The Relationship between Educational Placement, Instructional Practices, and Achievement Gains of Black Students with Specific Learning Disabilities in Secondary Urban School Settings

ERIC Educational Resources Information Center

Phillips, Deidre Marshall

2012-01-01

Black students, in general, are underserved academically (Darling-Hammond, 2000; Townsend, 2002) and overrepresented in special education (Donovan & Cross, 2002). Black students with disabilities are further overrepresented in more restrictive educational environments (Skiba, Poloni-Staudinger, Gallini, Simmons & Feggins-Azziz, 2006).…

Identification and management of microbial contaminations in a surface drinking water source.

PubMed

Aström, J; Pettersson, T J R; Stenström, T A

2007-01-01

Microbial contamination of surface waters constitutes a health risk for drinking water consumers which may be lowered by closing the raw water intake. We have evaluated microbial discharge events reported in the river Göta älv, which is used for raw water supply to the city of Göteborg. Elevated levels of faecal indicator bacteria were observed during periods of closed raw water intake. High bacteria levels were, however, also occasionally detected during periods of open intake, probably as a result of microbial discharge far upstream in the river which may be difficult to predict and manage by closing the intake. Accumulated upstream precipitations, resulting in surface runoff and wastewater contaminations in the catchment, correlated positively with the levels of total coliforms, E. coli, intestinal enterococci and sulfite-reducing clostridia. Levels of faecal indicator organisms were negatively correlated to the water temperature due to enhanced survival at lower temperatures. Wastewater discharges from a municipality located just upstream of the water intake resulted in elevated E. coli concentrations downstream at the raw water intake for Göteborg. To improve the prediction of microbial contaminations within the river Göta älv, monitoring data on turbidity and upstream precipitation are of particular importance.

Transcript Isoform Variation Associated with Cytosine Modification in Human Lymphoblastoid Cell Lines.

PubMed

Zhang, Xu; Zhang, Wei

2016-06-01

Cytosine modification on DNA is variable among individuals, which could correlate with gene expression variation. The effect of cytosine modification on interindividual transcript isoform variation (TIV), however, remains unclear. In this study, we assessed the extent of cytosine modification-specific TIV in lymphoblastoid cell lines (LCLs) derived from unrelated individuals of European and African descent. Our study detected cytosine modification-specific TIVs for 17% of the analyzed genes at a 5% false discovery rate. Forty-five percent of the TIV-associated cytosine modifications correlated with the overall gene expression levels as well, with the corresponding CpG sites overrepresented in transcript initiation sites, transcription factor binding sites, and distinct histone modification peaks, suggesting that alternative isoform transcription underlies the TIVs. Our analysis also revealed 33% of the TIV-associated cytosine modifications that affected specific exons, with the corresponding CpG sites overrepresented in exon/intron junctions, splicing branching points, and transcript termination sites, implying that the TIVs are attributable to alternative splicing or transcription termination. Genetic and epigenetic regulation of TIV shared target preference but exerted independent effects on 61% of the common exon targets. Cytosine modification-specific TIVs detected from LCLs were differentially enriched in those detected from various tissues in The Cancer Genome Atlas, indicating their developmental dependency. Genes containing cytosine modification-specific TIVs were enriched in pathways of cancers and metabolic disorders. Our study demonstrated a prominent effect of cytosine modification variation on the transcript isoform spectrum over gross transcript abundance and revealed epigenetic contributions to diseases that were mediated through cytosine modification-specific TIV. Copyright © 2016 by the Genetics Society of America.

Are Women Over-Represented in Dead-End Jobs? A Swedish Study Using Empirically Derived Measures of Dead-End Jobs

ERIC Educational Resources Information Center

Bihagen, Erik; Ohls, Marita

2007-01-01

It has been claimed that women experience fewer career opportunities than men do mainly because they are over-represented in "Dead-end Jobs" (DEJs). Using Swedish panel data covering 1.1 million employees with the same employer in 1999 and 2003, measures of DEJ are empirically derived from analyses of wage mobility. The results indicate…

On the Nexus of Race, Disability, and Overrepresentation: What Do We Know? Where Do We Go? On Point...Brief Discussions of Critical Issues in Urban Education.

