to evaluate their potential for waterborne transmission. Ten pigeon samples were combined into one set, and a total of seven sets were collected. Seventy seagull samples were combined into one set, and a total of 13 sets were collected. In addition, 111 dog samples were collected from cattle farms, and 95 dog and 80 cat samples were collected from a temple. We identified C. meleagridis in pigeons, Cryptosporidium avian genotype III in seagulls, C. canis in dogs, and C. felis in cats. In the temple, the prevalence was 2.1% (2/95) for dogs and 2.5% (2/80) for cats. No Cryptosporidium was found in dog samples from cattle farms. These are the first findings of C. meleagridis in domestic pigeons, and Cryptosporidium avian genotype III in seagulls. Our study invites further molecular epidemiological investigations of Cryptosporidium in these animals and their environment to evaluate the public health risk in Thailand. K. Koompapong et al., published by EDP Sciences, 2014

Organochlorine and organophosphorus pesticide residues in fodder and milk samples along Musi river belt, India.

PubMed

Kotinagu, Korrapati; Krishnaiah, Nelapati

2015-04-01

The present study was conducted to find the organochlorine pesticide (OCP) and organophosphorus pesticide (OPP) residues in fodder and milk samples along Musi river belt, India. Fodder and milk samples collected from the six zones of Musi river belt, Hyderabad India were analyzed by gas chromatography with electron capture detector for OCP residues and pulsated flame photometric detector for the presence of OPP residues. The gas chromatographic analysis of fodder samples of Zone 5 of Musi river showed the residues of dicofol at concentration of 0.07±0.0007 (0.071-0.077). Among organophosphorus compounds, dimetheoate was present in milk samples collected from Zone 6 at a level of 0.13±0.006 (0.111-0.167). The residues of OCPs, OPPs and cyclodies were below the detection limit in the remaining fodder and milk samples collected from Musi river belt in the present study. The results indicate that the pesticide residues in fodder and milk samples were well below the maximum residue level (MRL) values, whereas dicofol in fodder and dimethoate in milk were slightly above the MRL values specified by EU and CODEX.

Organochlorine and organophosphorus pesticide residues in fodder and milk samples along Musi river belt, India

PubMed Central

Kotinagu, Korrapati; Krishnaiah, Nelapati

2015-01-01

Aim: The present study was conducted to find the organochlorine pesticide (OCP) and organophosphorus pesticide (OPP) residues in fodder and milk samples along Musi river belt, India. Materials and Methods: Fodder and milk samples collected from the six zones of Musi river belt, Hyderabad India were analyzed by gas chromatography with electron capture detector for OCP residues and pulsated flame photometric detector for the presence of OPP residues. Results: The gas chromatographic analysis of fodder samples of Zone 5 of Musi river showed the residues of dicofol at concentration of 0.07±0.0007 (0.071-0.077). Among organophosphorus compounds, dimetheoate was present in milk samples collected from Zone 6 at a level of 0.13±0.006 (0.111-0.167). The residues of OCPs, OPPs and cyclodies were below the detection limit in the remaining fodder and milk samples collected from Musi river belt in the present study. Conclusion: The results indicate that the pesticide residues in fodder and milk samples were well below the maximum residue level (MRL) values, whereas dicofol in fodder and dimethoate in milk were slightly above the MRL values specified by EU and CODEX. PMID:27047132

Simultaneous escaping of explicit and hidden free energy barriers: application of the orthogonal space random walk strategy in generalized ensemble based conformational sampling.

PubMed

Zheng, Lianqing; Chen, Mengen; Yang, Wei

2009-06-21

To overcome the pseudoergodicity problem, conformational sampling can be accelerated via generalized ensemble methods, e.g., through the realization of random walks along prechosen collective variables, such as spatial order parameters, energy scaling parameters, or even system temperatures or pressures, etc. As usually observed, in generalized ensemble simulations, hidden barriers are likely to exist in the space perpendicular to the collective variable direction and these residual free energy barriers could greatly abolish the sampling efficiency. This sampling issue is particularly severe when the collective variable is defined in a low-dimension subset of the target system; then the "Hamiltonian lagging" problem, which reveals the fact that necessary structural relaxation falls behind the move of the collective variable, may be likely to occur. To overcome this problem in equilibrium conformational sampling, we adopted the orthogonal space random walk (OSRW) strategy, which was originally developed in the context of free energy simulation [L. Zheng, M. Chen, and W. Yang, Proc. Natl. Acad. Sci. U.S.A. 105, 20227 (2008)]. Thereby, generalized ensemble simulations can simultaneously escape both the explicit barriers along the collective variable direction and the hidden barriers that are strongly coupled with the collective variable move. As demonstrated in our model studies, the present OSRW based generalized ensemble treatments show improved sampling capability over the corresponding classical generalized ensemble treatments.

Impact of Educational Activities in Reducing Pre-Analytical Laboratory Errors

PubMed Central

Al-Ghaithi, Hamed; Pathare, Anil; Al-Mamari, Sahimah; Villacrucis, Rodrigo; Fawaz, Naglaa; Alkindi, Salam

2017-01-01

Objectives Pre-analytic errors during diagnostic laboratory investigations can lead to increased patient morbidity and mortality. This study aimed to ascertain the effect of educational nursing activities on the incidence of pre-analytical errors resulting in non-conforming blood samples. Methods This study was conducted between January 2008 and December 2015. All specimens received at the Haematology Laboratory of the Sultan Qaboos University Hospital, Muscat, Oman, during this period were prospectively collected and analysed. Similar data from 2007 were collected retrospectively and used as a baseline for comparison. Non-conforming samples were defined as either clotted samples, haemolysed samples, use of the wrong anticoagulant, insufficient quantities of blood collected, incorrect/lack of labelling on a sample or lack of delivery of a sample in spite of a sample request. From 2008 onwards, multiple educational training activities directed at the hospital nursing staff and nursing students primarily responsible for blood collection were implemented on a regular basis. Results After initiating corrective measures in 2008, a progressive reduction in the percentage of non-conforming samples was observed from 2009 onwards. Despite a 127.84% increase in the total number of specimens received, there was a significant reduction in non-conforming samples from 0.29% in 2007 to 0.07% in 2015, resulting in an improvement of 75.86% (P <0.050). In particular, specimen identification errors decreased by 0.056%, with a 96.55% improvement. Conclusion Targeted educational activities directed primarily towards hospital nursing staff had a positive impact on the quality of laboratory specimens by significantly reducing pre-analytical errors. PMID:29062553

Impact of Educational Activities in Reducing Pre-Analytical Laboratory Errors: A quality initiative.

PubMed

Al-Ghaithi, Hamed; Pathare, Anil; Al-Mamari, Sahimah; Villacrucis, Rodrigo; Fawaz, Naglaa; Alkindi, Salam

2017-08-01

Pre-analytic errors during diagnostic laboratory investigations can lead to increased patient morbidity and mortality. This study aimed to ascertain the effect of educational nursing activities on the incidence of pre-analytical errors resulting in non-conforming blood samples. This study was conducted between January 2008 and December 2015. All specimens received at the Haematology Laboratory of the Sultan Qaboos University Hospital, Muscat, Oman, during this period were prospectively collected and analysed. Similar data from 2007 were collected retrospectively and used as a baseline for comparison. Non-conforming samples were defined as either clotted samples, haemolysed samples, use of the wrong anticoagulant, insufficient quantities of blood collected, incorrect/lack of labelling on a sample or lack of delivery of a sample in spite of a sample request. From 2008 onwards, multiple educational training activities directed at the hospital nursing staff and nursing students primarily responsible for blood collection were implemented on a regular basis. After initiating corrective measures in 2008, a progressive reduction in the percentage of non-conforming samples was observed from 2009 onwards. Despite a 127.84% increase in the total number of specimens received, there was a significant reduction in non-conforming samples from 0.29% in 2007 to 0.07% in 2015, resulting in an improvement of 75.86% ( P <0.050). In particular, specimen identification errors decreased by 0.056%, with a 96.55% improvement. Targeted educational activities directed primarily towards hospital nursing staff had a positive impact on the quality of laboratory specimens by significantly reducing pre-analytical errors.

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.

Application of the BMWP-Costa Rica biotic index in aquatic biomonitoring: sensitivity to collection method and sampling intensity.

PubMed

Gutiérrez-Fonseca, Pablo E; Lorion, Christopher M

2014-04-01

The use of aquatic macroinvertebrates as bio-indicators in water quality studies has increased considerably over the last decade in Costa Rica, and standard biomonitoring methods have now been formulated at the national level. Nevertheless, questions remain about the effectiveness of different methods of sampling freshwater benthic assemblages, and how sampling intensity may influence biomonitoring results. In this study, we compared the results of qualitative sampling using commonly applied methods with a more intensive quantitative approach at 12 sites in small, lowland streams on the southern Caribbean slope of Costa Rica. Qualitative samples were collected following the official protocol using a strainer during a set time period and macroinvertebrates were field-picked. Quantitative sampling involved collecting ten replicate Surber samples and picking out macroinvertebrates in the laboratory with a stereomicroscope. The strainer sampling method consistently yielded fewer individuals and families than quantitative samples. As a result, site scores calculated using the Biological Monitoring Working Party-Costa Rica (BMWP-CR) biotic index often differed greatly depending on the sampling method. Site water quality classifications using the BMWP-CR index differed between the two sampling methods for 11 of the 12 sites in 2005, and for 9 of the 12 sites in 2006. Sampling intensity clearly had a strong influence on BMWP-CR index scores, as well as perceived differences between reference and impacted sites. Achieving reliable and consistent biomonitoring results for lowland Costa Rican streams may demand intensive sampling and requires careful consideration of sampling methods.

Variations in the detection of anti-PEDV antibodies in serum samples using three diagnostic tests - short communication.

PubMed

Plut, Jan; Toplak, Ivan; Štukelj, Marina

2018-06-01

Over the last few years several porcine epidemic diarrhoea (PED) outbreaks have been discovered in Europe including the first PED case in Slovenia in January 2015. The aim of this study was to determine when PED virus (PEDV) infection started in Slovenia. Serum samples collected between 2012 and 2016 were tested. Three hundred and seventy-five serum samples were collected from 132 Slovenian small, one-site pig farms. Samples were tested for PEDV antibodies utilising three different serological methods: commercially-available indirect ELISA, in-house blocking ELISA test and Immunoperoxidase Monolayer Assay (IPMA) test. One hundred and seventy (45.33%) tested samples were found positive by the commercially-available ELISA test kit, and 10 (5.68%) of these 170 samples found positive were positive by the in-house blocking ELISA. Only these 10 samples were collected from a farm where clinical signs of PED infection had been observed and PEDV was confirmed by RT-PCR methodology; the other 160 samples were collected randomly. Thirty-two samples with the highest S/P value obtained with the commercial ELISA were all negative with IPMA. Reasons for the high variance in the results obtained remain unclear; more research is required to ensure higher sensitivity and specificity in terms of PEDV antibody tests and other PED diagnostic methods.

Environmental baseline study of the Huron River Watershed, Baraga and Marquette Counties, Michigan

USGS Publications Warehouse

Woodruff, Laurel G.; Weaver, Thomas L.; Cannon, William F.

2010-01-01

This report summarizes results of a study to establish water-quality and geochemical baseline conditions within a small watershed in the Lake Superior region. In 2008, the U.S. Geological Survey (USGS) completed a survey of water-quality parameters and soil and streambed sediment geochemistry of the 83 mi2 Huron River Watershed in the Upper Peninsula of Michigan. Streamflow was measured and water-quality samples collected at a range of flow conditions from six sites on the major tributaries of the Huron River. All water samples were analyzed for a suite of common ions, nutrients, and trace metals. In addition, water samples from each site were analyzed for unfiltered total and methylmercury once during summer low-flow conditions. Soil samples were collected from 31 sites, with up to 4 separate samples collected at each site, delineated by soil horizon. Streambed sediments were collected from 11 sites selected to cover most of the area drained by the Huron River system. USGS data were supplemented with ecological assessments completed in 2006 by the Michigan Department of Environmental Quality using a modified version of their Great Lakes Environmental Assessment Section procedure 51, and again during 2008 using volunteers under supervision of the Michigan Department of Natural Resources. Results from this study define a hydrological, geological, and environmental baseline for the Huron River Watershed prior to any significant mineral exploration or development. Results from the project also serve to refine the design of future regional environmental baseline studies in the Lake Superior Basin.

Groundwater-quality and quality-control data for two monitoring wells near Pavillion, Wyoming, April and May 2012

USGS Publications Warehouse

Wright, Peter R.; McMahon, Peter B.; Mueller, David K.; Clark, Melanie L.

2012-01-01

In June 2010, the U.S. Environmental Protection Agency installed two deep monitoring wells (MW01 and MW02) near Pavillion, Wyoming, to study groundwater quality. During April and May 2012, the U.S Geological Survey, in cooperation with the Wyoming Department of Environmental Quality, collected groundwater-quality data and quality-control data from monitoring well MW01 and, following well redevelopment, quality-control data for monitoring well MW02. Two groundwater-quality samples were collected from well MW01—one sample was collected after purging about 1.5 borehole volumes, and a second sample was collected after purging 3 borehole volumes. Both samples were collected and processed using methods designed to minimize atmospheric contamination or changes to water chemistry. Groundwater-quality samples were analyzed for field water-quality properties (water temperature, pH, specific conductance, dissolved oxygen, oxidation potential); inorganic constituents including naturally occurring radioactive compounds (radon, radium-226 and radium-228); organic constituents; dissolved gasses; stable isotopes of methane, water, and dissolved inorganic carbon; and environmental tracers (carbon-14, chlorofluorocarbons, sulfur hexafluoride, tritium, helium, neon, argon, krypton, xenon, and the ratio of helium-3 to helium-4). Quality-control sample results associated with well MW01 were evaluated to determine the extent to which environmental sample analytical results were affected by bias and to evaluate the variability inherent to sample collection and laboratory analyses. Field documentation, environmental data, and quality-control data for activities that occurred at the two monitoring wells during April and May 2012 are presented.

Analysis of the contaminants released from municipal solid waste landfill site: A case study.

PubMed

Samadder, S R; Prabhakar, R; Khan, D; Kishan, D; Chauhan, M S

2017-02-15

Release and transport of leachate from municipal solid waste landfills pose a potential hazard to both surrounding ecosystems and human populations. In the present study, soil, groundwater, and surface water samples were collected from the periphery of a municipal solid waste landfill (located at Ranital of Jabalpur, Madhya Pradesh, India) for laboratory analysis to understand the release of contaminants. The landfill does not receive any solid wastes for dumping now as the same is under a landfill closure plan. Groundwater and soil samples were collected from the bore holes of 15m deep drilled along the periphery of the landfill and the surface water samples were collected from the existing surface water courses near the landfill. The landfill had neither any bottom liner nor any leachate collection and treatment system. Thus the leachate generated from the landfills finds paths into the groundwater and surrounding surface water courses. Concentrations of various physico-chemical parameters including some toxic metals (in collected groundwater, soil, and surface water samples) and microbiological parameters (in surface water samples) were determined. The analyzed data were integrated into ArcGIS environment and the spatial distribution of the metals and other physic- chemical parameter across the landfill was extrapolated to observe the distribution. The statistical analysis and spatial variations indicated the leaching of metals from the landfill to the groundwater aquifer system. The study will help the readers and the municipal engineers to understand the release of contaminants from landfills for better management of municipal solid wastes. Copyright © 2016 Elsevier B.V. All rights reserved.

Water-quality assessment of the Delmarva Peninsula, Delaware, Maryland, and Virginia; results of investigations, 1987-91

USGS Publications Warehouse

Shedlock, Robert J.; Denver, J.M.; Hayes, M.A.; Hamilton, P.A.; Koterba, M.T.; Bachman, L.J.; Phillips, P.J.; Banks, W.S.

1999-01-01

A regional ground-water-quality assessment of the Delmarva Peninsula was conducted as a pilot study for the U.S. Geological Survey's National Water-Quality Assessment (NAWQA) Program. The study focused on the surficial aquifer and used both existing data and new data collected between 1988 and 1991. The new water samples were analyzed for major ions, nutrients, radon, volatile organic compounds, and a suite of herbicides and insecticides commonly used on corn, soybeans, and small grains. Samples also were collected from wells completed in deeper, confined aquifers and from selected streams, and analyzed for most of these constituents. The study employed a multi-scale network design. Regional networks were chosen to provide broad geographic coverage of the study area and to ensure that the major hydrogeologic settings of the surficial aquifer were adequately represented. Both the existing data and the data from samples collected during the study showed that agricultural activities had affected the quality of water in the surficial aquifer over most of the Peninsula.

Urban Land Cover Mapping Accuracy Assessment - A Cost-benefit Analysis Approach

NASA Astrophysics Data System (ADS)

Xiao, T.

2012-12-01

One of the most important components in urban land cover mapping is mapping accuracy assessment. Many statistical models have been developed to help design simple schemes based on both accuracy and confidence levels. It is intuitive that an increased number of samples increases the accuracy as well as the cost of an assessment. Understanding cost and sampling size is crucial in implementing efficient and effective of field data collection. Few studies have included a cost calculation component as part of the assessment. In this study, a cost-benefit sampling analysis model was created by combining sample size design and sampling cost calculation. The sampling cost included transportation cost, field data collection cost, and laboratory data analysis cost. Simple Random Sampling (SRS) and Modified Systematic Sampling (MSS) methods were used to design sample locations and to extract land cover data in ArcGIS. High resolution land cover data layers of Denver, CO and Sacramento, CA, street networks, and parcel GIS data layers were used in this study to test and verify the model. The relationship between the cost and accuracy was used to determine the effectiveness of each sample method. The results of this study can be applied to other environmental studies that require spatial sampling.

Agreement for HPV genotyping detection between self-collected specimens on a FTA cartridge and clinician-collected specimens

PubMed Central

Guan, YaoYao; Gravitt, Patti E.; Howard, Roslyn; Eby, Yolanda J.; Wang, Shaoming; Li, Belinda; Feng, Changyan; Qiao, You-Lin; Castle, Philip E.

2016-01-01

The current method of transporting self-collected cervicovaginal specimen for HPV DNA testing relies on liquid based medium, which is challenging and expensive to transport. A novel, dry storage and transportation device, Whatman indicating FTA™ Elute Cartridge, avoids some of the pitfalls of liquid-based medium. This method has been shown to be comparable to liquid-based collection medium, but relative performance of self-collected (SC) and clinician-collected (CC) samples onto FTA cards has not been reported. The objective of this study is to compare the analytic performance of self- and clinician-collected samples onto FTA cartridges for the detection of carcinogenic HPV using Linear Array. There was a 91% agreement, 69% positive agreement, and kappa of 0.75 between the clinician-collected and self-collected specimens for detection of any carcinogenic HPV genotype. When the HPV results were categorized hierarchically according to cervical cancer risk, there was no difference in the distribution of the HPV results for the clinician- and self-collected specimens (p = 0.7). This study concludes that FTA elute cartridge is a promising method of specimen transport for cervical cancer screening programs considering using self-collected specimen and HPV testing. Larger studies with clinical endpoints are now needed to assess the clinical performance. PMID:23370404

Early Childhood Longitudinal Study, Birth Cohort (ECLS-B): Methodology Report for the 9-Month Data Collection (2001-02). Volume 2: Sampling. NCES 2005-147

ERIC Educational Resources Information Center

Bethel, James; Green, James L.; Nord, Christine; Kalton, Graham; West, Jerry

2005-01-01

This report is Volume 2 of the methodology report that provides information about the development, design, and conduct of the 9-month data collection of the Early Childhood Longitudinal Study, Birth Cohort (ECLS-B). This volume begins with a brief overview of the ECLS-B, but focuses on the sample design, calculation of response rates, development…

Avian influenza A (H5N1) virus antibodies in pigs and residents of swine farms, southern China.

PubMed

Cao, Nan; Zhu, Wanjun; Chen, Ye; Tan, Likai; Zhou, Pei; Cao, Zhenpeng; Ke, Changwen; Li, Yugu; Wu, Jie; Qi, Wenbao; Jiao, Peirong; Zhang, Guihong

2013-12-01

Since 1997, the H5 avian influenza viruses (AIVs) circulating in China have become an international concern. Clade 2.3.2 of H5N1 AIVs is genetically distinct from the viruses isolated before 2007 and antigenically different from the vaccine strains widely used in China. Swine farms in rural China are thought to play an important role in AIVs ecology. A seroepidemiological study was undertaken among swine farm residents and pigs to understand the prevalence of antibodies against H5N1 AIVs in southern China. During the period March 24, 2008 to December 25, 2012,serum samples were collected from 1606 swine farm residents on 40 swine farms in southern China. A total of 1980 pigs' serum samples were collected in the same swine farms where swine workers' serum samples were collected from March 2009 to March 2013. For a control group, 104 serum samples were collected from healthy city residents in Nanchang. All the serum samples were collected to perform hemagglutination inhibition (HI) and (neutralization) NT assays to investigate the prevalence of H5N1 AIV infections in southern China. Sixteen human samples were positive by HI assay and 10 of these were also positive by NT assay against H5N1. No serum samples from human control and pigs were HI positive for H5N1 AIV. Our results demonstrate minimal transmission H5N1 AIV from birds to pigs in the swine farms studied and the risk of poultry-to-human and poultry-to-pig transmission for at least clades 2.3.2 seemed very low. This study provides the first data regarding antibodies against H5N1 AIV in humans and pigs on swine farms in China. The findings of this study can serve as a baseline for additional serologic studies to assess transmission of H5N1 viruses between avian species, pigs and swine workers. Copyright © 2013 Elsevier B.V. All rights reserved.

Automated DBS microsampling, microscale automation and microflow LC-MS for therapeutic protein PK.

PubMed

Zhang, Qian; Tomazela, Daniela; Vasicek, Lisa A; Spellman, Daniel S; Beaumont, Maribel; Shyong, BaoJen; Kenny, Jacqueline; Fauty, Scott; Fillgrove, Kerry; Harrelson, Jane; Bateman, Kevin P

2016-04-01

Reduce animal usage for discovery-stage PK studies for biologics programs using microsampling-based approaches and microscale LC-MS. We report the development of an automated DBS-based serial microsampling approach for studying the PK of therapeutic proteins in mice. Automated sample preparation and microflow LC-MS were used to enable assay miniaturization and improve overall assay throughput. Serial sampling of mice was possible over the full 21-day study period with the first six time points over 24 h being collected using automated DBS sample collection. Overall, this approach demonstrated comparable data to a previous study using single mice per time point liquid samples while reducing animal and compound requirements by 14-fold. Reduction in animals and drug material is enabled by the use of automated serial DBS microsampling for mice studies in discovery-stage studies of protein therapeutics.

Food residue recycling by swine breeders in a developing economy: a case study in Da Nang, Viet Nam.

PubMed

Kato, Takaaki; Pham, Dung Thi Xuan; Hoang, Hai; Xue, Yonghai; Tran, Quang Van

2012-12-01

This study provides a detailed description of food residue collection by swine breeders in Da Nang, Viet Nam. In January 2011, the study surveyed 30 swine breeders in two villages with respect to locations, methods, prices, quantities, and prospects for food residue collection. The sampled swine breeders regularly visited 55 locations in central Da Nang to collect raw food residue. They then transferred the food residue to their piggeries, boiled it, and fed it to their swine. A regression analysis revealed that the total amount of food residue collected by a farm depends on the number of swine in the farm and the number of collections made per day. Swine breeders in Da Nang were estimated to collect 26.3 metric tons of organic waste per day, which amounted to 4.1% of domestic waste collected by the local government. Among the sampled swine breeders, 93% answered that they would continue using food residue for the next five years. Copyright © 2012 Elsevier Ltd. All rights reserved.

Using improved technology for filter paper-based blood collection to survey wild Sika deer for antibodies to hepatitis E virus.

PubMed

Yu, Claro; Zimmerman, Carl; Stone, Roger; Engle, Ronald E; Elkins, William; Nardone, Glenn A; Emerson, Suzanne U; Purcell, Robert H

2007-06-01

Recent reports from Japan implicated wild Sika deer (Cervus nippon) in the zoonotic transmission of hepatitis E to humans. Seroprevalence studies were performed to determine if imported feral populations of Sika deer in Maryland and Virginia posed a similar risk of transmitting hepatitis E virus (HEV). Hunters collected blood on filter paper discs from freshly killed deer. The discs were desiccated and delivered to a collection point. The dried filters were weighed to estimate the amount of blood absorbed and were eluted and collected in one tube via a novel extraction system. The procedure was quantified and validated with negative and positive serum and blood samples obtained from domestic Sika deer before and after immunization with HEV recombinant capsid protein, respectively. None of the 155 tested samples contained antibody to HEV, suggesting that Sika deer in these populations, unlike those in Japan, do not pose a significant zoonotic threat for hepatitis E. However, the new method developed for collecting and eluting the samples should prove useful for field studies of many other pathogens.

Using improved technology for filter paper-based blood collection to survey wild Sika deer for antibodies to hepatitis E virus

PubMed Central

Zimmerman, Carl; Stone, Roger; Engle, Ronald E.; Elkins, William; Nardone, Glenn A.; Emerson, Suzanne U.; Purcell, Robert H.

2009-01-01

Recent reports from Japan implicated wild Sika deer (Cervus nippon) in the zoonotic transmission of hepatitis E to humans. Seroprevalence studies were performed to determine if imported feral populations of Sika deer in Maryland and Virginia posed a similar risk of transmitting hepatitis E virus (HEV). Hunters collected blood on filter paper disks from freshly killed deer. The disks were desiccated and delivered to a collection point. The dried filters were weighed to estimate the amount of blood absorbed and were eluted and collected in one tube via a novel extraction system. The procedure was quantified and validated with negative and positive serum and blood samples obtained from domestic Sika deer before and after immunization with HEV recombinant capsid protein, respectively. None of the 155 tested samples contained antibody to HEV, suggesting that Sika deer in these populations, unlike those in Japan, do not pose a significant zoonotic threat for hepatitis E. However, the new method developed for collecting and eluting the samples should prove useful for field studies of many other pathogens. PMID:17336401

77 FR 26773 - Agency Information Collection Activities: Proposed Collection; Comment Request

Federal Register 2010, 2011, 2012, 2013, 2014

2012-05-07

... enhanced and standard data collection and a longitudinal cohort design, and will include a comparative study to assess the effectiveness of HTI relative to a similar sample of young persons who did not... total hourly cost of the study. Summary Burden Table Average annual Average 3-year Number of number...

Harpoon-based sample Acquisition System

NASA Astrophysics Data System (ADS)

Bernal, Javier; Nuth, Joseph; Wegel, Donald

2012-02-01

Acquiring information about the composition of comets, asteroids, and other near Earth objects is very important because they may contain the primordial ooze of the solar system and the origins of life on Earth. Sending a spacecraft is the obvious answer, but once it gets there it needs to collect and analyze samples. Conceptually, a drill or a shovel would work, but both require something extra to anchor it to the comet, adding to the cost and complexity of the spacecraft. Since comets and asteroids are very low gravity objects, drilling becomes a problem. If you do not provide a grappling mechanism, the drill would push the spacecraft off the surface. Harpoons have been proposed as grappling mechanisms in the past and are currently flying on missions such as ROSETTA. We propose to use a hollow, core sampling harpoon, to act as the anchoring mechanism as well as the sample collecting device. By combining these two functions, mass is reduced, more samples can be collected and the spacecraft can carry more propellant. Although challenging, returning the collected samples to Earth allows them to be analyzed in laboratories with much greater detail than possible on a spacecraft. Also, bringing the samples back to Earth allows future generations to study them.

Mycobacterium avium subsp. avium in lymph nodes and diaphragms of pigs from one infected herd in the Czech Republic.

PubMed

Kriz, Petr; Kaevska, Marija; Slana, Iva; Bartejsova, Iva; Pavlik, Ivo

2014-01-01

This study was performed on 40 finished pigs from one herd naturally infected with Mycobacterium avium subsp. avium. The aim was to investigate the presence and amount of M. a. avium in samples of lymph nodes and diaphragm tissues collected during routine postmortem inspection using the triplex quantitative real time PCR (qPCR) method. We collected, in total, 107 samples: various lymph nodes affected by gross tuberculosis (TB)-like lesions from 17 pig carcasses, as well as samples of head and mesenteric lymph nodes from 23 carcasses without TB-like lesions. Samples of diaphragm tissues were collected from all carcasses. M. a. avium was detected in one or more tissue samples collected from half of the slaughtered pigs tested. Samples of diaphragm tissues of three pigs with detected TB-like lesions contained M. a. avium (10(2) to 10(3) cells per g of sample); the organism was not detected in diaphragm tissues from pigs without TB-like lesions. The qPCR method may be useful for quantification of M. a. avium in pigs for the purposes of foodborne risk assessment.

Pieces of Other Worlds - Extraterrestrial Samples for Education and Public Outreach

NASA Technical Reports Server (NTRS)

Allen, Carlton C.

2010-01-01

During the Year of the Solar System spacecraft from NASA and our international partners will encounter two comets; orbit the asteroid Vesta, continue to explore Mars with rovers, and launch robotic explorers to the Moon and Mars. We have pieces of all these worlds in our laboratories, and their continued study provides incredibly valuable "ground truth" to complement space exploration missions. Extensive information about these unique materials, as well as actual lunar samples and meteorites, are available for display and education. The Johnson Space Center (JSC) has the unique responsibility to curate NASA's extraterrestrial samples from past and future missions. Curation includes documentation, preservation, preparation, and distribution of samples for research, education, and public outreach. At the current time JSC curates six types of extraterrestrial samples: (1) Moon rocks and soils collected by the Apollo astronauts (2) Meteorites collected on US expeditions to Antarctica (including rocks from the Moon, Mars, and many asteroids including Vesta) (3) "Cosmic dust" (asteroid and comet particles) collected by high-altitude aircraft (4) Solar wind atoms collected by the Genesis spacecraft (5) Comet particles collected by the Stardust spacecraft (6) Interstellar dust particles collected by the Stardust spacecraft These rocks, soils, dust particles, and atoms continue to be studied intensively by scientists around the world. Descriptions of the samples, research results, thousands of photographs, and information on how to request research samples are on the JSC Curation website: http://curator.jsc.nasa.gov/ NASA provides a limited number of Moon rock samples for either short-term or long-term displays at museums, planetariums, expositions, and professional events that are open to the public. The JSC Public Affairs Office handles requests for such display samples. Requestors should apply in writing to Mr. Louis Parker, JSC Exhibits Manager. Mr. Parker will advise successful applicants regarding provisions for receipt, display, and return of the samples. All loans will be preceded by a signed loan agreement executed between NASA and the requestor's organization. Email address: louis.a.parker@nasa.gov Sets of twelve thin sections of Apollo lunar samples and sets of twelve thin sections of meteorites are available for short-term loan from JSC Curation. The thin sections are designed for use in college and university courses where petrographic microscopes are available for viewing. Requestors should contact the Ms. Mary Luckey, Education Sample Curator. Email address: mary.k.luckey@nasa.gov

California GAMA Program: Ground-Water Quality Data in the Northern San Joaquin Basin Study Unit, 2005

USGS Publications Warehouse

Bennett, George L.; Belitz, Kenneth; Milby Dawson, Barbara J.

2006-01-01

Growing concern over the closure of public-supply wells because of ground-water contamination has led the State Water Board to establish the Ground-Water Ambient Monitoring and Assessment (GAMA) Program. With the aid of the U.S. Geological Survey (USGS) and Lawrence Livermore National Laboratory, the program goals are to enhance understanding and provide a current assessment of ground-water quality in areas where ground water is an important source of drinking water. The Northern San Joaquin Basin GAMA study unit covers an area of approximately 2,079 square miles (mi2) across four hydrologic study areas in the San Joaquin Valley. The four study areas are the California Department of Water Resources (CADWR) defined Tracy subbasin, the CADWR-defined Eastern San Joaquin subbasin, the CADWR-defined Cosumnes subbasin, and the sedimentologically distinct USGS-defined Uplands study area, which includes portions of both the Cosumnes and Eastern San Joaquin subbasins. Seventy ground-water samples were collected from 64 public-supply, irrigation, domestic, and monitoring wells within the Northern San Joaquin Basin GAMA study unit. Thirty-two of these samples were collected in the Eastern San Joaquin Basin study area, 17 in the Tracy Basin study area, 10 in the Cosumnes Basin study area, and 11 in the Uplands Basin study area. Of the 32 samples collected in the Eastern San Joaquin Basin, 6 were collected using a depth-dependent sampling pump. This pump allows for the collection of samples from discrete depths within the pumping well. Two wells were chosen for depth-dependent sampling and three samples were collected at varying depths within each well. Over 350 water-quality field parameters, chemical constituents, and microbial constituents were analyzed and are reported as concentrations and as detection frequencies, by compound classification as well as for individual constituents, for the Northern San Joaquin Basin study unit as a whole and for each individual study area. Results are presented in a descending order based on detection frequencies (most frequently detected compound listed first), or alphabetically when a detection frequency could not be calculated. Only certain wells were measured for all constituents and water-quality parameters. The results of all of the analyses were compared with U.S. Environmental Protection Agency (USEPA) and California Department of Health Services (CADHS) Maximum Contaminant Levels (MCLs), Secondary Maximum Contaminant Levels (SMCLs), USEPA lifetime health advisories (HA-Ls), the risk-specific dose at a cancer risk level equal to 1 in 100,000 or 10E-5 (RSD5), and CADHS notification levels (NLs). When USEPA and CADHS MCLs are the same, detection levels were compared with the USEPA standard; however, in some cases, the CADHS MCL may be lower. In those cases, the data were compared with the CADHS MCL. Constituents listed by CADHS as 'unregulated chemicals for which monitoring is required' were compared with the CADHS 'detection level for the purposes of reporting' (DLR). DLRs unlike MCLs are not health based standards. Instead, they are levels at which current laboratory detection capabilities allow eighty percent of qualified laboratories to achieve measurements within thirty percent of the true concentration. Twenty-three volatile organic compounds (VOCs) and seven gasoline oxygenates were detected in ground-water samples collected in the Northern San Joaquin Basin GAMA study unit. Additionally, 13 tentatively identified compounds were detected. VOCs were most frequently detected in the Eastern San Joaquin Basin study area and least frequently detected in samples collected in the Cosumnes Basin study area. Dichlorodifluoromethane (CFC-12), a CADHS 'unregulated chemical for which monitoring is required,' was detected in two wells at concentrations greater than the DLR. Trihalomethanes were the most frequently detected class of VOC constituents. Chloroform (trichloromethane) was the m

Breath-collection device for delayed breath-alcohol analysis

DOT National Transportation Integrated Search

1980-12-01

The report includes the details of a study to develop, evaluate, and validate a breath collection device (BCD) for delayed breath-alcohol analysis. Primary applications of the BCD include collection of breath-alcohol samples for field surveys or for ...

Semen collection and ejaculate characteristics of the Leopard Tortoise (Stigmochelys pardalis)

PubMed Central

Mitchell, Mark A

2017-01-01

Abstract The preservation of spermatozoa is an important tool used in conservation programs to increase the genetic diversity of threatened and endangered species. Although routinely used to manage conservation programs for higher vertebrates, there have been limited attempts to establish reproductive assistance programs for tortoises. The purpose of this study was to develop a model for collecting and characterizing semen in Testudinidae. Semen was collected from 13/16 (81.2%, 95% CI: 62–100) adult male leopard tortoises (Stigmochelys pardalis) via electroejaculation under propofol anesthesia. Semen samples were collected most frequently after the second series of electrostimulations (6/13, 46.1%), with fewer animals producing semen after the first (5/13, 38.5%) or third (2/13, 15.4%) electrostimulations. The average volume of a semen sample in the tortoises was 0.26 ml (standard deviation: 0.16, minimum–maximum: 0.1–0.6), the average spermatozoal concentration was 101.62 × 106/ml, and the average motility at time of collection was 57.3%. A rapid decrease in motility was observed in refrigerated samples over 24 h resulting in a median motility of 0% at 24 h post-collection. The results of this study suggest that electroejaculation is a safe and efficient method for collecting semen from leopard tortoises. PMID:29230293

Dynamics of airborne fungal populations in a large office building

NASA Technical Reports Server (NTRS)

Burge, H. A.; Pierson, D. L.; Groves, T. O.; Strawn, K. F.; Mishra, S. K.

2000-01-01

The increasing concern with bioaerosols in large office buildings prompted this prospective study of airborne fungal concentrations in a newly constructed building on the Gulf coast. We collected volumetric culture plate air samples on 14 occasions over the 18-month period immediately following building occupancy. On each sampling occasion, we collected duplicate samples from three sites on three floors of this six-story building, and an outdoor sample. Fungal concentrations indoors were consistently below those outdoors, and no sample clearly indicated fungal contamination in the building, although visible growth appeared in the ventilation system during the course of the study. We conclude that modern mechanically ventilated buildings prevent the intrusion of most of the outdoor fungal aerosol, and that even relatively extensive air sampling protocols may not sufficiently document the microbial status of buildings.

NHEXAS PHASE I REGION 5 STUDY--STANDARD OPERATING PROCEDURE--HUMAN BIOLOGICAL MARKERS:BLOOD AND URINE SAMPLE COLLECTION AND ANALYSES (EOHSI-AP-209-040)

EPA Science Inventory

This procedure describes the process for collecting and analyzing blood and urine samples. The presence of chemical contaminants in biological specimens such as blood, urine, and hair represent a measure of the internal dose or body burden for a given individual derived from the ...

78 FR 27406 - Agency Information Collection Activities; Proposed Collection; Comment Request

Federal Register 2010, 2011, 2012, 2013, 2014

2013-05-10

... groups will be conducted with up to eight participants in each for a total sample size of 32. The second... determine eligibility for the pilot study to recruit a sample of 500 participants (50 from each clinical... participate in an in-depth, qualitative telephone interview for a total of 100 interviews. Finally, up to...

Host status of barley to Puccinia coronata from couch grass and P. striiformis from wheat and brome

USDA-ARS?s Scientific Manuscript database

The pathogenicity and identity of a field sample (PcE) of crown rust fungus Puccinia coronata collected in Hungary on wild couch grass (Elytrigia repens) and of a field sample (Psb) of stripe rust (P. striiformis) collected in the Netherlands on California brome (Bromus carinatus) was studied. We fo...

NHEXAS PHASE I ARIZONA STUDY--STANDARD OPERATING PROCEDURE FOR COLLECTION OF SURFACE WIPE SAMPLES FOR PESTICIDES OR METALS (UA-F-8.1)

EPA Science Inventory

The purpose of this SOP is to describe the procedures for collecting surface wipe samples inside a home for analysis of either metals or pesticides. This procedure covers the preparation of the surface wipe material and field activities. This protocol was followed to ensure con...

The collection of national trend data on alcohol related crashes for comparison with alcohol safety action projects results. Volume 1, National trend sample

DOT National Transportation Integrated Search

1977-07-01

To study the national trend in alcohol-related crashes, a sample of 14 states was selected, and monthly accident data were collected for each state for the years 1965 through 1975. Surrogate measures for alcohol-related crashes were chosen on the bas...

28 CFR 28.12 - Collection of DNA samples.

Code of Federal Regulations, 2010 CFR

2010-07-01

... 28 Judicial Administration 1 2010-07-01 2010-07-01 false Collection of DNA samples. 28.12 Section 28.12 Judicial Administration DEPARTMENT OF JUSTICE DNA IDENTIFICATION SYSTEM DNA Sample Collection, Analysis, and Indexing § 28.12 Collection of DNA samples. (a) The Bureau of Prisons shall collect a DNA...

28 CFR 28.12 - Collection of DNA samples.

Code of Federal Regulations, 2011 CFR

2011-07-01

... 28 Judicial Administration 1 2011-07-01 2011-07-01 false Collection of DNA samples. 28.12 Section 28.12 Judicial Administration DEPARTMENT OF JUSTICE DNA IDENTIFICATION SYSTEM DNA Sample Collection, Analysis, and Indexing § 28.12 Collection of DNA samples. (a) The Bureau of Prisons shall collect a DNA...

28 CFR 28.12 - Collection of DNA samples.

Code of Federal Regulations, 2012 CFR

2012-07-01

... 28 Judicial Administration 1 2012-07-01 2012-07-01 false Collection of DNA samples. 28.12 Section 28.12 Judicial Administration DEPARTMENT OF JUSTICE DNA IDENTIFICATION SYSTEM DNA Sample Collection, Analysis, and Indexing § 28.12 Collection of DNA samples. (a) The Bureau of Prisons shall collect a DNA...

28 CFR 28.12 - Collection of DNA samples.

Code of Federal Regulations, 2014 CFR

2014-07-01

... 28 Judicial Administration 1 2014-07-01 2014-07-01 false Collection of DNA samples. 28.12 Section 28.12 Judicial Administration DEPARTMENT OF JUSTICE DNA IDENTIFICATION SYSTEM DNA Sample Collection, Analysis, and Indexing § 28.12 Collection of DNA samples. (a) The Bureau of Prisons shall collect a DNA...

28 CFR 28.12 - Collection of DNA samples.

Code of Federal Regulations, 2013 CFR

2013-07-01

... 28 Judicial Administration 1 2013-07-01 2013-07-01 false Collection of DNA samples. 28.12 Section 28.12 Judicial Administration DEPARTMENT OF JUSTICE DNA IDENTIFICATION SYSTEM DNA Sample Collection, Analysis, and Indexing § 28.12 Collection of DNA samples. (a) The Bureau of Prisons shall collect a DNA...

Comparison of pesticides and other compounds in carpet dust samples collected from used vacuum cleaner bags and from a high-volume surface sampler.

PubMed Central

Colt, J S

1998-01-01

Epidemiologic studies of the association between residential pesticide use and cancer risk require an assessment of past pesticide exposures. Pesticide levels in carpet dust are believed to reflect long-term pesticide use. Recent epidemiologic studies have found collection of dust samples using the high-volume surface sampler (HVS3) to be expensive and cumbersome. We compared the levels of pesticides and other compounds in dust obtained from subjects' personal used vacuum cleaner bags to that collected by the HVS3 to see if this simpler method could replace the HVS3 in epidemiologic research. We visited the homes of 15 subjects, took the used bags from their vacuums, and collected carpet dust samples with the HVS3. The samples were analyzed for 42 target compounds: 26 pesticides, 10 polycyclic aromatic hydrocarbons (PAHs), and six polychlorinated biphenyl (PCB) congeners using GC/MS in selected ion monitoring mode. The two methods agreed in detecting the presence of the target compounds between 80% and 100% of the time. Neither sampling method was consistently more sensitive. The median target compound concentrations were similar, and a paired t-test showed no significant differences. For many compounds, the concentrations of compounds in the HVS3 samples were higher than those in the used bag samples at the upper end of the concentration ranges. However, the Spearman rank correlation coefficients were 0.85 or higher for most compounds, indicating that homes would be ranked similarly using both methods. Overall, there appears to be no clear difference in the quality of the pesticide, PAH, or PCB concentration data for the two dust collection methods. Images Figure 1 PMID:9799187

Aquatic macroinvertebrates collected at Ravenna Army Ammunition Plant, Portage and Trumbull Counties, Ohio, 1998

USGS Publications Warehouse

Tertuliani, John S.

1999-01-01

The results of a survey of macroinvertebrate communities in the Ravenna Army Ammunition Plant, were used as an indicator of disturbance in streams flowing through or near the training areas at the Plant. The data were interpreted using the Invertebrate Community Index (ICI), a multiple-metric index developed by the Ohio Environmental Protection Agency and based on the structural and functional characteristics of the macroinvertebrate community. Quantitative samples of the macroinvertebrate were collected for ICI determination from three streams South Fork Eagle Creek, Sand Creek, and Hinkley Creek flowing through the study area. These samples were collected using Hester-Dendy type artificial substrate samplers, which were placed in the streams during a 6-week sampling period, June 2 through July 15, 1998. A qualitative- dipnet sample from the natural substrates also was collected at each station on July 15, 1998, the last day of the sampling period. The macroinvertebrate communities at all three stations met the criterion designated for warmwater habitat aquatic life use, and communities at two of the three stations exceeded the criterion. The ICI scores were 42 at South Fork Eagle Creek, 50 at Sand Creek, and 48 at Hinkley Creek. The density of macroinvertebrates at South Fork Eagle Creek was 1,245 per square foot and represented 38 distinct taxa. The density at Sand Creek was 246 per square foot and represented 29 distinct taxa. The density at Hinkley Creek was 864 per square foot and represented 36 distinct taxa. Qualitative samples were also collected at 21 other sites using a D-framed dipnet. The qualitative sites encompassed three main environments: stream, pond, and swamp-wetland. All available habitat types in each environment were sampled until no new taxa were evident during coarse examination. The highest number of taxa were collected from the streams. The total number of taxa collected in streams ranged from 25 to 76; the mean was 60 and median 64. The total taxa collected from ponds ranged from 32 to 60; the mean was 42 and median 41. The total taxa collected from swamp-wetland areas ranged from 6 to 30; the mean was 20 and median 23. The results are listed in phylogenetic order in this report and establish baseline data for future studies.

Counselors' Collective Self-Esteem Mediates Job Dissatisfaction and Client Relationships

ERIC Educational Resources Information Center

Yu, Kumlan; Lee, Sang-Hee; Lee, Sang Min

2007-01-01

Given the central role of professional identity (i.e., collective self-esteem in this study), the authors examined whether collective self-esteem mediated or moderated relations between job dissatisfaction and client relationships in a sample of 132 professional counselors in the United States. Results indicated that collective self-esteem…

The forensiX evidence collection tube and its impact on DNA preservation and recovery.

PubMed

Garvin, Alex M; Holzinger, Ralf; Berner, Florian; Krebs, Walter; Hostettler, Bernhard; Lardi, Elges; Hertli, Christian; Quartermaine, Roy; Stamm, Christoph

2013-01-01

Biological samples are vulnerable to degradation from the time they are collected until they are analysed at the laboratory. Biological contaminants, such as bacteria, fungi, and enzymes, as well as environmental factors, such as sunlight, heat, and humidity, can increase the rate of DNA degradation. Currently, DNA samples are normally dried or frozen to limit their degradation prior to their arrival at the laboratory. In this study, the effect of the sample drying rate on DNA preservation was investigated, as well as a comparison between drying and freezing methods. The drying performances of two commercially available DNA collection tools (swab and drying tube) with different drying rates were evaluated. The swabs were used to collect human saliva, placed into the drying tubes, and stored in a controlled environment at 25°C and 60% relative humidity, or frozen at -20°C, for 2 weeks. Swabs that were stored in fast sample drying tubes yielded 95% recoverable DNA, whereas swabs stored in tubes with slower sample drying rates yielded only 12% recoverable DNA; saliva stored in a microtube at -20°C was used as a control. Thus, DNA sampling tools that offer rapid drying can significantly improve the preservation of DNA collected on a swab, increasing the quantity of DNA available for subsequent analysis.

NHEXAS PHASE I ARIZONA STUDY--STANDARD OPERATING PROCEDURE FOR COLLECTION, STORAGE AND SHIPMENT OF DRINKING AND TAP WATER SAMPLES FOR PESTICIDES (EPA 225.2) AND CARBARYL (EPA 531.1) (UA-F-17.1)

EPA Science Inventory

The purpose of this SOP is to describe how to collect, store, and ship tap and drinking water samples for analysis by EPA Method 525.2 (revision 1.0) and EPA method 531.1 (revision 3) for the NHEXAS Arizona project. This SOP provides a brief description of the sample containers,...

Effect of temperature on the breakthrough of a charcoal tube during vinyl chloride monomer sampling.

PubMed

Roh, J; Park, Y J; Kim, C N; Lim, N G; Lee, S H; Song, J S; Won, J U; Talaska, G

2000-01-01

This study evaluated the effects of temperature on breakthrough of two standard collection media at various concentrations during vinyl chloride monomer (VCM) sampling. The National Institute for Occupational Safety and Health (NIOSH) and Occupational Safety and Health Administration (OSHA) methods were evaluated. To determine whether breakthrough of VCM would occur at the extremes of exposure and temperature that might be encountered in some workplaces, air samples containing 4 ppm (10.24 mg/m3), 8 ppm (20.45 mg/m3), 16 ppm (40.98 mg/m3), and 32 ppm (81.80 mg/m3) of VCM were collected at temperatures of 4, 22, and 40 degrees C. Five liters of air was sampled at the rate of 0.05 L/min for 100 min using the activated charcoal tube recommended by NIOSH. A second tube was added to the sampling train to collect any VCM that might not have been absorbed in the first tube. To collect VCM air samples by the OSHA method, two carbon molecular sieve tubes were connected serially and 3 L of air was sampled at the rate of 0.05 L/min for 60 min. A gas chromatograph with a flame ionization detector and ultra 2 capillary column was used to analyze VCM. Significant breakthrough was found when sampling at higher temperatures with the NIOSH method. No breakthrough was found when samples were collected using the OSHA media at different temperatures and concentrations. Therefore, under hot ambient conditions (>22 degrees C), the possibility of breakthrough should be considered when sampling VCM by the NIOSH method.

Factors associated with number of duodenal samples obtained in suspected celiac disease.

PubMed

Shamban, Leonid; Sorser, Serge; Naydin, Stan; Lebwohl, Benjamin; Shukr, Mousa; Wiemann, Charlotte; Yevsyukov, Daniel; Piper, Michael H; Warren, Bradley; Green, Peter H R

2017-12-01

 Many people with celiac disease are undiagnosed and there is evidence that insufficient duodenal samples may contribute to underdiagnosis. The aims of this study were to investigate whether more samples leads to a greater likelihood of a diagnosis of celiac disease and to elucidate factors that influence the number of samples collected.  We identified patients from two community hospitals who were undergoing duodenal biopsy for indications (as identified by International Classification of Diseases code) compatible with possible celiac disease. Three cohorts were evaluated: no celiac disease (NCD, normal villi), celiac disease (villous atrophy, Marsh score 3), and possible celiac disease (PCD, Marsh score < 3). Endoscopic features, indication, setting, trainee presence, and patient demographic details were evaluated for their role in sample collection.  5997 patients met the inclusion criteria. Patients with a final diagnosis of celiac disease had a median of 4 specimens collected. The percentage of patients diagnosed with celiac disease with one sample was 0.3 % compared with 12.8 % of those with six samples ( P  = 0.001). Patient factors that positively correlated with the number of samples collected were endoscopic features, demographic details, and indication ( P  = 0.001). Endoscopist factors that positively correlated with the number of samples collected were absence of a trainee, pediatric gastroenterologist, and outpatient setting ( P  < 0.001).  Histological diagnosis of celiac disease significantly increased with six samples. Multiple factors influenced whether adequate biopsies were taken. Adherence to guidelines may increase the diagnosis rate of celiac disease.

Perchlorate Data for Streams and Groundwater in Selected Areas of the United States, 2004

USGS Publications Warehouse

Kalkhoff, Stephen J.; Stetson, Sarah J.; Lund, Kris D.; Wanty, Richard B.; Linder, Gregory L.

2010-01-01

This report presents data collected as part of a reconnaissance study to evaluate the occurrence of perchlorate in rivers and streams and in shallow aquifers in selected areas of the United States. Perchlorate, a component in rocket fuels, fireworks, and some explosives is soluble in water and persists in soils and water for long periods. It is biologically active at relatively low-levels in the environment, and has been identified as an endocrine-disrupting chemical. The purpose of this reconnaissance was to determine the occurrence of perchlorate in agricultural areas of the Midwestern and North-Central United States and in arid Central and Western parts of the United States. Samples were collected from 171 sites on rivers and streams and 146 sites from wells during the summer and early fall of 2004. Samples were collected from surface-water sites in 19 states and from wells in 5 states. Perchlorate was detected in samples collected in 15 states and was detected in 34 of 182 samples from rivers and streams and in 64 of 148 groundwater samples at concentrations equal to or greater than 0.4 micrograms per liter. Perchlorate concentrations were 1.0 micrograms per liter or greater in surface-water samples from seven states and in groundwater samples in four states. Only one surface-water and one groundwater sample had concentrations greater than 5.0 micrograms per liter. Perchlorate concentrations in followup samples collected from 1 to 3 months after the initial sample were unchanged at four of five stream sites.

COMPARISON OF SAMPLING TECHNIQUES USED IN STUDYING LEPIDOPTERA POPULATION DYNAMICS

EPA Science Inventory

Four methods (light traps, foliage samples, canvas bands, and gypsy moth egg mass surveys) that are used to study the population dynamics of foliage-feeding Lepidoptera were compared for 10 species, including gypsy moth, Lymantria dispar L. Samples were collected weekly at 12 sit...

Reconnaissance evaluation of surface-water quality in Eagle, Grand, Jackson, Pitkin, Routt, and Summit counties, Colorado

USGS Publications Warehouse

Britton, Linda J.

1979-01-01

Water-quality data were collected from streams in a six-county area in northwest Colorado to determine if the streams were polluted and, if so, to determine the sources of the pollution. Eighty-three stream sites were selected for sampling in Eagle, Grand, Jackson, Pitkin, Routt, and Summit Counties. A summary of data collected prior to this study, results of current chemical and biological sampling, and needs for future water-quality monitoring are reported for each county. Data collected at selected sites included temperature, pH, specific conductance, dissolved oxygen, and stream discharge. Chemical data collected included nutrients, inorganics, organics, and trace elements. Biological data collected included counts and species composition of total and fecal-coliform bacteria, fecal-streptococcus bacteria, benthic invertebrates, and phytoplankton. Most of the sites were sampled three times: in April-June 1976, August 1976, and January 1977. (Woodard-USGS)

Surface-water-quality assessment of the Kentucky River Basin, Kentucky; fixed-station network and selected water-quality data, April 1987 through August 1991

USGS Publications Warehouse

Griffin, M.S.; Martin, G.R.; White, K.D.

1994-01-01

This report describes selected data-collection activities and the associated data collected during the Kentucky River Basin pilot study of the U.S. Geological Survey's National Water-Quality Assessment Program. The data are intended to provide a nationally consistent description and improved understanding of current water quality in the basin. The data were collected at seven fixed stations that represent stream cross sections where constituent transport and water-quality trends can be evaluated. The report includes descriptions of (1) the basin; (2) the design of the fixed-station network; (3) the fixed-station sites; (4) the physical and chemical measurements; (5) the methods of sample collection, processing, and analysis; and (6) the quality-assurance and quality-control procedures. Water-quality data collected at the fixed stations during routine periodic sampling and supplemental high-flow sampling from April 1987 to August 1991 are presented.

Preserving, Enhancing, and Continuing the Scientific Legacy of the Apollo Sample Suite

NASA Astrophysics Data System (ADS)

Zeigler, R. A.; Evans, C. A.; Lehnert, K.; Cai, Y.; Todd, N. S.

2016-12-01

From 1969 to 1972, Apollo astronauts collected 382 kg of rocks, soils, and core samples from six geologically diverse locations on the Moon. In the nearly 50 years since the samples were collected, over 3000 different studies have been conducted using the nearly 2200 different Apollo samples. Despite the maturity of the sample collection, many new studies of lunar samples are undertaken each year, with an average of >55 requests and >600 distinct subsamples allocated annually over the past five years. The Apollo samples are a finite resource, however. Although new studies are encouraged, it is important that new studies do not duplicate previous studies, and where possible, leverage previous results to inform and enhance the current studies. This helps to preserve the samples and scientific funding, both of which are precious resources. We have initiated several new efforts to rescue some of the early analyses from these samples, including unpublished analytical data. We are actively scanning NASA documentation in paper form that is related to the Apollo missions and sample processing, and we are collaborating with IEDA to establish a geochemical data base called MoonDB. To populate this database, we are actively working with about a dozen prominent lunar PIs to organize and transcribe years of both published and unpublished data, making it available to all researchers. This effort will also take advantage of new online analytical tools like PetDB. There have already been tangible results from the MoonDB data rescue effort. A pilot project involving the rescue of geochemical data of John Delano on Apollo pyroclastic glasses has already been referenced in multiple Apollo sample requests, and in fact, the compiled data was used as part of one of the new studies. Similarly, scanned sample handling reports have been utilized to find previously analyzed samples that were appropriate to fulfill new sample requests. We have also begun to image the Apollo samples using (1) micro-CT scanning to document the interior structure of samples, and (2) comprehensive high resolution photography of samples, enabling high resolution 3D reconstructions of the samples. Both efforts will provide comprehensive access to these samples and allow for more targeted requests, and thus better curation of the samples for decades to come.

Preserving, Enhancing, and Continuing the Scientific Legacy of the Apollo Sample Suite

NASA Technical Reports Server (NTRS)

Zeigler, Ryan; Evans, Cindy; Cai, Yue; Lehnert, Kerstin; Todd, Nancy; Blumenfeld, Erika

2016-01-01

From 1969 to 1972, Apollo astronauts collected 382 kg of rocks, soils, and core samples from six geologically diverse locations on the Moon. In the nearly 50 years since the samples were collected, over 3000 different studies have been conducted using the nearly 2200 different Apollo samples. Despite the maturity of the sample collection, many new studies of lunar samples are undertaken each year, with an average of more than 55 requests and more than 600 distinct subsamples allocated annually over the past five years. The Apollo samples are a finite resource, however. Although new studies are encouraged, it is important that new studies do not duplicate previous studies, and where possible, leverage previous results to inform and enhance the current studies. This helps to preserve the samples and scientific funding, both of which are precious resources. We have initiated several new efforts to rescue some of the early analyses from these samples, including unpublished analytical data. We are actively scanning NASA documentation in paper form that is related to the Apollo missions and sample processing, and we are collaborating with IEDA to establish a geochemical data base called MoonDB. To populate this database, we are actively working with about a dozen prominent lunar PIs to organize and transcribe years of both published and unpublished data, making it available to all researchers. This effort will also take advantage of new online analytical tools like PetDB. There have already been tangible results from the MoonDB data rescue effort. A pilot project involving the rescue of geochemical data of John Delano on Apollo pyroclastic glasses has already been referenced in multiple Apollo sample requests, and in fact, the compiled data was used as part of one of the new studies. Similarly, scanned sample handling reports have been utilized to find previously analyzed samples that were appropriate to fulfill new sample requests. We have also begun to image the Apollo samples using (1) micro-CT scanning to document the interior structure of samples, and (2) comprehensive high resolution photography of samples, enabling high resolution 3D reconstructions of the samples. Both efforts will provide comprehensive access to these samples and allow for more targeted requests, and thus better curation of the samples for decades to come.

Extraterrestrial Materials: The Role of Synchrotron Radiation Analyses in the Study of Our Solar System

ScienceCinema

Sutton, Stephen R. [University of Chicago, Chicago, Illinois, United States

2017-12-09

Sample-return missions and natural collection processes have provided us with a surprisingly extensive collection of matter from Solar System bodies other than the Earth. These collections include samples from the Moon, Mars, asteroids, interplanetary dust, and, recently, from the Sun (solar wind) and a comet. This presentation will describe some of these materials, how they were collected, and what we have learned from them. Synchrotron radiation analyses of these materials are playing an increasingly valuable role in unraveling the histories and properities of the parent Solar System bodies.

Accuracy of human papillomavirus testing on self-collected versus clinician-collected samples: a meta-analysis.

PubMed

Arbyn, Marc; Verdoodt, Freija; Snijders, Peter J F; Verhoef, Viola M J; Suonio, Eero; Dillner, Lena; Minozzi, Silvia; Bellisario, Cristina; Banzi, Rita; Zhao, Fang-Hui; Hillemanns, Peter; Anttila, Ahti

2014-02-01

Screening for human papillomavirus (HPV) infection is more effective in reducing the incidence of cervical cancer than screening using Pap smears. Moreover, HPV testing can be done on a vaginal sample self-taken by a woman, which offers an opportunity to improve screening coverage. However, the clinical accuracy of HPV testing on self-samples is not well-known. We assessed whether HPV testing on self-collected samples is equivalent to HPV testing on samples collected by clinicians. We identified relevant studies through a search of PubMed, Embase, and CENTRAL. Studies were eligible for inclusion if they fulfilled all of the following selection criteria: a cervical cell sample was self-collected by a woman followed by a sample taken by a clinician; a high-risk HPV test was done on the self-sample (index test) and HPV-testing or cytological interpretation was done on the specimen collected by the clinician (comparator tests); and the presence or absence of cervical intraepithelial neoplasia grade 2 (CIN2) or worse was verified by colposcopy and biopsy in all enrolled women or in women with one or more positive tests. The absolute accuracy for finding CIN2 or worse, or CIN grade 3 (CIN3) or worse of the index and comparator tests as well as the relative accuracy of the index versus the comparator tests were pooled using bivariate normal models and random effect models. We included data from 36 studies, which altogether enrolled 154 556 women. The absolute accuracy varied by clinical setting. In the context of screening, HPV testing on self-samples detected, on average, 76% (95% CI 69-82) of CIN2 or worse and 84% (72-92) of CIN3 or worse. The pooled absolute specificity to exclude CIN2 or worse was 86% (83-89) and 87% (84-90) to exclude CIN3 or worse. The variation of the relative accuracy of HPV testing on self-samples compared with tests on clinician-taken samples was low across settings, enabling pooling of the relative accuracy over all studies. The pooled sensitivity of HPV testing on self-samples was lower than HPV testing on a clinician-taken sample (ratio 0·88 [95% CI 0·85-0·91] for CIN2 or worse and 0·89 [0·83-0·96] for CIN3 or worse). Also specificity was lower in self-samples versus clinician-taken samples (ratio 0·96 [0·95-0·97] for CIN2 or worse and 0·96 [0·93-0·99] for CIN3 or worse). HPV testing with signal-based assays on self-samples was less sensitive and specific than testing on clinician-based samples. By contrast, some PCR-based HPV tests generally showed similar sensitivity on both self-samples and clinician-based samples. In screening programmes using signal-based assays, sampling by a clinician should be recommended. However, HPV testing on a self-sample can be suggested as an additional strategy to reach women not participating in the regular screening programme. Some PCR-based HPV tests could be considered for routine screening after careful piloting assessing feasibility, logistics, population compliance, and costs. The 7th Framework Programme of the European Commission, the Belgian Foundation against Cancer, the International Agency for Research on Cancer, and the German Guideline Program in Oncology. Copyright © 2014 Elsevier Ltd. All rights reserved.

Tank vapor characterization project. Headspace vapor characterization of Hanford waste tank 241-BY-108: Second comparison study results from samples collected on 3/28/96

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

Thomas, B.L.; Pool, K.H.; Evans, J.C.

1997-01-01

This report describes the analytical results of vapor samples taken from the headspace of waste storage tank 241-BY-108 (Tank BY-108) at the Hanford Site in Washington State. The results described in this report is the second in a series comparing vapor sampling of the tank headspace using the Vapor Sampling System (VSS) and In Situ Vapor Sampling (ISVS) system without high efficiency particulate air (HEPA) prefiltration. The results include air concentrations of water (H{sub 2}O) and ammonia (NH{sub 3}), permanent gases, total non-methane organic compounds (TO-12), and individual organic analytes collected in SUMMA{trademark} canisters and on triple sorbent traps (TSTs).more » Samples were collected by Westinghouse Hanford Company (WHC) and analyzed by Pacific Northwest National Laboratory (PNNL). Analyses were performed by the Vapor Analytical Laboratory (VAL) at PNNL. Analyte concentrations were based on analytical results and, where appropriate, sample volume measurements provided by WHC.« less

Evaluation of passive samplers for the collection of dissolved organic matter in streams.

PubMed

Warner, Daniel L; Oviedo-Vargas, Diana; Royer, Todd V

2015-01-01

Traditional sampling methods for dissolved organic matter (DOM) in streams limit opportunities for long-term studies due to time and cost constraints. Passive DOM samplers were constructed following a design proposed previously which utilizes diethylaminoethyl (DEAE) cellulose as a sampling medium, and they were deployed throughout a temperate stream network in Indiana. Two deployments of the passive samplers were conducted, during which grab samples were frequently collected for comparison. Differences in DOM quality between sites and sampling methods were assessed using several common optical analyses. The analyses revealed significant differences in optical properties between sampling methods, with the passive samplers preferentially collecting terrestrial, humic-like DOM. We assert that the differences in DOM composition from each sampling method were caused by preferential binding of complex humic compounds to the DEAE cellulose in the passive samplers. Nonetheless, the passive samplers may provide a cost-effective, integrated sample of DOM in situations where the bulk DOM pool is composed mainly of terrestrial, humic-like compounds.

Rotavirus vaccine strain transmission by vaccinated infants in the foster home.

PubMed

Miura, Hiroki; Kawamura, Yoshiki; Sugata, Ken; Koshiyama, Nozomi; Yoshikawa, Akiko; Komoto, Satoshi; Taniguchi, Koki; Ihira, Masaru; Yoshikawa, Tetsushi

2017-01-01

Previous studies have demonstrated the transmission of rotavirus vaccine strains from vaccinated children to nonvaccinated siblings. We sought to fully elucidate the safety of rotavirus (RV) vaccination in closed contact circumstance, such as the foster home for future assessment of the vaccine safety in an neonatal intensive care unit. Stool samples were collected from 4 RV vaccinated (160 samples) and 23 unvaccinated (766 samples) infants. RV viral RNA loads were measured using real-time reverse transcription polymerase chain reaction (RT-PCR). RV vaccine strain RNA was persistently detected in stool samples collected from the four vaccine recipients and one unvaccinated infant, but not in the stool samples collected from the 22 other unvaccinated infants. The unvaccinated infant who tested positive for the RV vaccine strain was vaccinated prior to enrollment in this study. The quantitative real-time RT-PCR data revealed a peak viral RNA load 1 week after vaccination followed by a gradual decrease. The current study suggests that RV vaccination may be safe in a close contact environment because there was limited transmission from RV vaccinated to unvaccinated infants. J. Med. Virol. 89:79-84, 2017. © 2016 Wiley Periodicals, Inc. © 2016 Wiley Periodicals, Inc.

Application of the high throughput Attagene Factorial TM ...

EPA Pesticide Factsheets

Bioassays can be employed to evaluate the integrated effects of complex mixtures of both known and unidentified contaminants present in environmental samples. However, such methods have typically focused on one or a few pathways despite the fact that the chemicals in a mixture may exhibit a wide range of activities. High throughput toxicology approaches that can rapidly screen samples for a broad diversity of biological activities offer a means to provide a more comprehensive characterization of complex mixtures. To test this concept, twenty-four ambient water samples were collected, extracted, and screened for their ability to interact with or modulate over 80 different transcription factors using the Attagene FactorialTM platform utilized by the US EPA’s ToxCast Program. Samples evaluated included 10 water samples collected in varying proximity to a wastewater discharge into the St. Louis River, MN; water collected at five sites along a gradient centered on a wastewater discharge into the Maumee River, Ohio, USA; and eight samples collected in association with a nation-wide USGS surface streams study. For samples collected along the St. Louis River, the greatest number of biological activities were observed at locations closest to wastewater discharge with up to 13 endpoints responding. The Maumee River showed a gradient response in the number of observed activities, ranging from three positive responses observed far upstream of a wastewater discharge to 10

Bed-material characteristics of the Sacramento–San Joaquin Delta, California, 2010–13

USGS Publications Warehouse

Marineau, Mathieu D.; Wright, Scott A.

2017-02-10

The characteristics of bed material at selected sites within the Sacramento–San Joaquin Delta, California, during 2010–13 are described in a study conducted by the U.S. Geological Survey in cooperation with the Bureau of Reclamation. During 2010‒13, six complete sets of samples were collected. Samples were initially collected at 30 sites; however, starting in 2012, samples were collected at 7 additional sites. These sites are generally collocated with an active streamgage. At all but one site, a separate bed-material sample was collected at three locations within the channel (left, right, and center). Bed-material samples were collected using either a US BMH–60 or a US BM–54 (for sites with higher stream velocity) cable-suspended, scoop sampler. Samples from each location were oven-dried and sieved. Bed material finer than 2 millimeters was subsampled using a sieving riffler and processed using a Beckman Coulter LS 13–320 laser diffraction particle-size analyzer. To determine the organic content of the bed material, the loss on ignition method was used for one subsample from each location. Particle-size distributions are presented as cumulative percent finer than a given size. Median and 90th-percentile particle size, and the percentage of subsample mass lost using the loss on ignition method for each sample are also presented in this report.

Results of the Chemical and Isotopic Analyses of Sediment and Ground Water from Alluvium of the Canadian River Near a Closed Municipal Landfill, Norman, Oklahoma, Part 2

USGS Publications Warehouse

Breit, George N.; Tuttle, Michele L.W.; Cozzarelli, Isabelle M.; Berry, Cyrus J.; Christenson, Scott C.; Jaeschke, Jeanne B.

2008-01-01

Analytical results on sediment and associated ground water from the Canadian River alluvium collected subsequent to those described in Breit and others (2005) are presented in this report. The data presented herein were collected primarily to evaluate the iron and sulfur species within the sediment at well sites IC 36, IC 54, and IC South located at the USGS Norman Landfill study site. Cored sediment and water samples were collected during October 2004 and April 2005. The 52 sediment samples collected by coring were analyzed to determine grain size, the abundance of extractable iron species, and the abundance of sulfur forms and their isotopic compositions. Ground water was collected from cluster wells that sampled ground water from 11 to 15 screened intervals at each of the three sites. The depth range of the wells overlapped the interval of cored sediment. Concentrations of major ions, dissolved organic carbon (DOC), ammonium, and iron are reported with pH, specific conductance, and the isotopic composition of the water for the 75 water samples analyzed. Dissolved sulfate in selected water samples was analyzed to determine its sulfur and oxygen isotope composition.

Assessment of microbiological quality of drinking water from household tanks in Bermuda.

PubMed

Lévesque, B; Pereg, D; Watkinson, E; Maguire, J S; Bissonnette, L; Gingras, S; Rouja, P; Bergeron, M G; Dewailly, E

2008-06-01

Bermuda residents collect rainwater from rooftops to fulfil their freshwater needs. The objective of this study was to assess the microbiological quality of drinking water in household tanks throughout Bermuda. The tanks surveyed were selected randomly from the electoral register. Governmental officers visited the selected household (n = 102) to collect water samples and administer a short questionnaire about the tank characteristics, the residents' habits in terms of water use, and general information on the water collecting system and its maintenance. At the same time, water samples were collected for analysis and total coliforms and Escherichia coli were determined by 2 methods (membrane filtration and culture on chromogenic media, Colilert kit). Results from the 2 methods were highly correlated and showed that approximately 90% of the samples analysed were contaminated with total coliforms in concentrations exceeding 10 CFU/100 mL, and approximately 66% of samples showed contamination with E. coli. Tank cleaning in the year prior to sampling seems to protect against water contamination. If rainwater collection from roofs is the most efficient mean for providing freshwater to Bermudians, it must not be considered a source of high quality drinking water because of the high levels of microbial contamination.

Filter forensics: microbiota recovery from residential HVAC filters.

PubMed

Maestre, Juan P; Jennings, Wiley; Wylie, Dennis; Horner, Sharon D; Siegel, Jeffrey; Kinney, Kerry A

2018-01-30

Establishing reliable methods for assessing the microbiome within the built environment is critical for understanding the impact of biological exposures on human health. High-throughput DNA sequencing of dust samples provides valuable insights into the microbiome present in human-occupied spaces. However, the effect that different sampling methods have on the microbial community recovered from dust samples is not well understood across sample types. Heating, ventilation, and air conditioning (HVAC) filters hold promise as long-term, spatially integrated, high volume samplers to characterize the airborne microbiome in homes and other climate-controlled spaces. In this study, the effect that dust recovery method (i.e., cut and elution, swabbing, or vacuuming) has on the microbial community structure, membership, and repeatability inferred by Illumina sequencing was evaluated. The results indicate that vacuum samples captured higher quantities of total, bacterial, and fungal DNA than swab or cut samples. Repeated swab and vacuum samples collected from the same filter were less variable than cut samples with respect to both quantitative DNA recovery and bacterial community structure. Vacuum samples captured substantially greater bacterial diversity than the other methods, whereas fungal diversity was similar across all three methods. Vacuum and swab samples of HVAC filter dust were repeatable and generally superior to cut samples. Nevertheless, the contribution of environmental and human sources to the bacterial and fungal communities recovered via each sampling method was generally consistent across the methods investigated. Dust recovery methodologies have been shown to affect the recovery, repeatability, structure, and membership of microbial communities recovered from dust samples in the built environment. The results of this study are directly applicable to indoor microbiota studies utilizing the filter forensics approach. More broadly, this study provides a better understanding of the microbial community variability attributable to sampling methodology and helps inform interpretation of data collected from other types of dust samples collected from indoor environments.

Long-Range Transport of Perchlorate Observed in the Atmospheric Aerosols Collected at Okinawa Island, Japan

NASA Astrophysics Data System (ADS)

Handa, D.; Okada, K.; Kuroki, Y.; Nakama, Y.; Nakajima, H.; Arakaki, T.; Tanahara, A.; Oomori, T.; Miyagi, T.; Kadena, H.; Ishizaki, T.; Nakama, F.

2007-12-01

The study of perchlorate has become quite active in the U.S. in the last several years. Perchlorate has been recognized as a new environmental pollutant and it attracted much attention quickly in the world. The health concern about perchlorate stems from the fact that it displaces iodide in the thyroid gland, while iodine-containing thyroid hormones are essential for proper neural development from the fetal stage through the first years of life. In this study, we determined the concentrations of perchlorate ion present in the atmospheric aerosols collected in Okinawa Island, Japan. We then examined the relationships between the perchlorate concentrations and the environmental parameters and the climatic conditions peculiar to Okinawa. Bulk aerosol samples were collected on quartz filters by using a high volume air sampler at Cape Hedo Atmosphere and Aerosol Monitoring Station (CHAAMS). Each sampling duration was one week. The quartz filters with aerosols were stirred with Milli-Q pure water for three hours before perchlorate ion was extracted. The extracted perchlorate ion concentrations were determined by ion chromatography (ICS-2000, DIONEX). The mean perchlorate concentration for the samples collected at CHAAMS was 1.83 ng/m3, and the minimum was 0.18 ng/m3. The samples collected during November 21-27, 2005, January 23-30, 2006 and April 24-01, 2006 had highest perchlorate concentrations. For these three samples, we performed back trajectory analysis, and found that the air mass for the three samples arrived from the Asian continent. A relatively strong correlation (r2 = 0.55) was found between perchlorate and nss-sulfate concentrations for the CHAAMS samples. Furthermore, we analyzed perchlorate in the soils and the fertilizers used for sugar cane farming around the CHAAMS area. The Milli-Q extract of the soil and the fertilizers did not contain any detectable levels of perchlorate ions. Therefore, it was suggested that perchlorate found in the atmospheric aerosols collected at CHAAMS was probably transported from the Asian continent.

Mesh-size effects on drift sample composition as determined with a triple net sampler

USGS Publications Warehouse

Slack, K.V.; Tilley, L.J.; Kennelly, S.S.

1991-01-01

Nested nets of three different mesh apertures were used to study mesh-size effects on drift collected in a small mountain stream. The innermost, middle, and outermost nets had, respectively, 425 ??m, 209 ??m and 106 ??m openings, a design that reduced clogging while partitioning collections into three size groups. The open area of mesh in each net, from largest to smallest mesh opening, was 3.7, 5.7 and 8.0 times the area of the net mouth. Volumes of filtered water were determined with a flowmeter. The results are expressed as (1) drift retained by each net, (2) drift that would have been collected by a single net of given mesh size, and (3) the percentage of total drift (the sum of the catches from all three nets) that passed through the 425 ??m and 209 ??m nets. During a two day period in August 1986, Chironomidae larvae were dominant numerically in all 209 ??m and 106 ??m samples and midday 425 ??m samples. Large drifters (Ephemerellidae) occurred only in 425 ??m or 209 ??m nets, but the general pattern was an increase in abundance and number of taxa with decreasing mesh size. Relatively more individuals occurred in the larger mesh nets at night than during the day. The two larger mesh sizes retained 70% of the total sediment/detritus in the drift collections, and this decreased the rate of clogging of the 106 ??m net. If an objective of a sampling program is to compare drift density or drift rate between areas or sampling dates, the same mesh size should be used for all sample collection and processing. The mesh aperture used for drift collection should retain all species and life stages of significance in a study. The nested net design enables an investigator to test the adequacy of drift samples. ?? 1991 Kluwer Academic Publishers.

Preliminary geochemical assessment of water in selected streams, springs, and caves in the Upper Baker and Snake Creek drainages in Great Basin National Park, Nevada, 2009

USGS Publications Warehouse

Paul, Angela P.; Thodal, Carl E.; Baker, Gretchen M.; Lico, Michael S.; Prudic, David E.

2014-01-01

Water in caves, discharging from springs, and flowing in streams in the upper Baker and Snake Creek drainages are important natural resources in Great Basin National Park, Nevada. Water and rock samples were collected from 15 sites during February 2009 as part of a series of investigations evaluating the potential for water resource depletion in the park resulting from the current and proposed groundwater withdrawals. This report summarizes general geochemical characteristics of water samples collected from the upper Baker and Snake Creek drainages for eventual use in evaluating possible hydrologic connections between the streams and selected caves and springs discharging in limestone terrain within each watershed.Generally, water discharging from selected springs in the upper Baker and Snake Creek watersheds is relatively young and, in some cases, has similar chemical characteristics to water collected from associated streams. In the upper Baker Creek drainage, geochemical data suggest possible hydrologic connections between Baker Creek and selected springs and caves along it. The analytical results for water samples collected from Wheelers Deep and Model Caves show characteristics similar to those from Baker Creek, suggesting a hydrologic connection between the creek and caves, a finding previously documented by other researchers. Generally, geochemical evidence does not support a connection between water flowing in Pole Canyon Creek to that in Model Cave, at least not to any appreciable extent. The water sample collected from Rosethorn Spring had relatively high concentrations of many of the constituents sampled as part of this study. This finding was expected as the water from the spring travelled through alluvium prior to being discharged at the surface and, as a result, was provided the opportunity to interact with soil minerals with which it came into contact. Isotopic evidence does not preclude a connection between Baker Creek and the water discharging from Rosethorn Spring. The residence time of water discharging into the caves and from selected springs sampled as part of this study ranged from 10 to 25 years.Within the upper Snake Creek drainage, the results of this study show geochemical similarities between Snake Creek and Outhouse Spring, Spring Creek Spring, and Squirrel Spring Cave. The strontium isotope ratio (87Sr/86Sr) for intrusive rock samples representative of the Snake Creek drainage were similar to carbonate rock samples. The water sample collected from Snake Creek at the pipeline discharge point had lower strontium concentrations than the sample downstream and a similar 87Sr/86Sr value as the carbonate and intrusive rocks. The chemistry of the water sample was considered representative of upstream conditions in Snake Creek and indicates minimal influence of rock dissolution. The results of this study suggest that water discharging from Outlet Spring is not hydrologically connected to Snake Creek but rather is recharged at high altitude(s) within the Snake Creek drainage. These findings for Outlet Spring largely stem from the relatively high specific conductance and chloride concentration, the lightest deuterium (δD) and oxygen-18 (δ18O) values, and the longest calculated residence time (60 to 90 years) relative to any other sample collected as part of this study. With the exception of water sampled from Outlet Spring, the residence time of water discharging into Squirrel Spring Cave and selected springs in the upper Snake Creek drainage was less than 30 years.

Atrazine degradation in a small stream in Iowa

USGS Publications Warehouse

Kolpin, D.W.; Kalkhoff, S.J.

1993-01-01

A study was conducted during 1990 through an 11.2-km reach of Roberts Creek in northeastern Iowa to determine the fate of atrazine in a surface water environment Water samples were collected at ~1-month intervals from April through November during stable low to medium flow conditions and analyzed for atrazine and two of its initial biotic degradation products, desethylatrazine and deisopropylatrazine. Samples were collected on the basis of a Lagrangian model of streamflow in order to sample the same parcel of water as it moved downstream. Atrazine concentrations substantially decreased (roughly 25-60%) between water entering and exiting the study reach during four of the seven sampling periods. During these same four sampling periods, the concentrations of the two biotic atrazine degradation products were constant or decreasing downstream, suggesting an abiotic degradation process.

Evaluation of Equations for Predicting 24-Hour Urinary Sodium Excretion from Casual Urine Samples in Asian Adults.

PubMed

Whitton, Clare; Gay, Gibson Ming Wei; Lim, Raymond Boon Tar; Tan, Linda Wei Lin; Lim, Wei-Yen; van Dam, Rob M

2016-08-01

The collection of 24-h urine samples for the estimation of sodium intake is burdensome, and the utility of spot urine samples in Southeast Asian populations is unclear. We aimed to assess the validity of prediction equations with the use of spot urine concentrations. A sample of 144 Singapore residents of Chinese, Malay, and Indian ethnicity aged 18-79 y were recruited from the Singapore Health 2 Study conducted in 2014. Participants collected urine for 24 h in multiple small bottles on a single day. To determine the optimal collection time for a spot urine sample, a 1-mL sample was taken from a random bottle collected in the morning, afternoon, and evening. Published equations and a newly derived equation were used to predict 24-h sodium excretion from spot urine samples. The mean ± SD concentration of sodium from the 24-h urine sample was 125 ± 53.4 mmol/d, which is equivalent to 7.2 ± 3.1 g salt. Bland-Altman plots showed good agreement at the group level between estimated and actual 24-h sodium excretion, with biases for the morning period of -3.5 mmol (95% CI: -14.8, 7.8 mmol; new equation) and 1.46 mmol (95% CI: -10.0, 13.0 mmol; Intersalt equation). A larger bias of 25.7 mmol (95% CI: 12.2, 39.3 mmol) was observed for the Tanaka equation in the morning period. The prediction accuracy did not differ significantly for spot urine samples collected at different times of the day or at a random time of day (P = 0.11-0.76). This study suggests that the application of both our own newly derived equation and the Intersalt equation to spot urine concentrations may be useful in predicting group means for 24-h sodium excretion in urban Asian populations. © 2016 American Society for Nutrition.

Nanopipettes: probes for local sample analysis† †Electronic supplementary information (ESI) available. See DOI: 10.1039/c5sc00668f Click here for additional data file.

PubMed Central

Saha-Shah, Anumita; Weber, Anna E.; Karty, Jonathan A.; Ray, Steven J.; Hieftje, Gary M.

2015-01-01

Nanopipettes (pipettes with diameters <1 μm) were explored as pressure-driven fluid manipulation tools for sampling nanoliter volumes of fluids. The fundamental behavior of fluids confined in the narrow channels of the nanopipette shank was studied to optimize sampling volume and probe geometry. This method was utilized to collect nanoliter volumes (<10 nL) of sample from single Allium cepa cells and live Drosophila melanogaster first instar larvae. Matrix assisted laser desorption/ionization-mass spectrometry (MALDI-MS) was utilized to characterize the collected sample. The use of nanopipettes for surface sampling of mouse brain tissue sections was also explored. Lipid analyses were performed on mouse brain tissues with spatial resolution of sampling as small as 50 μm. Nanopipettes were shown to be a versatile tool that will find further application in studies of sample heterogeneity and population analysis for a wide range of samples. PMID:28706697

Aerosol measurements over the Pacific Ocean in support of the IR aerosol backscatter program

NASA Technical Reports Server (NTRS)

Prospero, Joseph M.; Savoie, Dennis L.

1995-01-01

The major efforts under NASA contract NAG8-841 included: (1) final analyses of the samples collected during the first GLOBE survey flight that occurred in November 1989 and collections and analysis of aerosol samples during the second GLOBE survey flight in May and June 1990. During the first GLOBE survey flight, daily samples were collected at four stations (Midway, Rarotonga, American Samoa, and Norfolk Island) throughout the month of November 1989. Weekly samples were collected at Shemya, Alaska, and at Karamea, New Zealand. During the second GLOBE survey flight, daily samples were collected at Midway, Oahu, American Samoa, Rarotonga, and Norfolk Island; weekly samples were collected at Shemya. These samples were all analyzed for sodium (sea-salt), chloride, nitrate, sulfate, and methanesulfonate at the University of Miami and for aluminum at the University of Rhode Island (under a subcontract). (2) Samples continued to be collected on a weekly basis at all stations during the periods between and after the survey flights. These weekly samples were also analyzed at the University of Miami for the suite of water-soluble species. (3) In August 1990, the results obtained from the above studies were submitted to the appropriate personnel at NASA Marshall Space Flight Center to become part of the GLOBE data base for comparison with data from instruments used aboard the aircraft. In addition, the data will be compared with data previously obtained at these stations as part of the Sea-Air Exchange (SEAREX) Program. This comparison will provide valuable information on the representativeness of the periods in terms of the longer term aerosol climatology over the Pacific Ocean. (4) Several publications have been written using data from this grant. The data will continue to be used in the future as part of a continuing investigation of the long-term trends and interannual variations in aerosol species concentrations over the Pacific Ocean.

Water-quality and biological data for selected streams, lakes, and wells in the High Point Lake watershed, Guilford County, North Carolina, 1988-89

USGS Publications Warehouse

Davenport, M.S.

1993-01-01

Water and bottom-sediment samples were collected at 26 sites in the 65-square-mile High Point Lake watershed area of Guilford County, North Carolina, from December 1988 through December 1989. Sampling locations included 10 stream sites, 8 lake sites, and 8 ground-water sites. Generally, six steady-flow samples were collected at each stream site and three storm samples were collected at five sites. Four lake samples and eight ground-water samples also were collected. Chemical analyses of stream and lake sediments and particle-size analyses of lake sediments were performed once during the study. Most stream and lake samples were analyzed for field characteristics, nutrients, major ions, trace elements, total organic carbon, and chemical-oxygen demand. Analyses were performed to detect concentrations of 149 selected organic compounds, including acid and base/neutral extractable and volatile constituents and carbamate, chlorophenoxy acid, triazine, organochlorine, and organophosphorus pesticides and herbicides. Selected lake samples were analyzed for all constituents listed in the Safe Drinking Water Act of 1986, including Giardia, Legionella, radiochemicals, asbestos, and viruses. Various chromatograms from organic analyses were submitted to computerized library searches. The results of these and all other analyses presented in this report are in tabular form.

Comparison of passive diffusion bag samplers and submersible pump sampling methods for monitoring volatile organic compounds in ground water at Area 6, Naval Air Station, Whidbey Island, Washington

USGS Publications Warehouse

Huffman, Raegan L.

2002-01-01

Ground-water samples were collected in April 1999 at Naval Air Station Whidbey Island, Washington, with passive diffusion samplers and a submersible pump to compare concentrations of volatile organic compounds (VOCs) in water samples collected using the two sampling methods. Single diffusion samplers were installed in wells with 10-foot screened intervals, and multiple diffusion samplers were installed in wells with 20- to 40-foot screened intervals. The diffusion samplers were recovered after 20 days and the wells were then sampled using a submersible pump. VOC concentrations in the 10-foot screened wells in water samples collected with diffusion samplers closely matched concentrations in samples collected with the submersible pump. Analysis of VOC concentrations in samples collected from the 20- to 40-foot screened wells with multiple diffusion samplers indicated vertical concentration variation within the screened interval, whereas the analysis of VOC concentrations in samples collected with the submersible pump indicated mixing during pumping. The results obtained using the two sampling methods indicate that the samples collected with the diffusion samplers were comparable with and can be considerably less expensive than samples collected using a submersible pump.

Prevalence of internal parasites in beef cows in the United States: Results of the National Animal Health Monitoring System's (NAHMS) beef study, 2007-2008.

PubMed

Stromberg, Bert E; Gasbarre, Louis C; Ballweber, Lora R; Dargatz, David A; Rodriguez, Judith M; Kopral, Christine A; Zarlenga, Dante S

2015-10-01

During the United States Department of Agriculture (USDA) National Animal Health Monitoring System's (NAHMS) 2007-2008 beef study, 567 producers from 24 US States were offered the opportunity to collect fecal samples from weaned beef calves and have them evaluated for the presence of parasite eggs (Phase 1). Participating producers were provided with instructions and materials for sample collection. Up to 20 fresh fecal samples were collected from each of the 99 participating operations. Fresh fecal samples were submitted to one of 3 randomly assigned laboratories for evaluation. Upon arrival at the laboratories, all samples were processed for the enumeration of strongyle, Nematodirus, and Trichuris eggs using the modified Wisconsin technique. The presence or absence of coccidian oocysts and tapeworm eggs was also noted. In submissions where the strongyle eggs per gram exceeded 30, aliquots from 2 to 6 animals were pooled for DNA extraction. Extracted DNA was subjected to genus level polymerase chain reaction (PCR) identification for the presence of Ostertagia, Cooperia, Haemonchus, Oesophagostomum, and Trichostrongylus. In this study, 85.6% of the samples had strongyle type, Nematodirus, and Trichuris eggs. Among the samples evaluated, 91% had Cooperia, 79% Ostertagia, 53% Haemonchus, 38% Oesophagostomum, 18% Nematodirus, 7% Trichuris, and 3% Trichostrongylus. The prevalence of coccidia and tapeworm eggs was 59.9% and 13.7%, respectively.

Prevalence of internal parasites in beef cows in the United States: Results of the National Animal Health Monitoring System’s (NAHMS) beef study, 2007–2008

PubMed Central

Stromberg, Bert E.; Gasbarre, Louis C.; Ballweber, Lora R.; Dargatz, David A.; Rodriguez, Judith M.; Kopral, Christine A.; Zarlenga, Dante S.

2015-01-01

During the United States Department of Agriculture (USDA) National Animal Health Monitoring System’s (NAHMS) 2007–2008 beef study, 567 producers from 24 US States were offered the opportunity to collect fecal samples from weaned beef calves and have them evaluated for the presence of parasite eggs (Phase 1). Participating producers were provided with instructions and materials for sample collection. Up to 20 fresh fecal samples were collected from each of the 99 participating operations. Fresh fecal samples were submitted to one of 3 randomly assigned laboratories for evaluation. Upon arrival at the laboratories, all samples were processed for the enumeration of strongyle, Nematodirus, and Trichuris eggs using the modified Wisconsin technique. The presence or absence of coccidian oocysts and tapeworm eggs was also noted. In submissions where the strongyle eggs per gram exceeded 30, aliquots from 2 to 6 animals were pooled for DNA extraction. Extracted DNA was subjected to genus level polymerase chain reaction (PCR) identification for the presence of Ostertagia, Cooperia, Haemonchus, Oesophagostomum, and Trichostrongylus. In this study, 85.6% of the samples had strongyle type, Nematodirus, and Trichuris eggs. Among the samples evaluated, 91% had Cooperia, 79% Ostertagia, 53% Haemonchus, 38% Oesophagostomum, 18% Nematodirus, 7% Trichuris, and 3% Trichostrongylus. The prevalence of coccidia and tapeworm eggs was 59.9% and 13.7%, respectively. PMID:26424909

Sample integrity evaluation and EPA method 325B interlaboratory comparison for select volatile organic compounds collected diffusively on Carbopack X sorbent tubes

NASA Astrophysics Data System (ADS)

Oliver, Karen D.; Cousett, Tamira A.; Whitaker, Donald A.; Smith, Luther A.; Mukerjee, Shaibal; Stallings, Casson; Thoma, Eben D.; Alston, Lillian; Colon, Maribel; Wu, Tai; Henkle, Stacy

2017-08-01

A sample integrity evaluation and an interlaboratory comparison were conducted in application of U.S. Environmental Protection Agency (EPA) Methods 325A and 325B for diffusively monitoring benzene and other selected volatile organic compounds (VOCs) using Carbopack X sorbent tubes. To evaluate sample integrity, VOC samples were refrigerated for up to 240 days and analyzed using thermal desorption/gas chromatography-mass spectrometry at the EPA Office of Research and Development laboratory in Research Triangle Park, NC, USA. For the interlaboratory comparison, three commercial analytical laboratories were asked to follow Method 325B when analyzing samples of VOCs that were collected in field and laboratory settings for EPA studies. Overall results indicate that the selected VOCs collected diffusively on sorbent tubes generally were stable for 6 months or longer when samples were refrigerated. This suggests the specified maximum 30-day storage time of VOCs collected diffusively on Carbopack X passive samplers and analyzed using Method 325B might be able to be relaxed. Interlaboratory comparison results were in agreement for the challenge samples collected diffusively in an exposure chamber in the laboratory, with most measurements within ±25% of the theoretical concentration. Statistically significant differences among laboratories for ambient challenge samples were small, less than 1 part per billion by volume (ppbv). Results from all laboratories exhibited good precision and generally agreed well with each other.

Designing and implementing sample and data collection for an international genetics study: the Type 1 Diabetes Genetics Consortium (T1DGC).

PubMed

Hilner, Joan E; Perdue, Letitia H; Sides, Elizabeth G; Pierce, June J; Wägner, Ana M; Aldrich, Alan; Loth, Amanda; Albret, Lotte; Wagenknecht, Lynne E; Nierras, Concepcion; Akolkar, Beena

2010-01-01

The Type 1 Diabetes Genetics Consortium (T1DGC) is an international project whose primary aims are to: (a) discover genes that modify type 1 diabetes risk; and (b) expand upon the existing genetic resources for type 1 diabetes research. The initial goal was to collect 2500 affected sibling pair (ASP) families worldwide. T1DGC was organized into four regional networks (Asia-Pacific, Europe, North America, and the United Kingdom) and a Coordinating Center. A Steering Committee, with representatives from each network, the Coordinating Center, and the funding organizations, was responsible for T1DGC operations. The Coordinating Center, with regional network representatives, developed study documents and data systems. Each network established laboratories for: DNA extraction and cell line production; human leukocyte antigen genotyping; and autoantibody measurement. Samples were tracked from the point of collection, processed at network laboratories and stored for deposit at National Institute for Diabetes and Digestive and Kidney Diseases (NIDDK) Central Repositories. Phenotypic data were collected and entered into the study database maintained by the Coordinating Center. T1DGC achieved its original ASP recruitment goal. In response to research design changes, the T1DGC infrastructure also recruited trios, cases, and controls. Results of genetic analyses have identified many novel regions that affect susceptibility to type 1 diabetes. T1DGC created a resource of data and samples that is accessible to the research community. Participation in T1DGC was declined by some countries due to study requirements for the processing of samples at network laboratories and/or final deposition of samples in NIDDK Central Repositories. Re-contact of participants was not included in informed consent templates, preventing collection of additional samples for functional studies. T1DGC implemented a distributed, regional network structure to reach ASP recruitment targets. The infrastructure proved robust and flexible enough to accommodate additional recruitment. T1DGC has established significant resources that provide a basis for future discovery in the study of type 1 diabetes genetics.

Legionnaires' disease bacteria in power plant cooling systems: downtime report. Final report

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

Tyndall, R.L.; Solomon, J.A.; Christensen, S.W.

1985-11-01

Legionnaires' disease bacteria (Legionella) are a normal part of the aquatic community that, when aerosolized, can be pathogenic to man. The downtime study was designed to determine the degree to which Legionella populations are aerosolized during cleaning and maintenance operations in a closed-cycle steam-electric power plant. Both high-volume and impinger air samples were collected prior to and during downtime operations. Emphasis was placed on sampling inside or adjacent to water boxes, condensers, and cooling towers. Control air samples were taken upwind from the plant site. Water and sludge samples were also collected at various locations. In the laboratory, the concentrationsmore » of Legionella were determined using the direct fluorescent antibody method. All positive air samples, and other selected air samples, were injected into guinea pigs to detect infectious Legionella. Legionella could be detected in only 12 of the 127 air samples collected. These were predominantly L. pneumophila, serogroups 1-6. In contrast to the air samples, most of the water and sludge samples were positive for Legionella, again predominantly L. pneumophila, serogroups 1-6. The highest Legionella concentrations were found in sludge samples associated with condenser tube cleaning. Among the water samples, the highest Legionella concentrations were found in cooling towers, immediately after the tower basins were cleaned and refilled, and in condenser tubes. Two of the three cooling tower water samples collected prior to downtime operations were infectious for guinea pigs. 16 refs., 4 figs., 11 tabs.« less

Spatial distributions and seasonal variations of organochlorine pesticides in water and soil samples in Bolu, Turkey.

PubMed

Karadeniz, Hatice; Yenisoy-Karakaş, Serpil

2015-03-01

In this study, a total of 75 water samples (38 groundwater and 37 surface water samples) and 54 surface soil samples were collected from the five districts of Bolu, which is located in the Western Black Sea Region of Turkey in the summer season of 2009. In the autumn season, 17 water samples (surface water and groundwater samples) and 17 soil samples were collected within the city center to observe the seasonal changes of organochlorine pesticides (OCPs). Groundwater and surface water samples were extracted using solid phase extraction. Soil samples were extracted ultrasonically. Sixteen OCP compounds in the standard solution were detected by a gas chromatography-electron capture detector (GC-ECD). Therefore, the method validation was performed for those 16 OCP compounds. However, 13 OCP compounds could be observed in the samples. The concentrations of most OCPs were higher in samples collected in the summer than those in the autumn. The most frequently observed pesticides were endosulfan sulfate and 4,4'-dichlorodiphenyltrichloroethane (DDT) in groundwater samples, α-HCH in surface water samples, and endosulfan sulfate in soil samples. The average concentration of endosulfan sulfate was the highest in water and soil samples. Compared to the literature values, the average concentrations in this study were lower values. Spatial distribution of OCPs was evaluated with the aid of contour maps for the five districts of Bolu. Generally, agricultural processes affected the water and soil quality in the region. However, non-agricultural areas were also affected by pesticides. The concentrations of pesticides were below the legal limits of European directives for each pesticide.

Identification of residues of sulfosulfuron and its metabolites in subsoil-dissipation kinetics and factors influencing the stability and degradation of residues from topsoil to subsoil under predominant cropping conditions.

PubMed

Atmakuru, Ramesh; Perumal Elumalai, Thirugnanam; Sivanandam, Sathiyanarayanan

2007-07-01

Long term stability of sulfosulfuron was investigated in subsoil under the natural wheat cropping conditions. Experiments were conducted by applying a commercial formulation of sulfosulfuron on soil at 50 g/ha and 100 g/ha. To understand the factors influencing the persistence of residues two different experiments were conducted. In one experiment wheat crop was cultivated once at the beginning of the two years study period and subsequently the plots were kept undisturbed for the remaining period. In another experiment cultivation of subsequent crops were continued during the study period. In both the cases sulfosulfuron was applied only once at the beginning of the study. Representative soil samples were collected from the depths viz., 0-5, 15, 30, 45, 60 and 90 cm on different pre determined sampling occasions 50, 100, 200, 300, 400, 500 and 600 days after the application of the herbicide. The collected soil samples were analyzed for the residues of sulfosulfuron. Under the influence of continuous cropping conditions residues of sulfosulfuron were found to be relatively low when compared with the soil samples collected from the agriculture plots maintained without any cultivation. The residues detected are in the range 0.001 to 0.017 microg/g. Samples collected from the depth, at 30 to 45 cm showed higher residual concentrations. Soil samples were also showed the presence of break down products. The data has been confirmed by LC-MS/MS. The relation between residue content of sulfosulfuron and the factors contributing the stability of herbicide concentration were also studied.

Prevalence of Giardia sp. Cryptosporidium parvum and Cryptosporidium andersoni (syn. C. muris) [correction of Cryptosporidium parvum and Cryptosporidium muris (C. andersoni)] in 109 dairy herds in five counties of southeastern New York.

PubMed

Wade, S E; Mohammed, H O; Schaaf, S L

2000-11-01

A cross-sectional study was undertaken to determine the prevalence of Giardia sp. (G. duodenalis group), Cryptosporidium parvum and Cryptosporidium andersoni (C. muris) [corrected] in dairy cattle in three different age groups, and to evaluate the association of age and season with prevalence. One hundred and nine dairy farms, from a total of 212 farms, in five counties of southeastern New York volunteered to participate. On these farms, 2943 fecal samples were collected from three defined age groups. The farms were randomly assigned for sampling within the four seasons of the year. Each farm was visited once during the study period from March 1993 to June 1994 to collect fecal samples. Demographic data on the study population was collected at the time of sampling by interviewing the farm owner or manager. At collection, fecal samples were scored as diarrheic or non-diarrheic, and each condition was later related to positive or negative infection with these parasites. Fecal samples were processed using a quantitative centrifugation concentration flotation technique and enumerated using bright field and phase contrast microscopy. In this study, the overall population prevalence for Giardia sp. was 8.9%; C. parvum, 0.9%; and C. muris, 1.1%. When considering animals most at the risk of infection (those younger than 6 months of age) Giardia sp. and C. parvum was found in 20.1 and 2.4% of the animals, respectively. Giardia sp. and C. muris were found in all age groups. There was no significant seasonal pattern of infection for any of these parasites.

Comparative Proteomic Analysis of Whole-Gut Lavage Fluid and Pancreatic Juice Reveals a Less Invasive Method of Sampling Pancreatic Secretions

PubMed Central

Rocker, Jana M; Tan, Marcus C; Thompson, Lee W; Contreras, Carlo M; DiPalma, Jack A; Pannell, Lewis K

2016-01-01

OBJECTIVES: There are currently no reliable, non-invasive screening tests for pancreatic ductal adenocarcinoma. The fluid secreted from the pancreatic ductal system (“pancreatic juice”) has been well-studied as a potential source of cancer biomarkers. However, it is invasive to collect. We recently observed that the proteomic profile of intestinal effluent from the bowel in response to administration of an oral bowel preparation solution (also known as whole-gut lavage fluid, WGLF) contains large amounts of pancreas-derived proteins. We therefore hypothesized that the proteomic profile is similar to that of pancreatic juice. In this study, we compared the proteomic profiles of 77 patients undergoing routine colonoscopy with the profiles of 19 samples of pure pancreatic juice collected during surgery. METHODS: WGLF was collected from patients undergoing routine colonoscopy, and pancreatic juice was collected from patients undergoing pancreatic surgery. Protein was isolated from both samples using an optimized method and analyzed by LC-MS/MS. Identified proteins were compared between samples and groups to determine similarity of the two fluids. We then compared our results with literature reports of pancreatic juice-based studies to determine similarity. RESULTS: We found 104 proteins in our pancreatic juice samples, of which 90% were also found in our WGLF samples. The majority (67%) of the total proteins found in the WGLF were common to pancreatic juice, with intestine-specific proteins making up a smaller proportion. CONCLUSIONS: WGLF and pancreatic juice appear to have similar proteomic profiles. This supports the notion that WGLF is a non-invasive, surrogate bio-fluid for pancreatic juice. Further studies are required to further elucidate its role in the diagnosis of pancreatic cancer. PMID:27228405

Use of Electronic Hand-held Devices for Collection of Savannah River Site Environmental Data - 13329

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

Marberry, Hugh; Moore, Winston

2013-07-01

Savannah River Nuclear Solutions has begun using Xplore Tablet PC's to collect data in the field for soil samples, groundwater samples, air samples and round sheets at the Savannah River Site (SRS). EPA guidelines for groundwater sampling are incorporated into the application to ensure the sample technician follows the proper protocol. The sample technician is guided through the process for sampling and round sheet data collection by a series of menus and input boxes. Field measurements and well stabilization information are entered into the tablet for uploading into Environmental Restoration Data Management System (ERDMS). The process helps to eliminate inputmore » errors and provides data integrity. A soil sample technician has the ability to collect information about location of sample, field parameter, describe the soil sample, print bottle labels, and print chain of custody for the sample that they have collected. An air sample technician has the ability to provide flow, pressure, hours of operation, print bottle labels and chain of custody for samples they collect. Round sheets are collected using the information provided in the various procedures. The data are collected and uploaded into ERDMS. The equipment used is weather proof and hardened for the field use. Global Positioning System (GPS) capabilities are integrated into the applications to provide the location where samples were collected and to help sample technicians locate wells that are not visited often. (authors)« less

Escherichia coli Concentrations in the Mill Creek Watershed, Cleveland, Ohio, 2001-2004

USGS Publications Warehouse

Brady, Amie M.G.

2007-01-01

Mill Creek in Cleveland, Ohio, receives discharges from combined-sewer overflows (CSOs) and other sanitary-sewage inputs. These discharges affect the water quality of the creek and that of its receiving stream, the Cuyahoga River. In an effort to mitigate this problem, the Northeast Ohio Regional Sewer District implemented a project to eliminate or control (by reducing the number of overflows) all of the CSOs in the Mill Creek watershed. This study focused on monitoring the microbiological water quality of the creek before and during sewage-collection system modifications. Routine samples were collected semimonthly from August 2001 through September 2004 at a site near a U.S. Geological Survey stream gage near the mouth of Mill Creek. In addition, event samples were collected September 19 and 22, 2003, when rainfall accumulations were 0.5 inches (in.) or greater. Concentrations of Escherichia coli (E. coli) were determined and instantaneous discharges were calculated. Streamflow and water-quality characteristics were measured at the time of sampling, and precipitation data measured at a nearby precipitation gage were obtained from the National Oceanic and Atmospheric Administration. Concentrations of E. coli were greater than Ohio's single-sample maximum for primary-contact recreation (298 colony-forming units per 100 milliliters (CFU/100 mL)) in 84 percent of the routine samples collected. In all but one routine sample E. coli concentrations in samples collected when instantaneous streamflows were greater than 20 cubic feet per second (ft3/s) were greater than Ohio's single-sample maximum. When precipitation occurred in the 24-hour period before routine sample collection, concentrations were greater than the maximum in 89 percent of the samples as compared to 73 percent when rainfall was absent during the 24 hours prior to routine sample collection. Before modifications to the sewage-collection system in the watershed began, E. coli concentrations in Mill Creek ranged from 220 to 29,000 CFU/100 mL. After major modifications, E. coli concentrations ranged from 110 to 80,000 CFU/100 mL. The percentage of sample E. coli concentrations in the former group greater than Ohio's single-sample maximum was 88 percent, whereas 85 percent of sample concentrations was greater than the maximum after major modifications occurred. Instantaneous discharges of E. coli were calculated for each of the modification periods. No statistically significant difference was observed between the median instantaneous discharges of E. coli for the premodification and minor-modification periods (5.1 ? 106 and 3.6 ? 106 CFU per second, respectively). During rainfall events in September 2003, samples were collected every 15 to 30 minutes. E. coli concentrations in all of these samples (n = 34) were greater than Ohio's single-sample maximum for primary-contact recreation. On September 19, total accumulated rainfall was 1.7 in., and streamflow reached a peak of 1,040 ft3/s. Sample collection started after 0.8 in. of precipitation had fallen and continued throughout the remainder of the storm. For these samples, E. coli concentrations ranged from 32,000 to 140,000 CFU/100 mL. On September 22, total accumulated rainfall was 0.5 in., and streamflow reached a peak of 497 ft3/s. Sample collection began before the start of the rain and continued throughout the storm. E. coli concentrations ranged from 450 to 260,000 CFU/100 mL.

Xenosurveillance reflects traditional sampling techniques for the identification of human pathogens: A comparative study in West Africa

PubMed Central

Fakoli, Lawrence S.; Bolay, Kpehe; Bolay, Fatorma K.; Diclaro, Joseph W.; Brackney, Doug E.; Stenglein, Mark D.; Ebel, Gregory D.

2018-01-01

Background Novel surveillance strategies are needed to detect the rapid and continuous emergence of infectious disease agents. Ideally, new sampling strategies should be simple to implement, technologically uncomplicated, and applicable to areas where emergence events are known to occur. To this end, xenosurveillance is a technique that makes use of blood collected by hematophagous arthropods to monitor and identify vertebrate pathogens. Mosquitoes are largely ubiquitous animals that often exist in sizable populations. As well, many domestic or peridomestic species of mosquitoes will preferentially take blood-meals from humans, making them a unique and largely untapped reservoir to collect human blood. Methodology/Principal findings We sought to take advantage of this phenomenon by systematically collecting blood-fed mosquitoes during a field trail in Northern Liberia to determine whether pathogen sequences from blood engorged mosquitoes accurately mirror those obtained directly from humans. Specifically, blood was collected from humans via finger-stick and by aspirating bloodfed mosquitoes from the inside of houses. Shotgun metagenomic sequencing of RNA and DNA derived from these specimens was performed to detect pathogen sequences. Samples obtained from xenosurveillance and from finger-stick blood collection produced a similar number and quality of reads aligning to two human viruses, GB virus C and hepatitis B virus. Conclusions/Significance This study represents the first systematic comparison between xenosurveillance and more traditional sampling methodologies, while also demonstrating the viability of xenosurveillance as a tool to sample human blood for circulating pathogens. PMID:29561834

Xenosurveillance reflects traditional sampling techniques for the identification of human pathogens: A comparative study in West Africa.

PubMed

Fauver, Joseph R; Weger-Lucarelli, James; Fakoli, Lawrence S; Bolay, Kpehe; Bolay, Fatorma K; Diclaro, Joseph W; Brackney, Doug E; Foy, Brian D; Stenglein, Mark D; Ebel, Gregory D

2018-03-01

Novel surveillance strategies are needed to detect the rapid and continuous emergence of infectious disease agents. Ideally, new sampling strategies should be simple to implement, technologically uncomplicated, and applicable to areas where emergence events are known to occur. To this end, xenosurveillance is a technique that makes use of blood collected by hematophagous arthropods to monitor and identify vertebrate pathogens. Mosquitoes are largely ubiquitous animals that often exist in sizable populations. As well, many domestic or peridomestic species of mosquitoes will preferentially take blood-meals from humans, making them a unique and largely untapped reservoir to collect human blood. We sought to take advantage of this phenomenon by systematically collecting blood-fed mosquitoes during a field trail in Northern Liberia to determine whether pathogen sequences from blood engorged mosquitoes accurately mirror those obtained directly from humans. Specifically, blood was collected from humans via finger-stick and by aspirating bloodfed mosquitoes from the inside of houses. Shotgun metagenomic sequencing of RNA and DNA derived from these specimens was performed to detect pathogen sequences. Samples obtained from xenosurveillance and from finger-stick blood collection produced a similar number and quality of reads aligning to two human viruses, GB virus C and hepatitis B virus. This study represents the first systematic comparison between xenosurveillance and more traditional sampling methodologies, while also demonstrating the viability of xenosurveillance as a tool to sample human blood for circulating pathogens.

Simultaneous LC-MS/MS quantitation of acetaminophen and its glucuronide and sulfate metabolites in human dried blood spot samples collected by subjects in a pilot clinical study.

PubMed

Li, Wenkui; Doherty, John P; Kulmatycki, Kenneth; Smith, Harold T; Tse, Francis Ls

2012-06-01

In support of a pilot clinical trial using acetaminophen as the model compound to assess dried blood spot (DBS) sampling as the method for clinical pharmacokinetic sample collection, a novel sensitive LC-MS/MS method was developed and validated for the simultaneous determination of acetaminophen and its major metabolites, acetaminophen glucuronide and sulfate, in human DBS samples collected by subjects via fingerprick. The validated assay dynamic range was from 50.0 to 5000 ng/ml for each compound using a 1/8´´ (3-mm) disc punched from a DBS sample. Baseline separation of the three analytes was achieved to eliminate the possible impact of insource fragmentation of the conjugated metabolites on the analysis of the parent. The overall extraction efficiency was from 61.3 to 78.8% for the three analytes by direct extraction using methanol. The validated method was successfully implemented in the pilot clinical study with the obtained pharmacokinetic parameters in agreement with the values reported in literature.

Campylobacter in chicken carcasses and slaughterhouses in Malaysia.

PubMed

Rejab, Saira Banu Mohamed; Zessin, Karl-Hans; Fries, Reinhard; Patchanee, Prapas

2012-01-01

This study was conducted to determine the Campylobacter contamination rate of chicken carcasses and the processing lines of modern processing plants in Malaysia. Three hundred sixty samples were collected from 24 flocks of broiler chickens at 12 modern poultry processing plants in 6 states of Malaysia. Fresh fecal droppings were collected from crates in the arrival area. Neck skin samples were taken from processed chicken carcasses at 3 different processing stages: before inside-outside washing, after inside-outside washing and post chilling. Swab samples from the scalding tank, chilling tank and conveyer belt before chilling were also collected to determine contamination with Campylobacter in the slaughter house environment prior to slaughter. Isolation for Campylobacter was performed following ISO 10272-1:2006(E). The overall of contamination rate with Campylobacter at the 12 plants was 61.0% (220/360). Eighty point six percent of the samples from before the inside-outside wishing step were contaminated with Campylobacter, as were 62.5% of the samples after the inside washing and 38.9% after the post-chilling step. This study shows extensive contamination of chicken carcasses and slaughtering houses in Malaysia with Campylobacter.

NHEXAS PHASE I ARIZONA STUDY--METALS IN DERMAL WIPES ANALYTICAL RESULTS

EPA Science Inventory

The Metals in Dermal Wipes data set contains analytical results for measurements of up to 11 metals in 179 dermal wipe samples over 179 households. Each sample was collected from the primary respondent within each household during Stage III of the NHEXAS study. The sampling per...

NHEXAS PHASE I ARIZONA STUDY--METALS IN URINE ANALYTICAL RESULTS

EPA Science Inventory

The Metals in Urine data set contains analytical results for measurements of up to 6 metals in 176 urine samples over 176 households. Each sample was collected from the primary respondent within each household during Stage III of the NHEXAS study. The sample consists of the fir...

Data collection for a time-of-travel and dispersion study on the Coosa River near Childersburg, Alabama

USGS Publications Warehouse

Gardner, R.A.

1985-01-01

Approximately 2,300 dye-tracer samples were collected and analyzed during a 5-day time-of-travel study on a 23-mile reach of the Coosa River between Logan Martin and Lay dams near Childersburg, Alabama, October 27 to 31, 1984. Rhodamine WT was used as the tracer-dye. Unsteady flow conditions prevailed in the study reach. The rate of movement of the dye cloud between sampling cross sections ranged from 0.15 to 1.36 feet per second. The average rate of movement of the dye cloud between the injection cross section and the downstream sampling cross section was 0.42 foot per second. (USGS)

Comparison of indoor air sampling and dust collection methods for fungal exposure assessment using quantitative PCR

EPA Science Inventory

Evaluating fungal contamination indoors is complicated because of the many different sampling methods utilized. In this study, fungal contamination was evaluated using five sampling methods and four matrices for results. The five sampling methods were a 48 hour indoor air sample ...

NHEXAS PHASE I REGION 5 STUDY--QA ANALYTICAL RESULTS FOR METALS IN REPLICATES

EPA Science Inventory

This data set includes analytical results for measurements of metals in 490 duplicate (replicate) samples and for particles in 130 duplicate samples. Measurements were made for up to 11 metals in samples of air, dust, water, blood, and urine. Duplicate samples (samples collected ...

New Noble Gas Studies on Popping Rocks from the Mid-Atlantic Ridge near 14°N

NASA Astrophysics Data System (ADS)

Kurz, M. D.; Curtice, J.; Jones, M.; Péron, S.; Wanless, V. D.; Mittelstaedt, E. L.; Soule, S. A.; Klein, F.; Fornari, D. J.

2017-12-01

New Popping Rocks were recovered in situ on the Mid-Atlantic Ridge (MAR) near 13.77° N, using HOV Alvin on cruise AT33-03 in 2016 on RV Atlantis. We report new helium, neon, argon, and CO2 step-crushing measurements on a subset of the glass samples, with a focus on a new procedure to collect seafloor samples with minimal exposure to air. Glassy seafloor basalts were collected in sealed containers using the Alvin mechanical arm and transported to the surface without atmospheric exposure. On the ship, the seawater was drained, the volcanic glass was transferred to stainless steel ultra-high-vacuum containers (in an oxygen-free glove box), which were then evacuated using a turbo-molecular pump and sealed for transport under vacuum. All processing was carried out under a nitrogen atmosphere. A control sample was collected from each pillow outcrop and processed normally in air. The preliminary step-crushing measurements show that the anaerobically collected samples have systematically higher 20Ne/22Ne, 21Ne/22Ne and 40Ar/36Ar than the control samples. Helium abundances and isotopes are consistent between anaerobically collected samples and control samples. These results suggest that minimizing atmospheric exposure during sample processing can significantly reduce air contamination for heavy noble gases, providing a new option for seafloor sampling. Higher vesicle abundances appear to yield a greater difference in neon and argon isotopes between the anaerobic and control samples, suggesting that atmospheric contamination is related to vesicle abundance, possibly through micro-fractures. The new data show variability in the maximum mantle neon and argon isotopic compositions, and abundance ratios, suggesting that the samples experienced variable outgassing prior to eruption, and may represent different phases of a single eruption, or multiple eruptions.

Cross-Sectional Study of Hepatitis A Virus Infection in the Pantanal Population before Vaccine Implementation in Brazil: Usage of Non-Invasive Specimen Collection

PubMed Central

Tourinho, Renata Santos; de Almeida, Adilson José; Villar, Livia Melo; Murat, Paula Guerra; Capelin, Gina Jonasson Mousquer; Motta Castro, Ana Rita Coimbra; de Paula, Vanessa Salete

2015-01-01

Population-based prevalence studies are essential tools for screening of hepatitis A and provide important data on susceptible groups. However, surveillance in isolated communities is difficult because of the limited access to these areas and the need for blood sample collection. This study aimed to determine the anti-HAV prevalence using oral fluid samples to provide an alternative tool for epidemiological studies that might be useful for vaccination-related decisions. The study population was composed of 224 volunteers from South Pantanal, aged 3 to 86 years old. This study was performed using oral fluids, previously standardized for anti-HAV antibody detection, which were collected using a ChemBio device. Eluates were tested using modified commercial EIA to detect anti-HAV antibodies. The overall prevalence was 79.1%, corresponding to 178 reactive EIA tests out of 224 samples. The age stratified data revealed a prevalence of 47.8% between 0–10 years, 84% in 11–20 years and 91.9% in subjects older than 21 years. Results indicate that hepatitis A prevalence was higher in adolescents and adults, corroborating the literature reports. Thus, oral fluid samples could replace serum in HAV epidemiological studies in isolated communities as they are efficient at detecting anti-HAV antibodies. PMID:26133128

Conodont and Radiolarian Data from the De Long Mountains Quadrangle and Adjacent Areas, Northern Alaska

USGS Publications Warehouse

Dumoulin, Julie A.; Harris, Anita G.; Blome, Charles D.; Young, Lorne E.

2006-01-01

INTRODUCTION This report presents biostratigraphic data from 289 collections at 189 localities in the De Long Mountains, Misheguk Mountain, and Noatak quadrangles (fig. 1); most of these data have never been previously published. The collections were made during studies of the Red Dog massive sulfide deposit in 1998?2004 and in support of regional mapping projects in 1979, 1981, 1983, and 1997?98. The collections?mostly conodonts and some radiolarians?tightly constrain the age of many stratigraphic units of Devonian through Triassic age exposed within the study area, and provide additional data on the depositional environments and thermal history of these rocks. The data are presented in a series of tables, organized by fossil type, stratigraphic unit, and location. Tables 1?12 contain conodont data, mostly from the De Long Mountains quadrangle. All of these collections were initially examined, or were reevaluated, from 1997 through 2004, and complete faunal lists are given for all samples. Table 13 lists ages and conodont color alteration indices (CAIs) of 27 collections from 24 localities in the Noatak quadrangle; updated faunal lists were not prepared for these samples. Radiolarian data?all from the De Long Mountains quadrangle?are given in table 14; these collections were analyzed between 1998 and 2003. Collection localities are shown in four maps (sheets 1, 2). Map 1 (sheet 1) shows all outcrop samples from the De Long Mountains and western Misheguk Mountain quadrangle (locs. 1-121). Maps 2?4 (sheets 1, 2) show all drill hole sample localities; samples come from the Su-Lik deposit and in and around the Anarraaq deposit (map 2, locs. 122?135), in and adjacent to the Red Dog deposits (Paalaaq, Aqqaluk, Main, and Qanaiyaq) (map 3, locs. 136?158), and from drill holes along the Port Road in the Noatak quadrangle (map 4, locs. 159?160). Map 4 (sheet 2) also shows all outcrop samples from the Noatak quadrangle (locs. 161?189). The text summarizes the lithofacies, age, and biofacies of the Paleozoic and Mesozoic stratigraphic units that produced the fossil collections presented in the tables. Many of the data for the Lisburne Group are taken from Dumoulin and others (2004). Plates 1?4 illustrate important conodonts from the collections listed herein, as well as from coeval collections in the Howard Pass quadrangle; information about the Howard Pass conodonts is given in Table 15.

Proposed BioRepository platform solution for the ALS research community.

PubMed

Sherman, Alex; Bowser, Robert; Grasso, Daniela; Power, Breen; Milligan, Carol; Jaffa, Matthew; Cudkowicz, Merit

2011-01-01

ALS is a rare disorder whose cause and pathogenesis is largely unknown ( 1 ). There is a recognized need to develop biomarkers for ALS to better understand the disease, expedite diagnosis and to facilitate therapy development. Collaboration is essential to obtain a sufficient number of samples to allow statistically meaningful studies. The availability of high quality biological specimens for research purposes requires the development of standardized methods for collection, long-term storage, retrieval and distribution of specimens. The value of biological samples to scientists and clinicians correlates with the completeness and relevance of phenotypical and clinical information associated with the samples ( 2 , 3 ). While developing a secure Web-based system to manage an inventory of multi-site BioRepositories, algorithms were implemented to facilitate ad hoc parametric searches across heterogeneous data sources that contain data from clinical trials and research studies. A flexible schema for a barcode label was introduced to allow association of samples to these data. The ALSBank™ BioRepository platform solution for managing biological samples and associated data is currently deployed by the Northeast ALS Consortium (NEALS). The NEALS Consortium and the Massachusetts General Hospital (MGH) Neurology Clinical Trials Unit (NCTU) support a network of multiple BioBanks, thus allowing researchers to take advantage of a larger specimen collection than they might have at an individual institution. Standard operating procedures are utilized at all collection sites to promote common practices for biological sample integrity, quality control and associated clinical data. Utilizing this platform, we have created one of the largest virtual collections of ALS-related specimens available to investigators studying ALS.

Analytical results for 544 water samples collected in the Attean Quartz Monzonite in the vicinity of Jackman, Maine

USGS Publications Warehouse

Ficklin, W.H.; Nowlan, G.A.; Preston, D.J.

1983-01-01

Water samples were collected in the vicinity of Jackman, Maine as a part of the study of the relationship of dissolved constituents in water to the sediments subjacent to the water. Each sample was analyzed for specific conductance, alkalinity, acidity, pH, fluoride, chloride, sulfate, phosphate, nitrate, sodium, potassium, calcium, magnesium, and silica. Trace elements determined were copper, zinc, molybdenum, lead, iron, manganese, arsenic, cobalt, nickel, and strontium. The longitude and latitude of each sample location and a sample site map are included in the report as well as a table of the analytical results.

Nutrient concentrations in Upper and Lower Echo, Fallen Leaf, Spooner, and Marlette Lakes and associated outlet streams, California and Nevada, 2002-03

USGS Publications Warehouse

Lico, Michael S.

2004-01-01

Five lakes and their outlet streams in the Lake Tahoe Basin were sampled for nutrients during 2002-03. The lakes and streams sampled included Upper Echo, Lower Echo, Fallen Leaf, Spooner, and Marlette Lakes and Echo, Taylor, and Marlette Creeks. Water samples were collected to determine seasonal and spatial concentrations of dissolved nitrite plus nitrate, dissolved ammonia, total Kjeldahl nitrogen, dissolved orthophosphate, total phosphorus, and total bioreactive iron. These data will be used by Tahoe Regional Planning Agency in revising threshold values for waters within the Lake Tahoe Basin. Standard U.S. Geological Survey methods of sample collection and analysis were used and are detailed herein. Data collected during this study and summary statistics are presented in graphical and tabular form.

Guidelines for quality assurance and quality control of fish taxonomic data collected as part of the National Water-Quality Assessment Program

USGS Publications Warehouse

Walsh, Stephen Joseph; Meador, Michael R.

1998-01-01

Fish community structure is characterized by the U.S. Geological Survey's National Water-Quality Assessment (NAWQA) Program as part of a perennial, multidisciplinary approach to evaluating the physical, chemical, and biological conditions of the Nation's water resources. The objective of quality assurance and quality control of fish taxonomic data that are collected as part of the NAWQA Program is to establish uniform guidelines and protocols for the identification, processing, and archiving of fish specimens to ensure that accurate and reliable data are collected. Study unit biologists, collaborating with regional biologists and fish taxonomic specialists, prepare a pre-sampling study plan that includes a preliminary faunal list and identification of an ichthyological curation center for receiving preserved fish specimens. Problematic taxonomic issues and protected taxa also are identified in the study plan, and collecting permits are obtained in advance of sampling activities. Taxonomic specialists are selected to identify fish specimens in the field and to assist in determining what fish specimens should be sacrificed, fixed, and preserved for laboratory identification, independent taxonomic verification, and long-term storage in reference or voucher collections. Quantitative and qualitative sampling of fishes follows standard methods previously established for the NAWQA Program. Common ichthyological techniques are used to process samples in the field and prepare fish specimens to be returned to the laboratory or sent to an institutional repository. Taxonomic identifications are reported by using a standardized list of scientific names that provides nomenclatural consistency and uniformity across study units.

Use of body-mounted cameras to enhance data collection: an evaluation of two arthropod sampling techniques

USDA-ARS?s Scientific Manuscript database

A study was conducted that compared the effectiveness of a sweepnet versus a vacuum suction device for collecting arthropods in cotton. The study differs from previous research in that body-mounted action cameras (B-MACs) were used to record the activity of the person conducting the collections. The...

Evaluation of fish sampling using rotenone in a navigation lock

USGS Publications Warehouse

Margraf, F.J.; Knight, C.T.

2002-01-01

Annual sampling in locks with rotenone has been a principal means of assessing fish populations in the commercially navigable portions of the Ohio River. Despite extensive use, sampling in locks with rotenone and interpretation of the data obtained have not been adequately evaluated. The purpose of our study was to determine the degree of inter- and intraseasonal variation in lock samples, estimate correction factors (CFs) for fish recovery rates, and compare lock samples to other fish collections from the navigational pools above and below the lock. Lock samples from all seasons had a greater proportion of pelagic and demersal fish than samples from the navigational pools, which contained greater proportions of littoral species. CF for non-recovery of fish were determined. Spring and summer lock collections yielded several more species and estimates of overall fish biomass were an order of magnitude higher than fall collections. Within season variation between lock samples was relatively low; however, variation in lock samples among seasons was high, equivalent to that seen among the annual samples from the 1980s. Thus, single-season sampling may not be adequate, and fall may be the least preferred season.

Detection of Helicobacter pylori in bovine, buffalo, camel, ovine, and caprine milk in Iran.

PubMed

Rahimi, Ebrahim; Kheirabadi, Elahe Kazemi

2012-05-01

Helicobacter pylori infection in humans is one of the most common infections worldwide. However, the origin and transmission of this bacterium has not been clearly explained. One of the suggested theories is transmission via raw milk from animals to human beings. This study was conducted to determine the prevalence rate of H. pylori in bulk milk samples from dairy bovine, buffalo, camel, ovine, and caprine herds in Iran. In the present study, 447 bulk milk samples from 230 dairy bovine, buffalo, camel, ovine, and caprine herds were collected in four provinces and tested for H. pylori by cultural method and polymerase chain reaction (PCR) for the detection of the ureC (glmM) gene. The animals whose milk samples collected for this study were clinically healthy. Using the cultural method, three of 447 milk samples (0.67%), including two sheep (2.2%) and one buffalo (1.6%) milk samples, were found to be contaminated with H. pylori. H. pylori ureC gene was detected in 56 (12.5%) of milk samples, including 19 cow (14.1%), 11 sheep (12.2%), nine goat (8.7%), two camel (3.6%), and 15 buffalo (23.4%) milk samples. Using PCR method, there were significant differences (p<0.05) in the level of contamination with H. pylori between milk samples collected from different species. The present study is the first report of the isolation of H. pylori from raw sheep and buffalo milk in Iran and the first demonstration of H. pylori DNA in camel and buffalo milk.

SPRUCE Whole Ecosystem Warming (WEW) Peat Water Content and Temperature Profiles for Experimental Plot Cores Beginning June 2016

DOE Data Explorer

Gutknecht, J. [Oak Ridge National Laboratory, U.S. Department of Energy, Oak Ridge, Tennessee, U.S.A.; Kluber, L. A. [Oak Ridge National Laboratory, U.S. Department of Energy, Oak Ridge, Tennessee, U.S.A.; Hanson, P. J. [Oak Ridge National Laboratory, U.S. Department of Energy, Oak Ridge, Tennessee, U.S.A.; Schadt, C. W. [Oak Ridge National Laboratory, U.S. Department of Energy, Oak Ridge, Tennessee, U.S.A.

2016-06-01

This data set provides the peat water content and peat temperature at time of sampling for peat cores collected before and during the SPRUCE Whole Ecosystem Warming (WEW) study. Cores for the current data set were collected during the following bulk peat sampling events: 13 June 2016 and 23 August 2016. Over time, this dataset will be updated with each new major bulk peat sampling event, and dates/methods will be updated accordingly.

Research on Navy-Related Combat Casualty Care Issues, Navy Operational-Related Injuries and Illnesses and Approaches to Enhance Navy/Marine Corps Personnel Combat Performance.

DTIC Science & Technology

1998-06-01

role of bone morphogenetic protein (BMP) receptors in bone regeneration in periodontal tissues . Tissue samples for these studies are in the accrual...34 Characterization of Bone Morphogenetic Protein Receptors in Oral Tissues " collection of clinical samples will proceed in preparation for assay. • Relative to the...transcribed. • Relative to the project * Characterization of Bone Morphogenetic Protein Receptors in Oral Tissues ", collection of clinical samples is

Field Methods and Sample Collection Techniques for the Surveillance of West Nile Virus in Avian Hosts.

PubMed

Wheeler, Sarah S; Boyce, Walter M; Reisen, William K

2016-01-01

Avian hosts play an important role in the spread, maintenance, and amplification of West Nile virus (WNV). Avian susceptibility to WNV varies from species to species thus surveillance efforts can focus both on birds that survive infection and those that succumb. Here we describe methods for the collection and sampling of live birds for WNV antibodies or viremia, and methods for the sampling of dead birds. Target species and study design considerations are discussed.

Reconnaissance of Organic Wastewater Compounds at a Concentrated Swine Feeding Operation in the North Carolina Coastal Plain, 2008

USGS Publications Warehouse

Harden, Stephen L.

2009-01-01

Water-quality and hydrologic data were collected during 2008 to examine the occurrence of organic wastewater compounds at a concentrated swine feeding operation located in the North Carolina Coastal Plain. Continuous groundwater level and stream-stage data were collected at one monitoring well and one stream site, respectively, throughout 2008. One round of environmental and quality-control samples was collected in September 2008 following a period of below-normal precipitation and when swine waste was not being applied to the spray fields. Samples were collected at one lagoon site, seven shallow groundwater sites, and one surface-water site for analysis of 111 organic wastewater compounds, including household, industrial, and agricultural-use compounds, sterols, pharmaceutical compounds, hormones, and antibiotics. Analytical data for environmental samples collected during the study provide preliminary information on the occurrence of organic wastewater compounds in the lagoon-waste source material, groundwater beneath fields that receive spray applications of the lagoon wastes, and surface water in the tributary adjacent to the site. Overall, 28 organic wastewater compounds were detected in the collected samples, including 11 household, industrial, and agricultural-use compounds; 3 sterols; 2 pharmaceutical compounds; 5 hormones; and 7 antibiotics. The lagoon sample had the greatest number (20) and highest concentrations of compounds compared to groundwater and surface-water samples. The antibiotic lincomycin had the maximum detected concentration (393 micrograms per liter) in the lagoon sample. Of the 11 compounds identified in the groundwater and surface-water samples, all with reported concentrations less than 1 microgram per liter, only lincomycin identified in groundwater at 1 well and 3-methyl-1H-indole and indole identified in surface water at 1 site also were identified in the lagoon waste material.

Effect of ground control mesh on dust sampling and explosion mitigation.

PubMed

Alexander, D W; Chasko, L L

2015-07-01

Researchers from the National Institute for Occupational Safety and Health's Office of Mine Safety and Health Research conducted an assessment of the effects that ground control mesh might have on rock and float coal dust distribution in a coal mine. The increased use of mesh to control roof and rib spall introduces additional elevated surfaces on which rock or coal dust can collect. It is possible to increase the potential for dust explosion propagation if any float coal dust is not adequately inerted. In addition, the mesh may interfere with the collection of representative dust samples when using the pan-and-brush sampling method developed by the U.S. Bureau of Mines and used by the Mine Safety and Health Administration for band sampling. This study estimates the additional coal or rock dust that could accumulate on mesh and develops a means to collect representative dust samples from meshed entries.

Effect of ground control mesh on dust sampling and explosion mitigation

PubMed Central

Alexander, D.W.; Chasko, L.L.

2017-01-01

Researchers from the National Institute for Occupational Safety and Health’s Office of Mine Safety and Health Research conducted an assessment of the effects that ground control mesh might have on rock and float coal dust distribution in a coal mine. The increased use of mesh to control roof and rib spall introduces additional elevated surfaces on which rock or coal dust can collect. It is possible to increase the potential for dust explosion propagation if any float coal dust is not adequately inerted. In addition, the mesh may interfere with the collection of representative dust samples when using the pan-and-brush sampling method developed by the U.S. Bureau of Mines and used by the Mine Safety and Health Administration for band sampling. This study estimates the additional coal or rock dust that could accumulate on mesh and develops a means to collect representative dust samples from meshed entries. PMID:28936000

Collection and storage of urine specimens for measurement of urolithiasis risk factors.

PubMed

Wu, Wenqi; Yang, Dong; Tiselius, Hans-Goran; Ou, Lili; Mai, Zanlin; Chen, Kang; Zhu, Hanliang; Xu, Shaohong; Zhao, Zhijian; Zeng, Guohua

2015-02-01

To evaluate how different methods for storage and preservation of urine samples affected the outcome of analysis of risk factors for stone formation. Spot urine samples were collected from 21 healthy volunteers. Each fresh urine sample was divided into ten 10-mL aliquots: 2 without preservative, 2 with thymol, 2 with toluene, 2 with hydrochloric acid (HCl), and 2 with sodium azide. One sample of each pair was stored at 4 °C and the other at room temperature. The concentrations of calcium, magnesium, sodium, phosphate, urate, oxalate, citrate, and pH in each urine sample were analyzed immediately after collection (0 hour) and after 24 and 48 hours. There were no significant differences in calcium, oxalate, magnesium, phosphate, sodium, urate or pH (without acidification) between samples with different preservation methods (P >.05). Urinary citrate, however, was significantly lower in the urine collected with HCl than when other preservatives were used, both at room temperature and at 4 °C. Urine pH was significantly higher after 48 hours than after 24 hours, whether the samples were stored at room temperature or at 4 °C. Antibacterial preservatives (eg, thymol or toluene) can be recommended as preservatives for 24-hour urine collections. Ideally, the samples should be stored at 4 °C. When HCl is used as a preservative, it seems essential to neutralize the samples before analysis. This is particularly obvious with the chromatographic method used for analysis of citrate that was used in this study. Copyright © 2015 Elsevier Inc. All rights reserved.

Measuring larval nematode contamination on cattle pastures: Comparing two herbage sampling methods.

PubMed

Verschave, S H; Levecke, B; Duchateau, L; Vercruysse, J; Charlier, J

2015-06-15

Assessing levels of pasture larval contamination is frequently used to study the population dynamics of the free-living stages of parasitic nematodes of livestock. Direct quantification of infective larvae (L3) on herbage is the most applied method to measure pasture larval contamination. However, herbage collection remains labour intensive and there is a lack of studies addressing the variation induced by the sampling method and the required sample size. The aim of this study was (1) to compare two different sampling methods in terms of pasture larval count results and time required to sample, (2) to assess the amount of variation in larval counts at the level of sample plot, pasture and season, respectively and (3) to calculate the required sample size to assess pasture larval contamination with a predefined precision using random plots across pasture. Eight young stock pastures of different commercial dairy herds were sampled in three consecutive seasons during the grazing season (spring, summer and autumn). On each pasture, herbage samples were collected through both a double-crossed W-transect with samples taken every 10 steps (method 1) and four random located plots of 0.16 m(2) with collection of all herbage within the plot (method 2). The average (± standard deviation (SD)) pasture larval contamination using sampling methods 1 and 2 was 325 (± 479) and 305 (± 444)L3/kg dry herbage (DH), respectively. Large discrepancies in pasture larval counts of the same pasture and season were often seen between methods, but no significant difference (P = 0.38) in larval counts between methods was found. Less time was required to collect samples with method 2. This difference in collection time between methods was most pronounced for pastures with a surface area larger than 1 ha. The variation in pasture larval counts from samples generated by random plot sampling was mainly due to the repeated measurements on the same pasture in the same season (residual variance component = 6.2), rather than due to pasture (variance component = 0.55) or season (variance component = 0.15). Using the observed distribution of L3, the required sample size (i.e. number of plots per pasture) for sampling a pasture through random plots with a particular precision was simulated. A higher relative precision was acquired when estimating PLC on pastures with a high larval contamination and a low level of aggregation compared to pastures with a low larval contamination when the same sample size was applied. In the future, herbage sampling through random plots across pasture (method 2) seems a promising method to develop further as no significant difference in counts between the methods was found and this method was less time consuming. Copyright © 2015 Elsevier B.V. All rights reserved.

Comparing identified and statistically significant lipids and polar metabolites in 15-year old serum and dried blood spot samples for longitudinal studies: Comparing lipids and metabolites in serum and DBS samples

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

Kyle, Jennifer E.; Casey, Cameron P.; Stratton, Kelly G.

The use of dried blood spots (DBS) has many advantages over traditional plasma and serum samples such as smaller blood volume required, storage at room temperature, and ability for sampling in remote locations. However, understanding the robustness of different analytes in DBS samples is essential, especially in older samples collected for longitudinal studies. Here we analyzed DBS samples collected in 2000-2001 and stored at room temperature and compared them to matched serum samples stored at -80°C to determine if they could be effectively used as specific time points in a longitudinal study following metabolic disease. Four hundred small molecules weremore » identified in both the serum and DBS samples using gas chromatograph-mass spectrometry (GC-MS), liquid chromatography-MS (LC-MS) and LC-ion mobility spectrometry-MS (LC-IMS-MS). The identified polar metabolites overlapped well between the sample types, though only one statistically significant polar metabolite in a case-control study was conserved, indicating degradation occurs in the DBS samples affecting quantitation. Differences in the lipid identifications indicated that some oxidation occurs in the DBS samples. However, thirty-six statistically significant lipids correlated in both sample types indicating that lipid quantitation was more stable across the sample types.« less

American Association of Orthodontists Foundation Craniofacial Growth Legacy Collection in the orthodontic literature-use and trends: A systematic review.

PubMed

Al-Jewair, Thikriat; Stellrecht, Elizabeth; Lewandowski, Lauren; Chakaki, Rania

2018-01-01

The American Association of Orthodontists Foundation (AAOF) Craniofacial Growth Legacy Collection is a digital repository of records from 9 craniofacial growth study collections in the United States and Canada. The purposes of this article were to describe the use of materials from the AAOF Craniofacial Growth Legacy Collection in the orthodontic literature in comparative and follow-up studies, and to analyze trends before and after the project's launch in 2009. An electronic search without date or language restriction was conducted in the following databases: PubMed, Embase, Evidence-Based Medicine Reviews, and CINAHL. Grey literature resources and the bibliographies of the selected studies were also consulted. Three independent reviewers assessed the studies for inclusion. The criteria were human subjects of any age, sex, and ethnicity; at least 1 of the 9 AAOF legacy collections used as either the main sample population or the comparison or control; and orthodontic outcomes assessed. Data were analyzed using STATA software (version 14.2; StataCorp, College Station, Tex). A total of 199 studies (127 follow-up, 72 comparative) were included. The most commonly used collection in comparative studies was the Michigan Growth sample. The number of published studies more than doubled after the AAOF Legacy Collection project testing and launch in 2009. The increase continued through 2010 to 2014, during which there was a trend to use multiple collections. The Burlington Growth collection was the most commonly used collection for follow-up studies. The overall use of the legacy collection showed a small increase in published studies after 2009. The overall numbers of published studies in the comparative and follow-up categories increased after 2009, reflecting the efforts of the AAOF team and collection curators to make the records available worldwide. Further research should consider studying each collection to identify utilization predictors. Copyright © 2017 American Association of Orthodontists. Published by Elsevier Inc. All rights reserved.

Centrifugation-Assisted Fog-Collecting Abilities of Metal-Foam Structures with Different Surface Wettabilities.

PubMed

Ji, Keju; Zhang, Jun; Chen, Jia; Meng, Guiyun; Ding, Yafei; Dai, Zhendong

2016-04-20

The collection of water from fog is a simple and sustainable means of obtaining freshwater for human and animal consumption. Herein, we address the use of metal foam in fog collection and present a novel fog-collecting device fabricated from copper foam. This device, which can also be used in other liquid-gas separation applications, is a 3D extension of biologically inspired 1D and 2D materials. The network structure of the 3D material effectively increased the contact area and interaction time of the skeleton structure and fog compared to those of traditional 2D fog-collecting materials. The main aspects investigated in this study were the influences of the inertial centrifugal force generated by rotating the metal-foam samples and the use of samples with different surface wettabilities on the fog-collecting performance. Superhydrophilic and superhydrophobic samples were found to have higher collection efficiencies at low and high rotational speeds, respectively, and a maximum efficiency of 86% was achieved for superhydrophobic copper foam (20 pores per inch) rotated at 1500 rpm.

U.S.-MEXICO BORDER PROGRAM ARIZONA BORDER STUDY--STANDARD OPERATING PROCEDURE FOR FIELD COLLECTION OF FOOD AND BEVERAGE SAMPLES (UA-F-15.1)

EPA Science Inventory

The purpose of this SOP is to provide a uniform procedure for the collection of a complete (all meals, snacks, and beverages), one-day (24 hour) duplicate diet sample from the primary respondent. Participants will keep a duplicate portion of all food consumed in a 24 hour period...

U.S.-MEXICO BORDER PROGRAM ARIZONA BORDER STUDY--STANDARD OPERATING PROCEDURE FOR COLLECTION OF SURFACE WIPE SAMPLES FOR PESTICIDES OR METALS ANALYSIS (UA-F-8.1)

EPA Science Inventory

The purpose of this SOP is to describe the procedures for collecting surface wipe samples inside a home for analysis of either metals or pesticides. This procedure covers the preparation of the surface wipe material and field activities. This protocol was followed to ensure con...

FIELD COLLECTION METHODS USED IN THE EPA NATIONAL EXPOSURE RESEARCH LABORATORY HUMAN EXPOSURE MEASUREMENT PROGRAM TO EVALUATE CHILDREN'S AGGREGATE EXPOSURE TO PESTICIDES: A TUTORIAL

EPA Science Inventory

A tutorial on the field sampling equipment used to collect multimedia samples.

We conduct observational human exposure measurement studies in order to understand what chemicals people come into contact with, at what levels, what the sources of those chemicals are, and wher...

NHEXAS PHASE I ARIZONA STUDY--STANDARD OPERATING PROCEDURE FOR COLLECTION OF DERMAL WIPE SAMPLES FOR PESTICIDES OR METALS (UA-F-9.1)

EPA Science Inventory

The purpose of this SOP is to describe the procedures for collecting a dermal wipe sample from a participant's hands for the measurement of pesticide or metal residues on the skin. This procedure covers the preparation of the dermal wipe material and field activities. This prot...

NHEXAS PHASE I ARIZONA STUDY--STANDARD OPERATING PROCEDURE FOR FIELD COLLECTION OF FOOD AND BEVERAGE SAMPLES (UA-F-15.1)

EPA Science Inventory

The purpose of this SOP is to provide a uniform procedure for the collection of a complete (all meals, snacks, and beverages), one-day (24 hour) duplicate diet sample from the primary respondent. Participants will keep a duplicate portion of all food consumed in a 24 hour period...

Evaluation of radiological impacts of tenorm in the Tunisian petroleum industry.

PubMed

Hrichi, Hajer; Baccouche, Souad; Belgaied, Jamel-Eddine

2013-01-01

The health impacts associated with uncontrolled release of TENORM in products and wastes released in the petroleum industry are of great concern. In this study, evaluation of TENORM in the Tunisian petroleum products and wastes is presented. Fourteen products samples, twelve waste samples and three samples from the surrounding environment were collected from the Tunisian Refinery STIR site and from two onshore production oilfields. The activity concentrations of (232)Th, (226)Ra and (40)K for all samples were determined using gamma-ray spectrometry with High Purity Germanium (HPGe) detector. The activity concentrations of (224)Ra were calculated only for scale samples. The radium equivalent activity, external and internal hazard indices, absorbed doses rates in air and annual effective dose were also estimated. It was noticed that maximum value of Ra(eq) activity was found to be 398 Bq/kg in scale (w8) collected from an onshore production oilfield which exceeds the maximum Ra(eq) value of 370 Bq/kg recommended for safe use. All hazard indices indicated that scale samples (w6, w7, w8 and w11) could be a significant waste problem especially sample (w8). In this study, the radium isotopic data were used to provide an estimate of scale samples ages by the use of the (224)Ra/(228)Ra activity ratio dating method. Ages of collected scales were found to be in the range 0.91-2.4 years. In this work, radioactivity (NORM contamination) in samples collected from the refinery STIR are showed to be insignificant if compared to those from onshore oilfield production sites. Copyright © 2012 Elsevier Ltd. All rights reserved.

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

Taylor, B.B.; Ripp, J.; Sims, R.C.

The Electric Power Research Institute (EPRI) is studying the environmental impact of preservatives associated with in-service utility poles. As part of this endeavor, two EPRI contractors, META Environmental, Inc. (META) and Atlantic Environmental Services, Inc. (Atlantic), have collected soil samples from around wood utility poles nationwide, for various chemical and physical analyses. This report covers the results for 107 pole sites in the US. These pole sites included a range of preservative types, soil types, wood types, pole sizes, and in-service ages. The poles in this study were preserved with one of two types of preservative: pentachlorophenol (PCP) or creosote.more » Approximately 40 to 50 soil samples were collected from each wood pole site in this study. The soil samples collected from the pole sites were analyzed for chlorinated phenols and total petroleum hydrocarbons (TPH) if the pole was preserved with PCP, or for polycyclic aromatic hydrocarbons (PAHs) if the pole was preserved with creosote. The soil samples were also analyzed for physical/chemical parameters, such as pH, total organic carbon (TOC), and cationic exchange capacity (CEC). Additional samples were used in studies to determine biological degradation rates, and soil-water distribution and retardation coefficients of PCP in site soils. Methods of analysis followed standard EPA and ASTM methods, with some modifications in the chemical analyses to enable the efficient processing of many samples with sufficiently low detection limits for this study. All chemical, physical, and site-specific data were stored in a relational computer database.« less

Use of FTA card for dry collection, transportation and storage of cervical cell specimen to detect high-risk HPV.

PubMed

Gustavsson, Inger; Lindell, Monica; Wilander, Erik; Strand, Anders; Gyllensten, Ulf

2009-10-01

The FTA elute micro card, which enable the collection, transport, and archiving of DNA could be an attractive alternative to a liquid based collection system for detection of human papillomavirus (HPV). To develop a method based on the FTA elute micro card for dry collection of cervical epithelial cell samples, suitable for subsequent PCR-based HPV testing. The method was evaluated by a comparison of the DNA collected by cytobrush and the regular FTA elute micro card from 50 cervical cell samples. The method was then used to estimate the DNA amount in 1040 samples applied to the indicating FTA elute micro card. The agreement in HPV positivity between the cytobrush and FTA samples (94%) was excellent (kappa=0.88, 95% CI 0.748-1). All the 1040 samples on the indicating FTA card had sufficient amounts of genomic DNA (>10 copies of a single copy gene) to be suitable for HPV typing. In 53 of the 1040 women the day in the menstrual cycle was noted, and the copy number during follicular phase day 9-13 was found to be statistically significantly lower than for the other three stages in the menstrual cycle (day 4-8, 14, >14) and during menopause. The indicating FTA elute micro card represents a suitable medium for collection of cervical cell samples, although follow-up studies are needed to verify the detection of low frequency HPV types.

Water Quality of Combined Sewer Overflows, Stormwater, and Streams, Omaha, Nebraska, 2006-07

USGS Publications Warehouse

Vogel, Jason R.; Frankforter, Jill D.; Rus, David L.; Hobza, Christopher M.; Moser, Matthew T.

2009-01-01

The U.S. Geological Survey, in cooperation with the City of Omaha, investigated the water quality of combined sewer overflows, stormwater, and streams in the Omaha, Nebraska, area by collecting and analyzing 1,175 water samples from August 2006 through October 2007. The study area included the drainage area of Papillion Creek at Capeheart Road near Bellevue, Nebraska, which encompasses the tributary drainages of the Big and Little Papillion Creeks and Cole Creek, along with the Missouri River reach that is adjacent to Omaha. Of the 101 constituents analyzed during the study, 100 were detected in at least 1 sample during the study. Spatial and seasonal comparisons were completed for environmental samples. Measured concentrations in stream samples were compared to water-quality criteria for pollutants of concern. Finally, the mass loads of water-quality constituents in the combined sewer overflow discharges, stormwater outfalls, and streams were computed and compared. The results of the study indicate that combined sewer overflow and stormwater discharges are affecting the water quality of the streams in the Omaha area. At the Papillion Creek Basin sites, Escherichia coli densities were greater than 126 units per 100 milliliters in 99 percent of the samples (212 of 213 samples analyzed for Escherichia coli) collected during the recreational-use season from May through September (in 2006 and 2007). Escherichia coli densities in 76 percent of Missouri River samples (39 of 51 samples) were greater than 126 units per 100 milliliters in samples collected from May through September (in 2006 and 2007). None of the constituents with human health criteria for consumption of water, fish, and other aquatic organisms were detected at levels greater than the criteria in any of the samples collected during this study. Total phosphorus concentrations in water samples collected in the Papillion Creek Basin were in excess of the U.S. Environmental Protection Agency's proposed criterion in all but four stream samples (266 of 270). Similarly, only 2 of 84 Missouri River samples had total phosphorus concentrations less than the proposed criterion. The proposed total nitrogen criterion for the Corn Belt and Northern Great Plains ecoregion was surpassed in 80 percent of the water samples collected from the stream sites. Samples with total nitrogen concentrations greater than the proposed criterion were most common at Papillion Creek and Big Papillion Creek sites, where the proposed criterion was surpassed in 90 and 96 percent of the samples collected, respectively. Elevated concentrations of total nitrogen were less common at the Missouri River sites, with 33 percent of the samples analyzed having concentrations that surpassed the proposed nutrient criterion for total nitrogen. The three constituents with measured concentrations greater than their respective health-based screening levels were nickel, zinc, and dichlorvos. Differences in water quality during the beginning, middle, and end of the combined sewer overflow discharge and the stream hydrograph rise, peak, and recession were investigated. Concentrations from the ending part of the combined sewer overflow hydrograph were significantly different than those from the beginning and middle parts for 3 and 11 constituents, respectively. No constituents were significantly different between the beginning and middle parts of the combined sewer overflow discharge hydrograph. For the stream site upstream from combined sewer overflow outfalls on Cole Creek, the constituents with geometric mean values for the hydrograph rise that were at least twice those for the values of the peak and recession were specific conductance, magnesium, nitrite, N,N-diethyl-meta-toluamide (DEET), methyl salicylate, p-cresol, and Escherichia coli. Similarly, the constituents where the hydrograph peak was at least twice that for the rise and recession at the upstream Cole Creek site were total suspended solids, silver, an

Rainfall, Streamflow, and Water-Quality Data During Stormwater Monitoring, Halawa Stream Drainage Basin, Oahu, Hawaii, July 1, 2002 to June 30, 2003

USGS Publications Warehouse

Young, Stacie T.M.; Ball, Marcael T.J.

2003-01-01

Storm runoff water-quality samples were collected as part of the State of Hawaii Department of Transportation Stormwater Monitoring Program. This program is designed to assess the effects of highway runoff and urban runoff on Halawa Stream. For this program, rainfall data was collected at two sites, continuous streamflow data at three sites, and water-quality data at five sites, which include the three streamflow sites. This report summarizes rainfall, streamflow, and water-quality data collected between July 1, 2002 to June 30, 2003. A total of 28 samples were collected over five storms during July 1, 2002 to June 30, 2003. For two of the five storms, five grab samples and three flow-weighted timecomposite samples were collected. Grab samples were collected nearly simultaneously at all five sites, and flow-weighted timecomposite samples were collected at the three sites equipped with automatic samplers. The other three storms were partially sampled, where only flow-weighted time-composite samples were collected and/or not all stations were sampled. Samples were analyzed for total suspended solids, total dissolved solids, nutrients, chemical oxygen demand, and selected trace metals (cadmium, copper, lead, and zinc). Grab samples were additionally analyzed for oil and grease, total petroleum hydrocarbons, fecal coliform, and biological oxygen demand. Quality-assurance/qualitycontrol samples, collected during storms and during routine maintenance, were also collected to verify analytical procedures and insure proper cleaning of equipment.

Comparison of methods used for estimating pharmacist counseling behaviors.

PubMed

Schommer, J C; Sullivan, D L; Wiederholt, J B

1994-01-01

To compare the rates reported for provision of types of information conveyed by pharmacists among studies for which different methods of estimation were used and different dispensing situations were studied. Empiric studies conducted in the US, reported from 1982 through 1992, were selected from International Pharmaceutical Abstracts, MEDLINE, and noncomputerized sources. Empiric studies were selected for review if they reported the provision of at least three types of counseling information. Four components of methods used for estimating pharmacist counseling behaviors were extracted and summarized in a table: (1) sample type and area, (2) sampling unit, (3) sample size, and (4) data collection method. In addition, situations that were investigated in each study were compiled. Twelve studies met our inclusion criteria. Patients were interviewed via telephone in four studies and were surveyed via mail in two studies. Pharmacists were interviewed via telephone in one study and surveyed via mail in two studies. For three studies, researchers visited pharmacy sites for data collection using the shopper method or observation method. Studies with similar methods and situations provided similar results. Data collected by using patient surveys, pharmacist surveys, and observation methods can provide useful estimations of pharmacist counseling behaviors if researchers measure counseling for specific, well-defined dispensing situations.

Effects of sampling methods on the quantity and quality of dissolved organic matter in sediment pore waters as revealed by absorption and fluorescence spectroscopy.

PubMed

Chen, Meilian; Lee, Jong-Hyeon; Hur, Jin

2015-10-01

Despite literature evidence suggesting the importance of sampling methods on the properties of sediment pore waters, their effects on the dissolved organic matter (PW-DOM) have been unexplored to date. Here, we compared the effects of two commonly used sampling methods (i.e., centrifuge and Rhizon sampler) on the characteristics of PW-DOM for the first time. The bulk dissolved organic carbon (DOC), ultraviolet-visible (UV-Vis) absorption, and excitation-emission matrixes coupled with parallel factor analysis (EEM-PARAFAC) of the PW-DOM samples were compared for the two sampling methods with the sediments from minimal to severely contaminated sites. The centrifuged samples were found to have higher average values of DOC, UV absorption, and protein-like EEM-PARAFAC components. The samples collected with the Rhizon sampler, however, exhibited generally more humified characteristics than the centrifuged ones, implying a preferential collection of PW-DOM with respect to the sampling methods. Furthermore, the differences between the two sampling methods seem more pronounced in relatively more polluted sites. Our observations were possibly explained by either the filtration effect resulting from the smaller pore size of the Rhizon sampler or the desorption of DOM molecules loosely bound to minerals during centrifugation, or both. Our study suggests that consistent use of one sampling method is crucial for PW-DOM studies and also that caution should be taken in the comparison of data collected with different sampling methods.

Rumen Bacterial Community Composition in Holstein and Jersey Cows Is Different under Same Dietary Condition and Is Not Affected by Sampling Method

PubMed Central

Paz, Henry A.; Anderson, Christopher L.; Muller, Makala J.; Kononoff, Paul J.; Fernando, Samodha C.

2016-01-01

The rumen microbial community in dairy cows plays a critical role in efficient milk production. However, there is a lack of data comparing the composition of the rumen bacterial community of the main dairy breeds. This study utilizes 16S rRNA gene sequencing to describe the rumen bacterial community composition in Holstein and Jersey cows fed the same diet by sampling the rumen microbiota via the rumen cannula (Holstein cows) or esophageal tubing (both Holstein and Jersey cows). After collection of the rumen sample via esophageal tubing, particles attached to the strainer were added to the sample to ensure representative sampling of both the liquid and solid fraction of the rumen contents. Alpha diversity metrics, Chao1 and observed OTUs estimates, displayed higher (P = 0.02) bacterial richness in Holstein compared to Jersey cows and no difference (P > 0.70) in bacterial community richness due to sampling method. The principal coordinate analysis displayed distinct clustering of bacterial communities by breed suggesting that Holstein and Jersey cows harbor different rumen bacterial communities. Family level classification of most abundant (>1%) differential OTUs displayed that OTUs from the bacterial families Lachnospiraceae and p-2534-18B5 to be predominant in Holstein cows compared to Jersey cows. Additionally, OTUs belonging to family Prevotellaceae were differentially abundant in the two breeds. Overall, the results from this study suggest that the bacterial community between Holstein and Jersey cows differ and that esophageal tubing with collection of feed particles associated with the strainer provides a representative rumen sample similar to a sample collected via the rumen cannula. Thus, in future studies esophageal tubing with addition of retained particles can be used to collect rumen samples reducing the cost of cannulation and increasing the number of animals used in microbiome investigations, thus increasing the statistical power of rumen microbial community evaluations. PMID:27536291

Water- and air-quality monitoring of the Sweetwater Reservoir Watershed, San Diego County, California-Phase One results, continued, 1999-2001

USGS Publications Warehouse

Mendez, Gregory O.; Foreman, William T.; Sidhu, Jagdeep S.; Majewski, Michael S.

2007-01-01

In 1998, the U.S. Geological Survey, in cooperation with the Sweetwater Authority, began a study to assess the overall health of the Sweetwater watershed with respect to chemical contamination. The study included regular sampling of air and water at Sweetwater Reservoir for chemical contaminants, including volatile organic compounds, polycyclic aromatic hydrocarbons, pesticides, and major and trace elements. Background water samples were collected at Loveland Reservoir for volatile organic compounds and pesticides. The purpose of this study was to monitor changes in contaminant composition and concentration in the air and water resulting from the construction and operation of State Route 125 near Sweetwater Reservoir. To accomplish this, the study was divided into two phases. Phase One sampling was designed to establish baseline conditions for target compounds in terms of detection frequency and concentration in air and water. Phase Two sampling is planned to continue at the established monitoring sites during and after construction of State Route 125 to assess the chemical impact this roadway alignment project may have on the water quality in the reservoir. In addition to the ongoing data collection, several special studies were initiated to assess the occurrence of specific chemicals of concern, such as low-use pesticides, trace metals, and wastewater compounds. This report describes the study design, and the sampling and analytical methods, and presents the results for the second and third years of the study (October 1999 to September 2001). Data collected during the first year of sampling (October 1998 to September 1999) were published in 2002.

RAT SPERM MOTILITY ANALYSIS: METHODOLOGICAL CONSIDERATIONS

EPA Science Inventory

The objective of these studies was to optimize conditions for computer assisted sperm analysis (CASA) of rat epididymal spermatozoa. ethodological issues addressed include sample collection technique, sampling region within the epididymis, type of diluent medium used, and sample ...

Rat sperm motility analysis: methodologic considerations

EPA Science Inventory

The objective of these studies was to optimize conditions for computer-assisted sperm analysis (CASA) of rat epididymal spermatozoa. Methodologic issues addressed include sample collection technique, sampling region within the epididymis, type of diluent medium used, and sample c...

Occurrence of pesticides in surface water and sediments from three central California coastal watersheds, 2008-2009

USGS Publications Warehouse

Smalling, Kelly L.; Orlando, James L.

2011-01-01

Water and sediment (bed and suspended) were collected from January 2008 through October 2009 from 12 sites in 3 of the largest watersheds along California's Central Coast (Pajaro, Salinas, and Santa Maria Rivers) and analyzed for a suite of pesticides by the U.S. Geological Survey. Water samples were collected in each watershed from the estuaries and major tributaries during 4 storm events and 11 dry season sampling events in 2008 and 2009. Bed sediments were collected from depositional zones at the tributary sampling sites three times over the course of the study. Suspended sediment samples were collected from the major tributaries during the four storm events and in the tributaries and estuaries during three dry season sampling events in 2009. Water samples were analyzed for 68 pesticides using gas chromatography/mass spectrometry. A total of 38 pesticides were detected in 144 water samples, and 13 pesticides were detected in more than half the samples collected over the course of the study. Dissolved pesticide concentrations ranged from below their method detection limits to 36,000 nanograms per liter (boscalid). The most frequently detected pesticides in water from all the watersheds were azoxystrobin, boscalid, chlorpyrifos, DCPA, diazinon, oxyfluorfen, prometryn, and propyzamide, which were found in more than 80 percent of the samples. On average, detection frequencies and concentrations were higher in samples collected during winter storm events compared to the summer dry season. With the exception of the fungicide, myclobutanil, the Santa Maria estuary watershed exhibited higher pesticide detection frequencies than the Pajaro and Salinas watersheds. Bed and suspended sediment samples were analyzed for 55 pesticides 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 samples, 17 pesticides were detected including pyrethroid and organophosphate (OP) insecticides, p,p'-DDT and its degradates, as well as several herbicides. The only pesticides detected more than half the time were p,p'-DDD, p,p'-DDE, and p,p'-DDT. Maximum pesticide concentrations ranged from less than their respective method detection limits to 234 micrograms per kilogram (p,p'-DDE). Four pyrethroids (bifenthrin, &# 955;-cyhalothrin, permethrin, and &# 964;-fluvalinate) were detected in bed sediment samples, though concentrations were relatively low (less than 10 microgram per kilogram). The greatest number of pesticides were detected in samples collected from Lower Orcutt Creek, the major tributary to the Santa Maria estuary. In suspended sediment samples, 19 pesticides were detected, and maximum concentrations ranged from less than the method detection limits to 549 micrograms per kilogram (chlorpyrifos). The most frequently detected pesticides were p,p'-DDE (49 percent), p,p'-DDT (38 percent), and chlorpyrifos (32 percent). During storm events, 19 pesticides were detected in suspended sediment samples compared to 10 detected during the dry season. Pesticide concentrations commonly were higher in suspended sediments during storm events than during the dry season, as well.

Empirical analysis shows reduced cost data collection may be an efficient method in economic clinical trials

PubMed Central

2012-01-01

Background Data collection for economic evaluation alongside clinical trials is burdensome and cost-intensive. Limiting both the frequency of data collection and recall periods can solve the problem. As a consequence, gaps in survey periods arise and must be filled appropriately. The aims of our study are to assess the validity of incomplete cost data collection and define suitable resource categories. Methods In the randomised KORINNA study, cost data from 234 elderly patients were collected quarterly over a 1-year period. Different strategies for incomplete data collection were compared with complete data collection. The sample size calculation was modified in response to elasticity of variance. Results Resource categories suitable for incomplete data collection were physiotherapy, ambulatory clinic in hospital, medication, consultations, outpatient nursing service and paid household help. Cost estimation from complete and incomplete data collection showed no difference when omitting information from one quarter. When omitting information from two quarters, costs were underestimated by 3.9% to 4.6%. With respect to the observed increased standard deviation, a larger sample size would be required, increased by 3%. Nevertheless, more time was saved than extra time would be required for additional patients. Conclusion Cost data can be collected efficiently by reducing the frequency of data collection. This can be achieved by incomplete data collection for shortened periods or complete data collection by extending recall windows. In our analysis, cost estimates per year for ambulatory healthcare and non-healthcare services in terms of three data collections was as valid and accurate as a four complete data collections. In contrast, data on hospitalisation, rehabilitation stays and care insurance benefits should be collected for the entire target period, using extended recall windows. When applying the method of incomplete data collection, sample size calculation has to be modified because of the increased standard deviation. This approach is suitable to enable economic evaluation with lower costs to both study participants and investigators. Trial registration The trial registration number is ISRCTN02893746 PMID:22978572

A metagenomic framework for the study of airborne microbial communities.

PubMed

Yooseph, Shibu; Andrews-Pfannkoch, Cynthia; Tenney, Aaron; McQuaid, Jeff; Williamson, Shannon; Thiagarajan, Mathangi; Brami, Daniel; Zeigler-Allen, Lisa; Hoffman, Jeff; Goll, Johannes B; Fadrosh, Douglas; Glass, John; Adams, Mark D; Friedman, Robert; Venter, J Craig

2013-01-01

Understanding the microbial content of the air has important scientific, health, and economic implications. While studies have primarily characterized the taxonomic content of air samples by sequencing the 16S or 18S ribosomal RNA gene, direct analysis of the genomic content of airborne microorganisms has not been possible due to the extremely low density of biological material in airborne environments. We developed sampling and amplification methods to enable adequate DNA recovery to allow metagenomic profiling of air samples collected from indoor and outdoor environments. Air samples were collected from a large urban building, a medical center, a house, and a pier. Analyses of metagenomic data generated from these samples reveal airborne communities with a high degree of diversity and different genera abundance profiles. The identities of many of the taxonomic groups and protein families also allows for the identification of the likely sources of the sampled airborne bacteria.

A Metagenomic Framework for the Study of Airborne Microbial Communities

PubMed Central

Tenney, Aaron; McQuaid, Jeff; Williamson, Shannon; Thiagarajan, Mathangi; Brami, Daniel; Zeigler-Allen, Lisa; Hoffman, Jeff; Goll, Johannes B.; Fadrosh, Douglas; Glass, John; Adams, Mark D.; Friedman, Robert; Venter, J. Craig

2013-01-01

Understanding the microbial content of the air has important scientific, health, and economic implications. While studies have primarily characterized the taxonomic content of air samples by sequencing the 16S or 18S ribosomal RNA gene, direct analysis of the genomic content of airborne microorganisms has not been possible due to the extremely low density of biological material in airborne environments. We developed sampling and amplification methods to enable adequate DNA recovery to allow metagenomic profiling of air samples collected from indoor and outdoor environments. Air samples were collected from a large urban building, a medical center, a house, and a pier. Analyses of metagenomic data generated from these samples reveal airborne communities with a high degree of diversity and different genera abundance profiles. The identities of many of the taxonomic groups and protein families also allows for the identification of the likely sources of the sampled airborne bacteria. PMID:24349140

Map showing locations and statistical parameters of beach and offshore sand samples, Tutuila Island, American Samoa

USGS Publications Warehouse

Dingler, J.R.; Carlson, D.V.; Sallenger, A.H.

1987-01-01

In April 1985, sand samples were collected from many of the beaches on Tutuila Island, American Samoa, and in July 1985, three bays were surveyed using side-scan sonar and shallow seismic profiling. During that second trip, scuba divers collected sand samples from the surveyed areas. Dingler and others (1986) describes the study; this report presents the grain-size and composition data for the onshore and offshore sand samples. Locations of the onshore samples are plotted on the map of the island, which is reproduced from Normark and others (1985); locations of most of the offshore samples and side-scan sonar interpretations made during the study are plotted on enlargements (A and B, respectively) of Fagaitua and Nua-seetaga Bays. Lam Yuen (1981), U.S. Army Corps of Engineers (1980), and Sea Engineering Services Inc. (1980) provide additional information pertaining to the island's beaches.

Occurrence of C. botulinum in healthy cattle and their environment following poultry botulism outbreaks in mixed farms.

PubMed

Souillard, R; Le Maréchal, C; Hollebecque, F; Rouxel, S; Barbé, A; Houard, E; Léon, D; Poëzévara, T; Fach, P; Woudstra, C; Mahé, F; Chemaly, M; Le Bouquin, S

2015-10-22

Ten cattle farms located in an area with a recent history of poultry botulism outbreaks were investigated to evaluate the occurrence of toxigenic C. botulinum in healthy cattle. Environmental samples in the 10 cattle farms and bovine fecal contents in farms with a confirmed environmental contamination were collected. Detection of C. botulinum toxin genes C, D, C/D, D/C and E was performed using real-time PCR. 4.9% (7/143) of the environmental samples collected in the 10 investigated cattle farms were positive for C. botulinum type C/D. Theses samples (boot-swabs in stalls and on pasture and water of a stream) were collected in 3 different farms. One cow dung sample and 3 out of 64 fecal contents samples collected in a single farm were also positive for C. botulinum type C/D. This study demonstrates that cattle are probably indirectly contaminated via poultry botulism in the area and that they can be intermittent carrier of C. botulinum type C/D after poultry botulism outbreaks in mixed farms. Copyright © 2015 Elsevier B.V. All rights reserved.

Detection of oral HPV infection - Comparison of two different specimen collection methods and two HPV detection methods.

PubMed

de Souza, Marjorie M A; Hartel, Gunter; Whiteman, David C; Antonsson, Annika

2018-04-01

Very little is known about the natural history of oral HPV infection. Several different methods exist to collect oral specimens and detect HPV, but their respective performance characteristics are unknown. We compared two different methods for oral specimen collection (oral saline rinse and commercial saliva kit) from 96 individuals and then analyzed the samples for HPV by two different PCR detection methods (single GP5+/6+ PCR and nested MY09/11 and GP5+/6+ PCR). For the oral rinse samples, the oral HPV prevalence was 10.4% (GP+ PCR; 10% repeatability) vs 11.5% (nested PCR method; 100% repeatability). For the commercial saliva kit samples, the prevalences were 3.1% vs 16.7% with the GP+ PCR vs the nested PCR method (repeatability 100% for both detection methods). Overall the agreement was fair or poor between samples and methods (kappa 0.06-0.36). Standardizing methods of oral sample collection and HPV detection would ensure comparability between future oral HPV studies. Copyright © 2017 Elsevier Inc. All rights reserved.

Liquid chromatography and ultra-performance liquid chromatography-mass spectrometry fingerprinting of human urine: sample stability under different handling and storage conditions for metabonomics studies.

PubMed

Gika, Helen G; Theodoridis, Georgios A; Wilson, Ian D

2008-05-02

Typically following collection biological samples are kept in a freezer for periods ranging from a few days to several months before analysis. Experience has shown that in LC-MS-based metabonomics research the best analytical practice is to store samples as these are collected, complete the sample set and analyse it in a single run. However, this approach is prudent only if the samples stored in the refrigerator or in the freezer are stable. Another important issue is the stability of the samples following the freeze-thaw process. To investigate these matters urine samples were collected from 6 male volunteers and analysed by LC-MS and ultra-performance liquid chromatography (UPLC)-MS [in both positive and negative electrospray ionization (ESI)] on the day of collection or at intervals of up to 6 months storage at -20 degrees C and -80 degrees C. Other sets of these samples underwent a series of up to nine freeze-thaw cycles. The stability of samples kept at 4 degrees C in an autosampler for up to 6 days was also assessed, with clear differences appearing after 48h. Data was analysed using multivariate statistical analysis (principal component analysis). The results show that sample storage at both -20 and -80 degrees C appeared to ensure sample stability. Similarly up to nine freeze thaw cycles were without any apparent effect on the profile.

Are Apparent Sex Differences in Mean IQ Scores Created in Part by Sample Restriction and Increased Male Variance?

ERIC Educational Resources Information Center

Dykiert, Dominika; Gale, Catharine R.; Deary, Ian J.

2009-01-01

This study investigated the possibility that apparent sex differences in IQ are at least partly created by the degree of sample restriction from the baseline population. We used a nationally representative sample, the 1970 British Cohort Study. Sample sizes varied from 6518 to 11,389 between data-collection sweeps. Principal components analysis of…

Bee (Hymenoptera: Apoidea) Diversity and Sampling Methodology in a Midwestern USA Deciduous Forest.

PubMed

McCravy, Kenneth W; Ruholl, Jared D

2017-08-04

Forests provide potentially important bee habitat, but little research has been done on forest bee diversity and the relative effectiveness of bee sampling methods in this environment. Bee diversity and sampling methodology were studied in an Illinois, USA upland oak-hickory forest using elevated and ground-level pan traps, malaise traps, and vane traps. 854 bees and 55 bee species were collected. Elevated pan traps collected the greatest number of bees (473), but ground-level pan traps collected greater species diversity (based on Simpson's diversity index) than did elevated pan traps. Elevated and ground-level pan traps collected the greatest bee species richness, with 43 and 39 species, respectively. An estimated sample size increase of over 18-fold would be required to approach minimum asymptotic richness using ground-level pan traps. Among pan trap colors/elevations, elevated yellow pan traps collected the greatest number of bees (266) but the lowest diversity. Malaise traps were relatively ineffective, collecting only 17 bees. Vane traps collected relatively low species richness (14 species), and Chao1 and abundance coverage estimators suggested that minimum asymptotic species richness was approached for that method. Bee species composition differed significantly between elevated pan traps, ground-level pan traps, and vane traps. Indicator species were significantly associated with each of these trap types, as well as with particular pan trap colors/elevations. These results indicate that Midwestern deciduous forests provide important bee habitat, and that the performance of common bee sampling methods varies substantially in this environment.

The Importance of Contamination Knowledge in Curation - Insights into Mars Sample Return

NASA Technical Reports Server (NTRS)

Harrington, A. D.; Calaway, M. J.; Regberg, A. B.; Mitchell, J. L.; Fries, M. D.; Zeigler, R. A.; McCubbin, F. M.

2018-01-01

The Astromaterials Acquisition and Curation Office at NASA Johnson Space Center (JSC), in Houston, TX (henceforth Curation Office) manages the curation of extraterrestrial samples returned by NASA missions and shared collections from international partners, preserving their integrity for future scientific study while providing the samples to the international community in a fair and unbiased way. The Curation Office also curates flight and non-flight reference materials and other materials from spacecraft assembly (e.g., lubricants, paints and gases) of sample return missions that would have the potential to cross-contaminate a present or future NASA astromaterials collection.

Rainfall, Discharge, and Water-Quality Data During Stormwater Monitoring, July 1, 2007, to June 30, 2008; Halawa Stream Drainage Basin and the H-1 Storm Drain, Oahu, Hawaii

USGS Publications Warehouse

Presley, Todd K.; Jamison, Marcael T.J.; Young, Stacie T.M.

2008-01-01

Storm runoff water-quality samples were collected as part of the State of Hawaii Department of Transportation Stormwater Monitoring Program. The program is designed to assess the effects of highway runoff and urban runoff on Halawa Stream and to assess the effects from the H-1 storm drain on Manoa Stream. For this program, rainfall data were collected at three stations, continuous discharge data at four stations, and water-quality data at six stations, which include the four continuous discharge stations. This report summarizes rainfall, discharge, and water-quality data collected between July 1, 2007, and June 30, 2008. A total of 16 environmental samples were collected over two storms during July 1, 2007, to June 30, 2008, within the Halawa Stream drainage area. Samples were analyzed for total suspended solids, total dissolved solids, nutrients, chemical oxygen demand, and selected trace metals (cadmium, chromium, copper, lead, and zinc). Additionally, grab samples were analyzed for oil and grease, total petroleum hydrocarbons, fecal coliform, and biological oxygen demand. Some samples were analyzed for only a partial list of these analytes because an insufficient volume of sample was collected by the automatic samplers. Three additional quality-assurance/quality-control samples were collected concurrently with the storm samples. A total of 16 environmental samples were collected over four storms during July 1, 2007, to June 30, 2008 at the H-1 Storm Drain. All samples at this site were collected using an automatic sampler. Samples generally were analyzed for total suspended solids, nutrients, chemical oxygen demand, oil and grease, total petroleum hydrocarbons, and selected trace metals (cadmium, chromium, copper, lead, nickel, and zinc), although some samples were analyzed for only a partial list of these analytes. During the storm of January 29, 2008, 10 discrete samples were collected. Varying constituent concentrations were detected for the samples collected at different times during this storm event. Two quality-assurance/quality-control samples were collected concurrently with the storm samples. Three additional quality-assurance/quality-control samples were collected during routine sampler maintenance to check the effectiveness of equipment-cleaning procedures.

Analytical procedures for the determination of fuel combustion products, anti-corrosive compounds, and de-icing compounds in airport runoff water samples.

PubMed

Sulej, Anna Maria; Polkowska, Żaneta; Astel, Aleksander; Namieśnik, Jacek

2013-12-15

The purpose of this study is to propose and evaluate new procedures for determination of fuel combustion products, anti-corrosive and de-icing compounds in runoff water samples collected from the airports located in different regions and characterized by different levels of the activity expressed by the number of flights and the number of passengers (per year). The most difficult step in the analytical procedure used for the determination of PAHs, benzotriazoles and glycols is sample preparation stage, due to diverse matrix composition, the possibility of interference associated with the presence of components with similar physicochemical properties. In this study, five different versions of sample preparation using extraction techniques, such as: LLE and SPE, were tested. In all examined runoff water samples collected from the airports, the presence of PAH compounds and glycols was observed. In majority of the samples, BT compounds were determined. Runoff water samples collected from the areas of Polish and British international airports as well as local airports had similar qualitative composition, but quantitative composition of the analytes was very diverse. New and validated analytical methodologies ensure that the necessary information for assessing the negative impact of airport activities on the environment can be obtained. © 2013 Elsevier B.V. All rights reserved.

Denuder/filter sampling of organic acids and organosulfates at urban and boreal forest sites: Gas/particle distribution and possible sampling artifacts

NASA Astrophysics Data System (ADS)

Kristensen, Kasper; Bilde, Merete; Aalto, Pasi P.; Petäjä, Tuukka; Glasius, Marianne

2016-04-01

Carboxylic acids and organosulfates comprise an important fraction of atmospheric secondary organic aerosols formed from both anthropogenic and biogenic precursors. The partitioning of these compounds between the gas and particle phase is still unclear and further research is warranted to better understand the abundance and effect of organic acids and organosulfates on the formation and properties of atmospheric aerosols. This work compares atmospheric aerosols collected at an urban and a boreal forest site using two side-by-side sampling systems; a high volume sampler (HVS) and a low volume (LVS) denuder/filter sampling system allowing for separate collection of gas- and particle-phase organics. All particle filters and denuder samples were collected at H.C. Andersen Boulevard (HCAB), Copenhagen, Denmark in the summer of 2010, and at the remote boreal forest site at Hyytiälä forestry field station in Finland in the summer of 2012. The chemical composition of gas- and particle-phase secondary organic aerosol was investigated by ultra-high performance liquid chromatography/electrospray ionization quadrupole time-of-flight mass spectrometry (UPLC/ESI-Q-TOFMS), with a focus on carboxylic acids and organosulfates. Results show gas-phase concentrations higher than those observed in the particle phase by a factor of 5-6 in HCAB 2010 and 50-80 in Hyytiälä 2012. Although abundant in the particle phase, no organosulfates were detected in the gas phase at either site. Through a comparison of samples collected by the HVS and the LVS denuder/filter sampling system we evaluate the potential artifacts associated with sampling of atmospheric aerosols. Such comparison shows that particle phase concentrations of semi-volatile organic acids obtained from the filters collected by HVS are more than two times higher than concentrations obtained from filters collected using LVS denuder/filter system. In most cases, higher concentrations of organosulfates are observed in particles collected by HVS compared to samples collected by LVS denuder/filter sampling system. The present study shows that volatile organics may absorb onto filter materials in the HVS (and similar sampling systems without denuder) and furthermore undergo subsequent on-filter oxidation and sulfation resulting in formation of both organic acids and organosulfates.

Near-shore and off-shore habitat use by endangered juvenile Lost River and Shortnose Suckers in Upper Klamath Lake, Oregon: 2006 data summary

USGS Publications Warehouse

Burdick, Summer M.; Wilkens, Alexander X.; VanderKooi, Scott P.

2008-01-01

We continued sampling juvenile suckers in 2006 as part of an effort to develop bioenergetics models for juvenile Lost River and shortnose suckers. This study required us to collect fish to determine growth rates and energy content of juvenile suckers. We followed the sampling protocols and methods described by Hendrixson et al. (2007b) to maintain continuity and facilitate comparisons with data collected in recent years, but sampled at a reduced level of effort compared to previous years (approximately one-third) due to limited funding. Here we present a summary of catch data collected in 2006. Bioenergetics models will be reported separately

Agreement for HPV genotyping detection between self-collected specimens on a FTA cartridge and clinician-collected specimens.

PubMed

Guan, Yaoyao; Gravitt, Patti E; Howard, Roslyn; Eby, Yolanda J; Wang, Shaoming; Li, Belinda; Feng, Changyan; Qiao, You-Lin; Castle, Philip E

2013-04-01

The current method of transporting self-collected cervicovaginal specimen for HPV DNA testing relies on liquid based medium, which is challenging and expensive to transport. A novel, dry storage and transportation device, Whatman indicating FTA™ Elute Cartridge, avoids some of the pitfalls of liquid-based medium. This method has been shown to be comparable to liquid-based collection medium, but relative performance of self-collected (SC) and clinician-collected (CC) samples onto FTA cards has not been reported. The objective of this study is to compare the analytic performance of self- and clinician-collected samples onto FTA cartridges for the detection of carcinogenic HPV using Linear Array. There was a 91% agreement, 69% positive agreement, and kappa of 0.75 between the clinician-collected and self-collected specimens for detection of any carcinogenic HPV genotype. When the HPV results were categorized hierarchically according to cervical cancer risk, there was no difference in the distribution of the HPV results for the clinician- and self-collected specimens (p=0.7). This study concludes that FTA elute cartridge is a promising method of specimen transport for cervical cancer screening programs considering using self-collected specimen and HPV testing. Larger studies with clinical endpoints are now needed to assess the clinical performance. Copyright © 2012 Elsevier B.V. All rights reserved.

Surface-water-quality assessment of the Yakima River basin in Washington: major-and minor-element data for sediment, water, and aquatic biota, 1987-91

USGS Publications Warehouse

Fuhrer, Gregory J.; Fluter, Shelley L.; McKenzie, Stuart W.; Rinella, Joseph F.; Crawford, J. Kent; Cain, Daniel J.; Hornberger, Michelle I.; Bridges, Jennifer L.; Skach, Kenneth A.

1994-01-01

Streambed-sediment samples were collected once from 27 sites in the basin during 1987-91. Suspended-sediment and filtered-water samples were collected monthly and during hydrologic events (including snowmelt and winter rainstorms) at seven sites, and filtered-water samples were collected at least once at an additional 37 sites during synoptic samplings. Unfiltered-water samples were collected at seven sites on a quarterly basis during 1987 only. Samples of aquatic plants were collected once in 1989, and aquatic insects, fish, and clams were collected from 34 sites three times during 1989-90.

Spanish Multicenter Normative Studies (NEURONORMA Project): methods and sample characteristics.

PubMed

Peña-Casanova, Jordi; Blesa, Rafael; Aguilar, Miquel; Gramunt-Fombuena, Nina; Gómez-Ansón, Beatriz; Oliva, Rafael; Molinuevo, José Luis; Robles, Alfredo; Barquero, María Sagrario; Antúnez, Carmen; Martínez-Parra, Carlos; Frank-García, Anna; Fernández, Manuel; Alfonso, Verónica; Sol, Josep M

2009-06-01

This paper describes the methods and sample characteristics of a series of Spanish normative studies (The NEURONORMA project). The primary objective of our research was to collect normative and psychometric information on a sample of people aged over 49 years. The normative information was based on a series of selected, but commonly used, neuropsychological tests covering attention, language, visuo-perceptual abilities, constructional tasks, memory, and executive functions. A sample of 356 community dwelling individuals was studied. Demographics, socio-cultural, and medical data were collected. Cognitive normality was validated via informants and a cognitive screening test. Norms were calculated for midpoint age groups. Effects of age, education, and sex were determined. The use of these norms should improve neuropsychological diagnostic accuracy in older Spanish subjects. These data may also be of considerable use for comparisons with other normative studies. Limitations of these normative data are also commented on.

Methods, quality assurance, and data for assessing atmospheric deposition of pesticides in the Central Valley of California

USGS Publications Warehouse

Zamora, Celia; Majewski, Michael S.; Foreman, William T.

2013-01-01

The U.S. Geological Survey monitored atmospheric deposition of pesticides in the Central Valley of California during two studies in 2001 and 2002–04. The 2001 study sampled wet deposition (rain) and storm-drain runoff in the Modesto, California, area during the orchard dormant-spray season to examine the contribution of pesticide concentrations to storm runoff from rainfall. In the 2002–04 study, the number and extent of collection sites in the Central Valley were increased to determine the areal distribution of organophosphate insecticides and other pesticides, and also five more sample types were collected. These were dry deposition, bulk deposition, and three sample types collected from a soil box: aqueous phase in runoff, suspended sediment in runoff, and surficial-soil samples. This report provides concentration data and describes methods and quality assurance of sample collection and laboratory analysis for pesticide compounds in all samples collected from 16 sites. Each sample was analyzed for 41 currently used pesticides and 23 pesticide degradates, including oxygen analogs (oxons) of 9 organophosphate insecticides. Analytical results are presented by sample type and study period. The median concentrations of both chloryprifos and diazinon sampled at four urban (0.067 micrograms per liter [μg/L] and 0.515 μg/L, respectively) and four agricultural sites (0.079 μg/L and 0.583 μg/L, respectively) during a January 2001 storm event in and around Modesto, Calif., were nearly identical, indicating that the overall atmospheric burden in the region appeared to be fairly similar during the sampling event. Comparisons of median concentrations in the rainfall to those in the McHenry storm-drain runoff showed that, for some compounds, rainfall contributed a substantial percentage of the concentration in the runoff; for other compounds, the concentrations in rainfall were much greater than in the runoff. For example, diazinon concentrations in rainfall were about 70 percent of the diazinon concentration in the runoff, whereas the chlorpyrifos concentration in the rain was 1.8 times greater than in the runoff. The more water-soluble pesticides—carbaryl, metolachlor, napropamide, and simazine—followed the same pattern as diazinon and had lower concentrations in rain compared to runoff. Similar to chlorpyrifos,compounds with low water solubilities and higher soil-organic carbon partition coefficients, including dacthal, pendimethalin, and trifluralin, were found to have higher concentrations in rain than in runoff water and were presumed to partition to the suspended sediments and organic matter on the ground. During the 2002–04 study period, the herbicide dacthal had the highest detection frequencies for all sample types collected from the Central Valley sites (67–100 percent). The most frequently detected compounds in the wet-deposition samples were dacthal, diazinon, chlorpyrifos, and simazine (greater than 90 percent). The median wet-deposition amounts for these compounds were 0.044 micrograms per square meter per day (μg/m2/day), 0.209 μg/m2/day, 0.079 μg/m2/day, and 0.172 μg/m2/day, respectively. For the dry-deposition samples, detection frequencies were greater than 73 percent for the compounds dacthal, metolachor, and chlorpyrifos, and median deposition amounts were an order of magnitude less than for wet deposition. The differences between wet deposition and dry deposition appeared to be closely related to the Henry’s Law (H) constant of each compound, although the mass deposited by dry deposition takes place over a much longer time frame. Pesticides detected in rainfall usually were detected in the aqueous phase of the soil-box runoff water, and the runoff concentrations were generally similar to those in the rainfall. For compounds detected in the aqueous phase and suspended-sediment samples of soil-box runoff, concentrations of pesticides in the aqueous phase generally were detected in low concentrations and had few corresponding detections in the suspended- sediment samples. Dacthal, diazinon, chlorpyrifos, and simazine were the most frequently detected pesticides (greater than 83 percent) in the aqueous-phase samples, with median concentrations of 0.010 μg/L, 0.045 μg/L, 0.016 μg/L, and 0.077 μg/L, respectively. Simazine was the most frequently detected compound in the suspended-sediment samples (69 percent), with a median concentration of 0.232 μg/L. Results for compounds detected in the surficial-soil samples collected throughout the study period showed that there was an increase in concentration for some compounds, indicating atmospheric deposition of these compounds onto the soil-box surface. In the San Joaquin Valley, the compounds chlorpyrifos, dacthal, and iprodione were detected at higher concentrations (between 1.4 and 2 times greater) than were found in the background samples collected from the San Joaquin Valley soil-box sites. In the Sacramento Valley, the compounds chlorpyrifos, dacthal, iprodione, parathionmethyl, and its oxygen analog, paraoxon-methyl, were detected in samples collected during the study period in low concentrations, but were not detected in the background concentration of the Sacramento Valley soil mix.

Plasma cortisol and faecal cortisol metabolites concentrations in stereotypic and non-stereotypic horses: do stereotypic horses cope better with poor environmental conditions?

PubMed Central

2013-01-01

Background Stereotypic behaviours, i.e. repetitive behaviours induced by frustration, repeated attempts to cope and/or brain dysfunction, are intriguing as they occur in a variety of domestic and captive species without any clear adaptive function. Among the different hypotheses, the coping hypothesis predicts that stereotypic behaviours provide a way for animals in unfavourable environmental conditions to adjust. As such, they are expected to have a lower physiological stress level (glucocorticoids) than non-stereotypic animals. Attempts to link stereotypic behaviours with glucocorticoids however have yielded contradictory results. Here we investigated correlates of oral and motor stereotypic behaviours and glucocorticoid levels in two large samples of domestic horses (NStudy1 = 55, NStudy2 = 58), kept in sub-optimal conditions (e.g. confinement, social isolation), and already known to experience poor welfare states. Each horse was observed in its box using focal sampling (study 1) and instantaneous scan sampling (study 2). Plasma samples (collected in study 1) but also non-invasive faecal samples (collected in both studies) were retrieved in order to assess cortisol levels. Results Results showed that 1) plasma cortisol and faecal cortisol metabolites concentrations did not differ between horses displaying stereotypic behaviours and non-stereotypic horses and 2) both oral and motor stereotypic behaviour levels did not predict plasma cortisol or faecal cortisol metabolites concentrations. Conclusions Cortisol measures, collected in two large samples of horses using both plasma sampling as well as faecal sampling (the latter method minimizing bias due to a non-invasive sampling procedure), therefore do not indicate that stereotypic horses cope better, at least in terms of adrenocortical activity. PMID:23289406

Human milk as a vector and an indicator of exposure to PCBs and PBDEs: temporal trend of samples collected in Rome.

PubMed

Alivernini, S; Battistelli, C L; Turrio-Baldassarri, L

2011-07-01

Thirty-seven polychlorobiphenyl (PCB) congeners and seven polybromodiphenylether (PBDE) congeners were measured in human milk samples collected in Rome between 2005 and 2007. The comparison of results with two previous studies performed in Rome in 1984 and in 2000-2001 indicates a 64% decrease of PCB levels, still in progress; profile differences with time were also evident as lighter congeners are less relevant now; data are in good agreement with recent European studies. PBDE contamination profiles were different in individual samples and a similar variability was observed in data from different countries, suggesting different exposure pathways and profiles.

Accuracy and Cost-Effectiveness of Cervical Cancer Screening by High-Risk HPV DNA Testing of Self-Collected Vaginal Samples

PubMed Central

Balasubramanian, Akhila; Kulasingam, Shalini L.; Baer, Atar; Hughes, James P.; Myers, Evan R.; Mao, Constance; Kiviat, Nancy B.; Koutsky, Laura A.

2010-01-01

Objective Estimate the accuracy and cost-effectiveness of cervical cancer screening strategies based on high-risk HPV DNA testing of self-collected vaginal samples. Materials and Methods A subset of 1,665 women (18-50 years of age) participating in a cervical cancer screening study were screened by liquid-based cytology and by high-risk HPV DNA testing of both self-collected vaginal swab samples and clinician-collected cervical samples. Women with positive/abnormal screening test results and a subset of women with negative screening test results were triaged to colposcopy. Based on individual and combined test results, five screening strategies were defined. Estimates of sensitivity and specificity for cervical intraepithelial neoplasia grade 2 or worse were calculated and a Markov model was used to estimate the incremental cost-effectiveness ratios (ICERs) for each strategy. Results Compared to cytology-based screening, high-risk HPV DNA testing of self-collected vaginal samples was more sensitive (68%, 95%CI=58%-78% versus 85%, 95%CI=76%-94%) but less specific (89%, 95%CI=86%-91% versus 73%, 95%CI=67%-79%). A strategy of high-risk HPV DNA testing of self-collected vaginal samples followed by cytology triage of HPV positive women, was comparably sensitive (75%, 95%CI=64%-86%) and specific (88%, 95%CI=85%-92%) to cytology-based screening. In-home self-collection for high-risk HPV DNA detection followed by in-clinic cytology triage had a slightly lower lifetime cost and a slightly higher quality-adjusted life expectancy than did cytology-based screening (ICER of triennial screening compared to no screening was $9,871/QALY and $12,878/QALY, respectively). Conclusions Triennial screening by high-risk HPV DNA testing of in-home, self-collected vaginal samples followed by in-clinic cytology triage was cost-effective. PMID:20592553

Variability of collagen crosslinks: impact of sample collection period

NASA Technical Reports Server (NTRS)

Smith, S. M.; Dillon, E. L.; DeKerlegand, D. E.; Davis-Street, J. E.

2004-01-01

Because of the variability of collagen crosslinks, their use as markers for bone resorption is often criticized. We hypothesized that the variability could be reduced by collecting urine for 24 hours (or longer) instead of using single voids, and by not normalizing to creatinine. Urine samples were collected from 22 healthy subjects during two or more 24-hour periods. Each 24-hour pool and each 2nd void of the day were analyzed for N-telopeptide (NTX), pyridinium (PYD), and deoxypyridinoline (DPD) crosslinks. Data were analyzed by using linear regression. For NTX, R2 for the two, 2nd-void samples (n = 38) was 0.55, whereas R2 for the two 24-hour pools was 0.51 or 0.52, expressed per day or per creatinine. For PYD and DPD, R2 for the 2nd-void samples was 0.26 and 0.18, R2 for the 24-hour pools expressed per day was 0.58 and 0.74, and R2 for the 24-hour pools expressed per creatinine was 0.65 and 0.76, respectively. Regression of the 2nd void and the corresponding 24-hour pool, expressed per day, yielded R2 = 0.19, 0.19, and 0.08, for NTX, PYD, and DPD, respectively (n = 76 each). For the 2nd-void sample and its corresponding 24-hour pool, expressed per creatinine, R2 = 0.24, 0.33, and 0.08, respectively. In a separate study, the coefficient of variation for NTX was reduced (P < 0.05) when data from more than one 24-hour collection were combined. Thus, the variability inherent in crosslink determinations can be reduced by collecting urine for longer periods. In research studies, the high variability of single-void collections, compounded by creatinine normalization, may alter or obscure findings.

Hydrologic, lithologic, and chemical data for sediment in the shallow alluvial aquifer at two sites near Fallon, Churchill County, Nevada, 1984-85

USGS Publications Warehouse

Lico, M.S.; Welch, A.H.; Hughes, J.L.

1986-01-01

The U.S. Geological Survey collected an extensive amount of hydrogeologic data from the shallow alluvial aquifer at two study sites near Fallon, Nevada, from 1984 though 1985. These data were collected as part of a study to determine the geochemical controls on the mobility of arsenic and other trace elements in shallow groundwater systems. The main study area is approximately 7 miles south of Fallon. A subsidiary study area is about 8 miles east of Fallon. The data collected include lithologic logs and water level altitudes for the augered sampling wells and piezometers, and determinations of arsenic and selenium content, grain size, porosity, hydraulic conductivity, and mineralogy for sediment samples from cores. (USGS)

Locations and descriptions of gravity, box, and push cores collected in San Francisco Bay between January and February, 1990 and 1991

USGS Publications Warehouse

Anima, Roberto J.; Clifton, H. Edward; Reiss, Carol; Wong, Florence L.

2005-01-01

A project to study San Francisco Bay sediments collected over 300 sediment gravity cores; six push cores, and three box cores in San Francisco Bay during the years 1990-91. The purpose of the sampling effort is to establish a database on the Holocene sediment history of the bay. The samples described and mapped are the first effort to catalog and present the data collected. Thus far the cores have been utilized in various cooperative studies with state colleges and universities, and other USGS divisions. These cores serve as a base for ongoing multidisciplinary studies. The sediment studies project has initiated subsequent coring efforts within the bay using refined coring techniques to attain deeper cores.

Evaluation of rayon swab surface sample collection method for Bacillus spores from nonporous surfaces.

PubMed

Brown, G S; Betty, R G; Brockmann, J E; Lucero, D A; Souza, C A; Walsh, K S; Boucher, R M; Tezak, M S; Wilson, M C; Rudolph, T; Lindquist, H D A; Martinez, K F

2007-10-01

To evaluate US Centers for Disease Control and Prevention recommended swab surface sample collection method for recovery efficiency and limit of detection for powdered Bacillus spores from nonporous surfaces. Stainless steel and painted wallboard surface coupons were seeded with dry aerosolized Bacillus atrophaeus spores and surface concentrations determined. The observed mean rayon swab recovery efficiency from stainless steel was 0.41 with a standard deviation (SD) of +/-0.17 and for painted wallboard was 0.41 with an SD of +/-0.23. Evaluation of a sonication extraction method for the rayon swabs produced a mean extraction efficiency of 0.76 with an SD of +/-0.12. Swab recovery quantitative limits of detection were estimated at 25 colony forming units (CFU) per sample area for both stainless steel and painted wallboard. The swab sample collection method may be appropriate for small area sampling (10 -25 cm2) with a high agent concentration, but has limited value for large surface areas with a low agent concentration. The results of this study provide information necessary for the interpretation of swab environmental sample collection data, that is, positive swab samples are indicative of high surface concentrations and may imply a potential for exposure, whereas negative swab samples do not assure that organisms are absent from the surfaces sampled and may not assure the absence of the potential for exposure. It is critical from a public health perspective that the information obtained is accurate and reproducible. The consequence of an inappropriate public health response founded on information gathered using an ineffective or unreliable sample collection method has the potential for undesired social and economic impact.

NHEXAS PHASE I ARIZONA STUDY--LIST OF STANDARD OPERATING PROCEDURES

EPA Science Inventory

This document lists available protocols and SOPs for the NHEXAS Phase I Arizona study. It identifies protocols and SOPs for the following study components: (1) Sample collection and field operations, (2) Sample analysis, (3) General laboratory procedures, (4) Quality Assurance, (...

A study of the level and dynamics of Eimeria populations in naturally infected, grazing beef cattle at various stages of production in the Mid-Atlantic USA.

PubMed

Lucas, Aaron S; Swecker, William S; Lindsay, David S; Scaglia, Guillermo; Neel, James P S; Elvinger, Francois C; Zajac, Anne M

2014-05-28

There is little information available on the species dynamics of eimerian parasites in grazing cattle in the central Appalachian region of the United States. Therefore, the objective of this study was to describe the level of infection and species dynamics of Eimeria spp. in grazing beef cattle of various age groups over the course of a year in the central Appalachian region. Rectal fecal samples were collected from male and female calves (n=72) monthly from May through October 2005, heifers only (n=36) monthly from November 2005 to April 2006, and cows (n=72) in May, July, and September, 2005. Eimeria spp. oocysts were seen in 399 of 414 (96%) fecal samples collected from the calves from May through October. Fecal oocysts counts (FOC) in the calves were lower (P<0.05) in May than all other months and no significant differences were detected from June through September. Eimeria spp. oocysts were detected in 198 of 213 (92%) of fecal samples collected from the 36 replacement heifers monthly from November to April and monthly mean FOC did not differ during this time period. The prevalence of oocyst shedding increased to 100% in calves in September and remained near 100% in the replacement heifers during the sampling period. Eimeria spp. oocysts were also detected in 150 of 200 (75%) samples collected in May, July, and September from the cows and mean FOC did not differ significantly over the sampling period. Eimeria spp. composition was dominated by Eimeria bovis in fecal samples collected from calves, replacement heifers and cows. Mixed Eimeria spp. infections were, however, common in all groups and 13 Eimeria spp. oocysts were identified throughout the sampling period. Copyright © 2014 Elsevier B.V. All rights reserved.

Stability Study of Cervical Specimens Collected by Swab and Stored Dry Followed by Human Papillomavirus DNA Detection Using the cobas 4800 Test.

PubMed

Lin, Chun-Qing; Zeng, Xi; Cui, Jian-Feng; Liao, Guang-Dong; Wu, Ze-Ni; Gao, Qian-Qian; Zhang, Xun; Yu, Xiu-Zhang; Chen, Wen; Xi, Ming-Rong; Qiao, You-Lin

2017-02-01

Safer, more convenient methods for cervical sample collection and storage are necessary to facilitate human papillomavirus (HPV) DNA testing in low-resource settings. Our study aimed to evaluate the stability of cervical specimens collected with dry swabs and stored dry, compared to liquid-based cytology (LBC) samples, as detected by HPV DNA testing. Women with abnormal cytological findings or HPV-positive results at colposcopy were recruited from the West China Second University Hospital, Sichuan University, between October 2013 and March 2014. From each woman, physicians collected cervical specimens with a swab placed into a Sarstedt tube and a CytoBrush placed into LBC medium. Samples were randomly assigned to be stored at uncontrolled ambient temperature for 2, 7, 14, or 28 days and then were tested for 14 high-risk HPV (HR-HPV) types using the cobas HPV test. The rates of agreement between dry swab and LBC samples for any HR-HPV type, HPV16, HPV18, and the 12 pooled HR-HPV types were 93.8%, 97.8%, 99.4%, and 93.2%, respectively, with kappa values of 0.87 (95% confidence interval [CI], 0.83 to 0.91), 0.94 (95% CI, 0.91 to 0.97), 0.94 (95% CI, 0.87 to 1.00), and 0.86 (95% CI, 0.82 to 0.90). The performance of swab samples for detection of cervical precancerous lesions by means of cobas HPV testing was equal to that of LBC samples, even with stratification by storage time. Dry storage of swab-collected cervical samples can last for 1 month without loss of test performance by cobas HPV testing, compared to LBC samples, which may offer a simple inexpensive approach for cervical cancer screening in low-resource settings. Copyright © 2017 American Society for Microbiology.

ARM-LBNL-NOAA Flask Sampler for Carbon Cycle Gases

DOE Data Explorer

Torn, Margaret

2008-01-15

Data from ccg-flasks are sampled at the ARM SGP site and analyzed by the NOAA Earth System Research Laboratory (ESRL) as part of the NOAA Cooperative Global Air Sampling Network. Surface samples are collected from a 60m tower at the SGP Central Facility, usually once per week on one afternoon. The aircraft samples are collected approximately weekly from a chartered aircraft, and the collection flight path is centered over the tower where the surface samples are collected. Samples are collected by the ARM/LBNL Carbon Project. CO2 flask data contains measurements of CO2 concentration and CO2 stable isotope ratios (13CO2 and C18OO) from flasks collected at the SGP site. The flask samples are collected at 2m, 4m, 25m, and 60m along the 60m tower.

Study on Big Database Construction and its Application of Sample Data Collected in CHINA'S First National Geographic Conditions Census Based on Remote Sensing Images

NASA Astrophysics Data System (ADS)

Cheng, T.; Zhou, X.; Jia, Y.; Yang, G.; Bai, J.

2018-04-01

In the project of China's First National Geographic Conditions Census, millions of sample data have been collected all over the country for interpreting land cover based on remote sensing images, the quantity of data files reaches more than 12,000,000 and has grown in the following project of National Geographic Conditions Monitoring. By now, using database such as Oracle for storing the big data is the most effective method. However, applicable method is more significant for sample data's management and application. This paper studies a database construction method which is based on relational database with distributed file system. The vector data and file data are saved in different physical location. The key issues and solution method are discussed. Based on this, it studies the application method of sample data and analyzes some kinds of using cases, which could lay the foundation for sample data's application. Particularly, sample data locating in Shaanxi province are selected for verifying the method. At the same time, it takes 10 first-level classes which defined in the land cover classification system for example, and analyzes the spatial distribution and density characteristics of all kinds of sample data. The results verify that the method of database construction which is based on relational database with distributed file system is very useful and applicative for sample data's searching, analyzing and promoted application. Furthermore, sample data collected in the project of China's First National Geographic Conditions Census could be useful in the earth observation and land cover's quality assessment.

Validation of DESS as a DNA Preservation Method for the Detection of Strongyloides spp. in Canine Feces.

PubMed

Beknazarova, Meruyert; Millsteed, Shelby; Robertson, Gemma; Whiley, Harriet; Ross, Kirstin

2017-06-09

Strongyloides stercoralis is a gastrointestinal parasitic nematode with a life cycle that includes free-living and parasitic forms. For both clinical (diagnostic) and environmental evaluation, it is important that we can detect Strongyloides spp. in both human and non-human fecal samples. Real-time PCR is the most feasible method for detecting the parasite in both clinical and environmental samples that have been preserved. However, one of the biggest challenges with PCR detection is DNA degradation during the postage time from rural and remote areas to the laboratory. This study included a laboratory assessment and field validation of DESS (dimethyl sulfoxide, disodium EDTA, and saturated NaCl) preservation of Strongyloides spp. DNA in fecal samples. The laboratory study investigated the capacity of 1:1 and 1:3 sample to DESS ratios to preserve Strongyloides ratti in spike canine feces. It was found that both ratios of DESS significantly prevented DNA degradation compared to the untreated sample. This method was then validated by applying it to the field-collected canine feces and detecting Strongyloides DNA using PCR. A total of 37 canine feces samples were collected and preserved in the 1:3 ratio (sample: DESS) and of these, 17 were positive for Strongyloides spp. The study shows that both 1:1 and 1:3 sample to DESS ratios were able to preserve the Strongyloides spp. DNA in canine feces samples stored at room temperature for up to 56 days. This DESS preservation method presents the most applicable and feasible method for the Strongyloides DNA preservation in field-collected feces.

SPRUCE Peat Physical and Chemical Characteristics from Experimental Plot Cores, 2012

DOE Data Explorer

Iversen, C. M. [Oak Ridge National Laboratory, U.S. Department of Energy, Oak Ridge, Tennessee, U.S.A.; Hanson, P. J. [Oak Ridge National Laboratory, U.S. Department of Energy, Oak Ridge, Tennessee, U.S.A.; Brice, D. J. [Oak Ridge National Laboratory, U.S. Department of Energy, Oak Ridge, Tennessee, U.S.A.; Phillips, J. R. [Oak Ridge National Laboratory, U.S. Department of Energy, Oak Ridge, Tennessee, U.S.A.; McFarlane, K. J. [Oak Ridge National Laboratory, U.S. Department of Energy, Oak Ridge, Tennessee, U.S.A.; Hobbie, E. A. [Oak Ridge National Laboratory, U.S. Department of Energy, Oak Ridge, Tennessee, U.S.A.; Kolka, R. K. [Oak Ridge National Laboratory, U.S. Department of Energy, Oak Ridge, Tennessee, U.S.A.

2012-01-01

This data set reports the results of physical and chemical analyses of peat core samples from the SPRUCE experimental study plots located in the S1-Bog. On August 13-15, 2012, a team of SPRUCE investigators and collaborators collected core samples of peat in the SPRUCE experimental plots. The goal was to characterize the biological, physical, and chemical characteristics of peat, and how those characteristics changed throughout the depth profile of the bog, prior to the initialization of the SPRUCE experimental warming and CO2 treatments. Cores were collected from 16 experimental plots; samples were collected from the hummock and hollow surfaces to depths of 200-300 cm in defined increments. Three replicate cores were collected from both hummock and hollow locations in each plot. The coring locations within each plot were mapped

Rainfall, Discharge, and Water-Quality Data During Stormwater Monitoring, July 1, 2008, to June 30, 2009 - Halawa Stream Drainage Basin and the H-1 Storm Drain, Oahu, Hawaii

USGS Publications Warehouse

Presley, Todd K.; Jamison, Marcael T.J.

2009-01-01

Storm runoff water-quality samples were collected as part of the State of Hawaii Department of Transportation Stormwater Monitoring Program. The program is designed to assess the effects of highway runoff and urban runoff on Halawa Stream, and to assess the effects from the H-1 storm drain on Manoa Stream. For this program, rainfall data were collected at three stations, continuous discharge data at five stations, and water-quality data at six stations, which include the five continuous discharge stations. This report summarizes rainfall, discharge, and water-quality data collected between July 1, 2008, and June 30, 2009. Within the Halawa Stream drainage area, three storms (October 25 and December 11, 2008, and February 3, 2009) were sampled during July 1, 2008, to June 30, 2009. A total of 43 environmental samples were collected during these three storms. During the storm of October 25, 2009, 31 samples were collected and analyzed individually for metals only. The other 12 samples from the other two storms were analyzed for some or all of the following analytes: total suspended solids, total dissolved solids, nutrients, chemical oxygen demand, and selected trace metals (cadmium, chromium, copper, lead, and zinc). Additionally, grab samples were analyzed for some or all of the following analytes: oil and grease, total petroleum hydrocarbons, fecal coliform, and biological oxygen demand. Some grab and composite samples were analyzed for only a partial list of these analytes, either because samples could not be delivered to the laboratory in a timely manner, or an insufficient volume of sample was collected by the automatic samplers. Two quality-assurance/quality-control samples were collected after cleaning automatic sampler lines to verify that the sampling lines were not contaminated. Four environmental samples were collected at the H-1 Storm Drain during July 1, 2008, to June 30, 2009. An oil and grease sample and a composite sample were collected during the storm on November 15, 2008, and two composite samples were collected during the January 11, 2009, storm. All samples at this site were collected using an automatic sampler. Samples were analyzed for some or all of the following analytes: total suspended solids, nutrients, oil and grease, total petroleum hydrocarbons, and selected trace metals (cadmium, chromium, copper, lead, nickel, and zinc). One qualityassurance/quality-control sample was collected after cleaning automatic sampler lines to verify that the sampling lines were not contaminated. During the storm of January 11, 2009, the two composite samples collected at H-1 Storm Drain were collected about three hours apart. Higher constituent concentrations were detected in the first 2 composite sample relative to the second composite sample, although the average discharge was higher during the period when the second sample was collected.

Early infant diagnosis of HIV in Myanmar: call for innovative interventions to improve uptake and reduce turnaround time.

PubMed

Thiha, Soe; Shewade, Hemant Deepak; Philip, Sairu; Aung, Thet Ko; Kyaw, Nang Thu Thu; Oo, Myo Minn; Kyaw, Khine Wut Yee; War, May Wint; Oo, Htun Nyunt

2017-01-01

In collaboration with the national AIDS program, early infant diagnosis (EID) is implemented by Integrated HIV Care (IHC) program through its anti-retroviral therapy (ART) centers across 10 cities in five states and regions of Myanmar. Blood samples from the ART centers are sent using public transport to a centralized PCR facility. Among HIV-exposed babies <9 months at enrolment into IHC program (2013-15), to describe the EID cascade (enrolment, sample collection for PCR, result receipt by mother, HIV diagnosis and ART initiation) and factors associated with delayed (>8 weeks of age) or no blood sample collection for EID. Retrospective cohort study involving record review. A predictive poisson regression model with robust variance estimates was fitted for risk factors of delayed or no sample collection. Of 1349 babies, 523 (39%) of the babies' mothers were on ART before pregnancy. Timely uptake of EID (<8 weeks of age) was 47% (633/1349); sample collection was delayed in 27% (367/1349) and not done in 26% (349/1349) babies. Among samples collected (n = 1000), 667 results were received by the mother; 52 (5%) were HIV-infected; among them 42 (81%) were initiated on ART. Median (IQR) turnaround time from sample collection to result receipt by mother and time to initiate ART from result receipt by mother was 7 (4,12) and 8.5 (6,16) weeks, respectively. Mothers not on ART before pregnancy and distance of ART center from PCR facility (more than 128 km) were the risk factors of delayed or no sample collection. Improving provision of ART to mothers (through universal 'test and treat') is urgently required, which has the potential to improve the timely uptake of EID as well. Interventions to reduce turnaround times, like point of care EID testing and/or systematic use of mobile technology to communicate results, are needed.

Using urinary 1-hydroxypyrene concentrations to evaluate polycyclic aromatic hydrocarbon exposure in women using biomass combustion as main energy source.

PubMed

Ruíz-Vera, Tania; Pruneda-Alvarez, Lucia G; Pérez-Vázquez, Francisco J; Ochoa-Martínez, Angeles C; Orta-García, Sandra T; Ilizaliturri-Hernández, Cesar A; Pérez-Maldonado, Iván N

2015-01-01

The use of solid fuels for cooking and heating is likely to be the largest source of indoor air pollution on a global scale. The aim of this study was to investigate the urinary excretion of 1-hydroxypyrene (1-OHP) in women living in a rural community, where biomass combustion is used as main energy source during a working day. The study was performed on urine samples collected in 2012, of 30 healthy women who were residents of a rural community in San Luis Potosi, Mexico. Urine was collected from each woman at three time points (morning, post-lunch and evening) during a working day. The analysis of urinary 1-OHP was performed using high-performance liquid chromatography (HPLC). Also, a health-risk assessment was conducted. The highest levels of 1-OHP in this study were found in the samples taken in the evening (geometric mean ± SD; 0.36 ± 0.13 µg/g creatinine). However, no significant differences among 1-OHP concentrations in the evening and post-lunch samples (0.27 ± 0.10 µg/g creatinine; 0.58 ± 0.67 µg/L) were observed. But, the 1-OHP levels (0.17 ± 0.13 µg/g creatinine; 0.19 ± 0.21 µg/L) found in samples collected in the morning were significantly lower than the 1-OHP levels found in samples collected during post-lunch and evening time. The data shown in this study demonstrated an increment in the exposure levels to PAHs in women across the shift. However, no health risk was found in this study.

Critical review and meta-analysis of spurious hemolysis in blood samples collected from intravenous catheters

PubMed Central

Lippi, Giuseppe; Cervellin, Gianfranco; Mattiuzzi, Camilla

2013-01-01

Background: A number of preanalytical activities strongly influence sample quality, especially those related to sample collection. Since blood drawing through intravenous catheters is reported as a potential source of erythrocyte injury, we performed a critical review and meta-analysis about the risk of catheter-related hemolysis. Materials and methods: We performed a systematic search on PubMed, Web of Science and Scopus to estimate the risk of spurious hemolysis in blood samples collected from intravenous catheters. A meta-analysis with calculation of Odds ratio (OR) and Relative risk (RR) along with 95% Confidence interval (95% CI) was carried out using random effect mode. Results: Fifteen articles including 17 studies were finally selected. The total number of patients was 14,796 in 13 studies assessing catheter and evacuated tubes versus straight needle and evacuated tubes, and 1251 in 4 studies assessing catheter and evacuated tubes versus catheter and manual aspiration. A significant risk of hemolysis was found in studies assessing catheter and evacuated tubes versus straight needle and evacuated tubes (random effect OR 3.4; 95% CI = 2.9–3.9 and random effect RR 1.07; 95% CI = 1.06–1.08), as well as in studies assessing catheter and evacuated tubes versus catheter and manual aspiration of blood (OR 3.7; 95% CI = 2.7–5.1 and RR 1.32; 95% CI = 1.24–1.40). Conclusions: Sample collection through intravenous catheters is associated with significant higher risk of spurious hemolysis as compared with standard blood drawn by straight needle, and this risk is further amplified when intravenous catheter are associated with primary evacuated blood tubes as compared with manual aspiration. PMID:23894864

Preparation and Observation of Thick Biological Samples by Scanning Transmission Electron Tomography.

PubMed

Trépout, Sylvain; Bastin, Philippe; Marco, Sergio

2017-03-12

This report describes a protocol for preparing thick biological specimens for further observation using a scanning transmission electron microscope. It also describes an imaging method for studying the 3D structure of thick biological specimens by scanning transmission electron tomography. The sample preparation protocol is based on conventional methods in which the sample is fixed using chemical agents, treated with a heavy atom salt contrasting agent, dehydrated in a series of ethanol baths, and embedded in resin. The specific imaging conditions for observing thick samples by scanning transmission electron microscopy are then described. Sections of the sample are observed using a through-focus method involving the collection of several images at various focal planes. This enables the recovery of in-focus information at various heights throughout the sample. This particular collection pattern is performed at each tilt angle during tomography data collection. A single image is then generated, merging the in-focus information from all the different focal planes. A classic tilt-series dataset is then generated. The advantage of the method is that the tilt-series alignment and reconstruction can be performed using standard tools. The collection of through-focal images allows the reconstruction of a 3D volume that contains all of the structural details of the sample in focus.

Guidelines for collecting and processing samples of stream bed sediment for analysis of trace elements and organic contaminants for the National Water-Quality Assessment Program

USGS Publications Warehouse

Shelton, Larry R.; Capel, Paul D.

1994-01-01

A major component of the U.S. Geological Survey's National Water-Quality Assessment program is to assess the occurrence and distribution of trace elements and organic contaminants in streams. The first phase of the strategy for the assessment is to analyze samples of bed sediments from depositional zones. Fine-grained particles deposited in these zones are natural accumulators of trace elements and hydrophobic organic compounds. For the information to be comparable among studies in many different parts of the Nation, strategies for selecting stream sites and depositional zones are critical. Fine-grained surficial sediments are obtained from several depositional zones within a stream reach and composited to yield a sample representing average conditions. Sample collection and processing must be done consistently and by procedures specifically designed to separate the fine material into fractions that yield uncontaminated samples for trace-level analytes in the laboratory. Special coring samplers and other instruments made of Teflon are used for collection. Samples are processed through a 2.0-millimeter stainless-steel mesh sieve for organic contaminate analysis and a 63-micrometer nylon-cloth sieve for trace-element analysis. Quality assurance is maintained by strict collection and processing procedures, duplicate samplings, and a rigid cleaning procedure.

Sediment sources in the Lake Tahoe Basin, California-Nevada; preliminary results of a four-year study, August 1983-September 1987

USGS Publications Warehouse

Hill, B.R.; Hill, J.R.; Nolan, K.M.

1988-01-01

Data were collected during a 4-yr study of sediment sources in four drainage basins tributary to Lake Tahoe, California-Nevada. The study areas include the Blackwood, General, Edgewood, and Logan House Creek basins. Data include changes in bank and bed positions at channel cross sections; results of stream-channel mapping; analyses of bank and bed material samples; tabulations of bed material point counts; measured rates of hillslope erosion; dimensions of gullies; suspended-sediment data collected during synoptic snowmelt sampling; and physiographic data for the four study basins. (USGS)

The Polar Rock Repository: Rescuing Polar Collections for New Research

NASA Astrophysics Data System (ADS)

Grunow, A.

2016-12-01

Geological field expeditions in polar regions are logistically difficult, financially expensive and can have a significant environmental impact on pristine regions. The scarcity of outcrop in Antarctica (98% ice-covered) makes previously collected rock samples very valuable to the science community. NSF recognized the need for preserving rock, dredge, and terrestrial core samples from polar areas and created the Polar Rock Repository (PRR). The PRR collection allows for full and open access to both samples and metadata via the PRR website. In addition to the physical samples and their basic metadata, the PRR archives supporting materials from the collector, field notebooks, images of the samples, field maps, air photos, thin sections and any associated bibliography/DOI's. Many of these supporting materials are unique. More than 40,000 samples are available from the PRR for scientific analysis to researchers around the globe. Most of the samples cataloged at the PRR were collected more than 30 years ago, some more than 100 years ago. The rock samples and metadata are made available online through an advanced search engine for the PRR website. This allows scientists to "drill down" into search results using categories and look-up object fields similar to websites like Amazon. Results can be viewed in a table, downloaded as a spreadsheet, or plotted on an interactive map that supports display of satellite imagery and bathymetry layers. Samples can be requested by placing them in the `shopping cart'. These old sample collections have been repeatedly used by scientists from around the world. One data request involved locating coal deposits in Antarctica for a global compilation and another for looking at the redox state of batholithic rocks from the Antarctic Peninsula using magnetic susceptibilities of PRR rocks. Sample usage has also included non-traditional geologic studies, such as a search for monopoles in Cenozoic volcanic samples, and remote sensing/spectral imaging of Transantarctic Mountains rocks. Rescuing these collections from universities that no longer want to store the rocks or from researchers who no longer need the samples has resulted in many new publications, new proposals and enormous cost and environmental savings to the U.S. Antarctic science program.

NHEXAS PHASE I MARYLAND STUDY--PESTICIDES IN DERMAL WIPES ANALYTICAL RESULTS

EPA Science Inventory

The Pesticides in Dermal Wipe Samples data set contains analytical results for measurements of up to 8 pesticides in 40 dermal wipe samples over 40 households. Each sample was collected from the primary respondent within each household. The sampling period occurred on the last ...

NHEXAS PHASE I MARYLAND STUDY--PESTICIDES IN BLOOD ANALYTICAL RESULTS

EPA Science Inventory

The Pesticides in Blood Serum data set contains analytical results for measurements of up to 17 pesticides in 358 blood samples over 79 households. Each sample was collected via a venous sample from the primary respondent within each household by a phlebotomist. Samples were ge...

Evaluation of sampling and analytical methods for nicotine and polynuclear aromatic hydrocarbon in indoor air. Final report, 1 February 1987-30 March 1987

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

Chuang, J.C.; Kuhlman, M.R.; Hannan, S.W.

1987-11-01

The objective of this project was to evaluate a potential collection medium, XAD-4 resin, for collecting nicotine and polynuclear aromatic hydrocarbon (PAH) and to determine whether one collection system and one analytical method will allow quantification of both compound classes in air. The extraction efficiency study was to determine the extraction method to quantitatively remove nicotine and PAH from XAD-4 resin. The results showed that a two-step Soxhlet extraction consisting of dichloromethane followed by ethyl acetate resulted in the best recoveries for both nicotine and PAH. In the sampling efficiency study, XAD-2 and XAD-4 resin were compared, in parallel, formore » collection of PAH and nicotine. Quartz fiber filters were placed upstream of both adsorbents to collect particles. Prior to sampling, both XAD-2 and XAD-4 traps were spiked with known amounts (2 microgram) of perdeuterated PAH and D3-nicotine. The experiments were performed with cigarette smoking and nonsmoking conditions. The spiked PAH were retained well in both adsorbents after exposure to more than 300 cu. m. of indoor air. The spiked XAD-4 resin gave higher recoveries for D3-nicotine than did the spiked XAD-2 resin. The collection efficiency for PAH for both adsorbents is very similar but higher levels of nicotine were collected on XAD-4 resin.« less

Steroidal hormones and other endocrine active compounds in shallow groundwater in nonagricultural areas of Minnesota—Study design, methods, and data, 2009–10

USGS Publications Warehouse

Erickson, Melinda L.

2012-01-01

The U.S. Geological Survey, in cooperation with the Minnesota Pollution Control Agency, completed a study on the occurrence of steroidal hormones and other endocrine active compounds in shallow groundwater in nonagricultural areas of Minnesota during 2009–10. This report describes the study design and methods, and presents the data collected on steroidal hormones and other related compounds. Environmental and quality-control samples were collected from 40 wells as part of this study. Samples were analyzed by the U.S. Geological Survey National Water Quality Laboratory for 16 steroidal hormones and 4 other related compounds, of which all but 2 compounds are endocrine active compounds. Most of the water samples did not contain detectable concentrations of any of the 20 compounds analyzed. Water samples from three wells had detectable concentrations of one or more compounds. Bisphenol A was detected in samples from three wells, and trans-diethylstilbestrol was detected in one of the samples in which bisphenol A also was detected.

Hanford Site Environmental Surveillance Master Sampling Schedule for Calendar Year 2007

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

Bisping, Lynn E.

2007-01-31

This document contains the calendar year 2007 schedule for the routine collection of samples for the Surface Environmental Surveillance Project and Drinking Water Monitoring Project. Each section includes sampling locations, sampling frequencies, sample types, and analyses to be performed. In some cases, samples are scheduled on a rotating basis and may not be collected in 2007 in which case the anticipated year for collection is provided. Maps showing approximate sampling locations are included for media scheduled for collection in 2007.

The development of a Martian atmospheric Sample collection canister

NASA Astrophysics Data System (ADS)

Kulczycki, E.; Galey, C.; Kennedy, B.; Budney, C.; Bame, D.; Van Schilfgaarde, R.; Aisen, N.; Townsend, J.; Younse, P.; Piacentine, J.

The collection of an atmospheric sample from Mars would provide significant insight to the understanding of the elemental composition and sub-surface out-gassing rates of noble gases. A team of engineers at the Jet Propulsion Laboratory (JPL), California Institute of Technology have developed an atmospheric sample collection canister for Martian application. The engineering strategy has two basic elements: first, to collect two separately sealed 50 cubic centimeter unpressurized atmospheric samples with minimal sensing and actuation in a self contained pressure vessel; and second, to package this atmospheric sample canister in such a way that it can be easily integrated into the orbiting sample capsule for collection and return to Earth. Sample collection and integrity are demonstrated by emulating the atmospheric collection portion of the Mars Sample Return mission on a compressed timeline. The test results achieved by varying the pressure inside of a thermal vacuum chamber while opening and closing the valve on the sample canister at Mars ambient pressure. A commercial off-the-shelf medical grade micro-valve is utilized in the first iteration of this design to enable rapid testing of the system. The valve has been independently leak tested at JPL to quantify and separate the leak rates associated with the canister. The results are factored in to an overall system design that quantifies mass, power, and sensing requirements for a Martian atmospheric Sample Collection (MASC) canister as outlined in the Mars Sample Return mission profile. Qualitative results include the selection of materials to minimize sample contamination, preliminary science requirements, priorities in sample composition, flight valve selection criteria, a storyboard from sample collection to loading in the orbiting sample capsule, and contributions to maintaining “ Earth” clean exterior surfaces on the orbiting sample capsule.

Primary productivity by phytoplankton in the tidal, fresh Potomac River, Maryland, May 1980 to August 1981

USGS Publications Warehouse

Cohen, R.R.; Pollock, S.O.

1983-01-01

Primary productivity by phytoplankton was measured on samples collected from the Potomac Tidal River, Maryland. The studies were performed monthly from May 1980 to September 1981. Additional studies were done once a week in August 1980, twice a week from August 4 to 8, 1980 and twice in September 1980. Depth-integrated samples were collected at five stations and incubated in boxes that were exposed to natural sunlight. The boxes were covered with neutral density filters transmitting 100 , 65, 32, 16, and 6 percent surface light. River water was pumped continuously over the samples. The extinction of light in the water column by phytoplankton was measured when samples were collected. Experiments were performed to select a method for routine productivity analysis. No difference was found between productivity: (1) determined in situ and in boxes; (2) measured in 300 ml and (4) calculated from short term (4 hours) and long term (10-24 hours) incubations. There were higher productivity differences in samples that were rotated among different light intensities every 15 minutes (simulating mixing) than those remaining stationary. Respiration was significantly less in samples pumped through a hose from those collected using a depth-integrating sampler. Depth-integrated primary productivity was determined from the productivity data using an equation modified from one reported in the literature. Depth-integrated gross primary productivity was highest in August 1980 and 1981 and lowest in January 1980. (USGS)

The cytotoxic and genetoxic effects of dust and soil samples from E-waste recycling area on L02 cells.

PubMed

Wang, Liulin; Hou, Meiling; An, Jing; Zhong, Yufang; Wang, Xuetong; Wang, Yangjun; Wu, Minghong; Bi, Xinhui; Sheng, Guoying; Fu, Jiamo

2011-10-01

Electrical and electronic waste (E-waste) has now become the fastest growing solid waste around the world. Primitive recycling operations for E-waste have resulted in severe contamination of toxic metals and organic chemicals in the related areas. In this study, six dust and soil samples collected from E-waste recycling workshops and open-burning sites in Longtang were analyzed to investigate their cytotoxicity and genotoxicity on L02 cells. These six samples were: dust No. 1 collected at the gate of the workshop; dust No. 2 collected from air conditioning compressor dismantling site; dust No. 3 collected from where some motors, wires, and aluminium products since the 1980s were dismantled; soil No. 1 collected at the circuit board acid washing site; soil No. 2 collected from a wire open-burning site; soil No. 3 collected near a fiber open-burning site. At the same time, two control soil samples were collected from farmlands approximately 8 km away from the dismantling workshops. The results showed that all of these samples could inhibit cell proliferation and cause cell membrane lesion, among which dust No. 3 and soil No. 2 had the strongest toxicity. Moreover, the comet assay showed that the dust No. 3 had the most significant capability to cause DNA single-strand beaks (SSB), while the road dust (dust No. 1) collected at the gate of the workshop, a relatively farer site, showed the slightest capability to induce DNA SSB. The intracellular reactive oxygen species (ROS) detection showed that ROS level was elevated with the increase of dust and soil samples concentration. Dust No. 3 and soil No. 2 had the highest ROS level, followed by dust No. 2 and 1, soil No. 3 and 1. All of the above results indicated that polluted soil and dust from the E-waste area had cytotoxicity and genotoxicity on L02 cells, the mechanism might involve the increased ROS level and consequent DNA SSB.

Field tests of nylon-screen diffusion samplers and pushpoint samplers for detection of metals in sediment pore water, Ashland and Clinton, Massachusetts, 2003

USGS Publications Warehouse

Zimmerman, Marc J.; Vroblesky, Don A.; Campo, Kimberly W.; Massey, Andrew J.; Scheible, Walter

2005-01-01

Efficient and economical screening methods are needed to detect and to determine the approximate concentrations of potentially toxic trace-element metals in shallow groundwater- discharge areas (pore water) where the metals may pose threats to aquatic organisms; such areas are likely to be near hazardous-waste sites. Pushpoint and nylon-screen diffusion samplers are two complementary options for use in such environments. The pushpoint sampler, a simple well point, is easy to insert manually and to use. Only 1 day is required to collect samples. The nylon-screen diffusion sampler is well suited for use in sediments that do not allow a pump to draw water into a pushpoint sampler. In this study, both types of devices were used in sediments suitable for the use of the pushpoint sampler. Sampling with the nylon-screen diffusion sampler requires at least two site visits: one to deploy the samplers in the sediment, and a second to retrieve the samplers and collect the samples after a predetermined equilibration period. Extensive laboratory quality-control studies, field testing, and laboratory analysis of samples collected at the Nyanza Chemical Waste Dump Superfund site along the Sudbury River in Ashland, Massachusetts, and at a Superfund site-assessment location on Rigby Brook in Clinton, Massachusetts, indicate that these two devices yield comparable results for most metals and should be effective tools for pore-water studies. The nylon-screen diffusion samplers equilibrated within 1-2 days in homogeneous, controlled conditions in the laboratory. Nylon-screen diffusion samplers that were not purged of dissolved oxygen prior to deployment yielded results similar to those that were purged. Further testing of the nylon-screen diffusion samplers in homogeneous media would help to resolve any ambiguities about the data variability from the field studies. Comparison of data from replicate samples taken in both study areas shows that even samples taken from sites within a half-meter radius of one another have distinct differences in pore-water trace-element concentrations. Sequential replicate samples collected with the pushpoint sampler yield consistent results; moving the pushpoint sampler even 5 to 10 centimeters, however, generally produces a second set of data that differs enough from the first set of data to indicate a heterogeneous environment. High concentration biases for barium and zinc in laboratory and field samples collected with nylon-screen diffusion samplers, however, may make their use inappropriate for studies of these metals. Analyzing samples with high iron concentrations required sample dilution by factors of 2 or 10. Because these dilutions caused increases in the reporting levels by the same proportion, a substantial fraction of the data was censored. The results from undiluted samples, however, indicate that both devices should be useful for sampling ground water with metal concentrations close to reporting limits.

Occurrence and concentrations of selected trace elements, halogenated organic compounds, and polycyclic aromatic hydrocarbons in streambed sediments and results of water-toxicity testing in Westside Creeks and the San Antonio River, San Antonio, Texas, 2014

USGS Publications Warehouse

Crow, Cassi L.; Wilson, Jennifer T.; Kunz, James L.

2016-12-01

Sediment samples and samples for water-toxicity testing were collected during 2014 from several streams in San Antonio, Texas, known locally as the Westside Creeks (Alazán, Apache, Martínez, and San Pedro Creeks) and from the San Antonio River. Samples were collected during base flow and after periods of stormwater runoff (poststorm conditions) to determine baseline sediment- and water-quality conditions. Streambed-sediment samples were analyzed for selected constituents, including trace elements and organic contaminants such as pesticides, polychlorinated biphenyls (PCBs), brominated flame retardants, and polycyclic aromatic hydrocarbons (PAHs). Potential risks of contaminants in sediment were evaluated by comparing concentrations of contaminants in sediment to two effects-based sediment-quality guidelines: (1) a lower level, called the threshold effect concentration, below which, harmful effects to benthic biota are not expected, and (2) a higher level, the probable effect concentration (PEC), above which harmful effects are expected to occur frequently. Samples for water-toxicity testing were collected from each stream to provide information about fish toxicity in the study area. The trace metal lead was detected at potentially toxic concentrations greater than the PEC in both the base-flow and poststorm samples collected at two sites sampled on San Pedro Creek. The PECs for the pesticides dichlorodiphenyldichloroethane, dichlorodiphenyldichloroethylene, dichlorodiphenyltrichloroethane, and chlordane were exceeded in some of the samples at the same two sites on San Pedro Creek. Brominated flame retardants and polybrominated diphenyl ether (PBDE) 85, 153, and 154 were found in all streambed-sediment samples. Federal Environmental Quality Guidelines established by Environment Canada for PBDE 99 and PBDE 100 were exceeded in all samples in which PBDE 99 was detected and in a majority of the samples in which PBDE 100 was detected; the greatest concentrations occurred in samples collected at the same two sites on San Pedro Creek where the samples containing elevated lead and pesticide concentrations were collected. All concentrations of total PCBs (computed as the sum of the 18 reported PCB congeners) in the individual streambed-sediment samples were less than the threshold effect concentration, but the concentrations were elevated in the two sites on San Pedro Creek compared to concentrations at other sites. At one site on Apache Creek, 6 of the individual PAHs measured in the sample collected during base-flow conditions exceeded the PECs and 8 of the 9 PECs were exceeded in the sample collected during poststorm conditions. The total PAH concentration in the sample collected at the site during poststorm conditions was 3.3 times greater than the PEC developed for total PAHs. Average PAH profiles computed for base-flow samples and poststorm samples most closely resemble the parking lot coal-tar sealcoat dust PAH source profile, defined as the average PAH concentrations in dust swept from parking lots in six cities in the United States that were sealed with a black, viscous liquid containing coal-tar pitch. Six of ten water samples collected during base-flow conditions caused reductions in Pimephales promelas (fathead minnow) survival and were considered to be toxic.

Detection of Campylobacter in human faecal samples in Fiji.

PubMed

Devi, Aruna; Wilkinson, Jenny; Mahony, Timothy; Vanniasinkam, Thiru

2014-01-01

Data on campylobacteriosis in developed countries are well documented; in contrast, few studies on campylobacteriosis have been conducted in developing countries. This study was undertaken to test for Campylobacter in human faecal samples sent to the two major pathology laboratories in Fiji. A total of 408 diarrhoeal faecal samples were collected from the two major hospital pathology laboratories in Central Fiji (Suva) and Western Fiji (Lautoka) between December 2012 and February 2013 and from June to July 2013. Samples were analysed for the presence of Campylobacter using polymerase chain reaction (PCR) based methods. Campylobacter was detected in 241/408 (59.1%) of samples tested using PCR. Samples from children aged less than five accounted for 21.6% of positive cases. Campylobacter was detected in 59.1% of diarrhoeal samples collected from the two main laboratories in Fiji. A high proportion of children under five years with Campylobacter has been reported in other countries and could be due to parents being more likely to seek medical attention. Further studies are required to confirm the species of Campylobacter that are predominantly associated with gastroenteritis in Fiji.

Legionnaires' Disease Bacteria in power plant cooling systems: downtime report. Final report

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

Tyndall, R.L.; Solomon, J.A.; Christensen, S.W.

1985-04-01

Legionnaires' Disease Bacteria (Legionella) are a normal part of the aquatic community that, when aerosolized, can be pathogenic to man. The downtime study was designed to determine the degree to which Legionella populations are aerosolized during cleaning and maintenance operations in a closed-cycle steam-electric power plant. Both high-volume and impinger air samples were collected prior to and during downtime operations. Emphasis was placed on sampling inside or adjacent to water boxes, condensers, and cooling towers. Control air samples were taken upwind from the plant site. Water and sludge samples were also collected at various locations. In the laboratory, the concentrationsmore » of Groups A, B, and C Legionella were determined using the direct fluorescent antibody method. All positive air samples, and other selected air samples, were injected into guinea pigs to detect infectious Legionella. Legionella could be detected in only 12 of the 126 air samples collected. These were predominantly Group A Legionella (L. pneumophila, serogroups 1 to 6). All 12 positive samples had been collected in the vicinity of water boxes, condensers, detention ponds, and cooling towers during downtime operations where aerosolization of Legionella populations would be expected. None of the air samples yielded infectious Legionella when injected into guinea pigs. Detection of Legionella in air samples taken during downtime was significantly more likely than detection during normal operating conditions (p <0.01). 13 refs., 4 figs., 10 tabs.« less

A Trade Study and Metric for Penetration and Sampling Devices for Possible Use on the NASA 2003 and 2005 Mars Sample Return Missions

NASA Technical Reports Server (NTRS)

McConnell, Joshua B.

2000-01-01

The scientific exploration of Mars will require the collection and return of subterranean samples to Earth for examination. This necessitates the use of some type of device or devices that possesses the ability to effectively penetrate the Martian surface, collect suitable samples and return them to the surface in a manner consistent with imposed scientific constraints. The first opportunity for such a device will occur on the 2003 and 2005 Mars Sample Return missions, being performed by NASA. This paper reviews the work completed on the compilation of a database containing viable penetrating and sampling devices, the performance of a system level trade study comparing selected devices to a set of prescribed parameters and the employment of a metric for the evaluation and ranking of the traded penetration and sampling devices, with respect to possible usage on the 03 and 05 sample return missions. The trade study performed is based on a select set of scientific, engineering, programmatic and socio-political criterion. The use of a metric for the various penetration and sampling devices will act to expedite current and future device selection.

Influence of various water quality sampling strategies on load estimates for small streams

USGS Publications Warehouse

Robertson, Dale M.; Roerish, Eric D.

1999-01-01

Extensive streamflow and water quality data from eight small streams were systematically subsampled to represent various water‐quality sampling strategies. The subsampled data were then used to determine the accuracy and precision of annual load estimates generated by means of a regression approach (typically used for big rivers) and to determine the most effective sampling strategy for small streams. Estimation of annual loads by regression was imprecise regardless of the sampling strategy used; for the most effective strategy, median absolute errors were ∼30% based on the load estimated with an integration method and all available data, if a regression approach is used with daily average streamflow. The most effective sampling strategy depends on the length of the study. For 1‐year studies, fixed‐period monthly sampling supplemented by storm chasing was the most effective strategy. For studies of 2 or more years, fixed‐period semimonthly sampling resulted in not only the least biased but also the most precise loads. Additional high‐flow samples, typically collected to help define the relation between high streamflow and high loads, result in imprecise, overestimated annual loads if these samples are consistently collected early in high‐flow events.