ERIC Educational Resources Information Center

Meyer, Gwen; Patton, James M.

The ethnic overrepresentation of students in special education programs has been recognized for decades. African Americans tend to be significantly over-represented in disability categories and underrepresented in gifted programs. While Hispanics and Native Americans are not over-represented in special education programs, they are in certain…

Using Health Care Utilization and Publication Patterns to Characterize the Research Portfolio and to Plan Future Research Investments

PubMed Central

Katz, Luba; Fink, Rebecca V.; Bozeman, Samuel R.; McNeil, Barbara J.

2014-01-01

Objective Government funders of biomedical research are under increasing pressure to demonstrate societal benefits of their investments. A number of published studies attempted to correlate research funding levels with the societal burden for various diseases, with mixed results. We examined whether research funded by the Department of Veterans Affairs (VA) is well aligned with current and projected veterans’ health needs. The organizational structure of the VA makes it a particularly suitable setting for examining these questions. Methods We used the publication patterns and dollar expenditures of VA-funded researchers to characterize the VA research portfolio by disease. We used health care utilization data from the VA for the same diseases to define veterans’ health needs. We then measured the level of correlation between the two and identified disease groups that were under- or over-represented in the research portfolio relative to disease expenditures. Finally, we used historic health care utilization trends combined with demographic projections to identify diseases and conditions that are increasing in costs and/or patient volume and consequently represent potential targets for future research investments. Results We found a significant correlation between research volume/expenditures and health utilization. Some disease groups were slightly under- or over-represented, but these deviations were relatively small. Diseases and conditions with the increasing utilization trend at the VA included hypertension, hypercholesterolemia, diabetes, hearing loss, sleeping disorders, complications of pregnancy, and several mental disorders. Conclusions Research investments at the VA are well aligned with veteran health needs. The VA can continue to meet these needs by supporting research on the diseases and conditions with a growing number of patients, costs of care, or both. Our approach can be used by other funders of disease research to characterize their portfolios and to plan research investments. PMID:25493576

Relationships of field habitat measurements, visual habitat indices, and land cover to benthic macroinvertebrates in urbanized streams of the Santa Clara Valley, California

USGS Publications Warehouse

Fend, S.V.; Carter, J.L.; Kearns, F.R.

2005-01-01

We evaluated several approaches for measuring natural and anthropogenic habitat characteristics to predict benthic macroinvertebrate assemblages over a range of urban intensity at 85 stream sites in the Santa Clara Valley, California. Land cover was summarized as percentage urban land cover and impervious area within upstream buffers and the upstream subwatersheds. Field measurements characterized water chemistry, channel slope, sediment, and riparian canopy. In . addition to applying the visual-based habitat assessment in U.S. Environmental Protection Agency's rapid bioassessment protocol, we developed a simplified urban habitat assessment index based on turbidity, fine sediment deposition, riparian condition, and channel modification. Natural and anthropogenic habitat variables covaried along longitudinal stream gradients and were highly correlated with elevation. At the scale of the entire watershed, benthic macroinvertebrate measures were equally correlated with variables expressing natural gradients and urbanization effects. When natural gradients were reduced by partitioning sites into ecoregion subsection groupings, habitat variables most highly correlated with macroinvertebrate measures differed between upland and valley floor site groups. Among the valley floor sites, channel slope and physical modification of channel and riparian habitats appeared more important than upstream land cover or water quality in determining macroinvertebrate richness and ordination scores. Among upland sites, effects of upstream reservoir releases on habitat quality appeared important. Rapid habitat evaluation methods appeared to be an effective method for describing habitat features important to benthic macroinvertebrates when adapted for the region and the disturbance of interest. ?? 2005 by the American Fisheries Society.

The link between autism and skills such as engineering, maths, physics and computing: a reply to Jarrold and Routh.

PubMed

Wheelwright, S; Baron-Cohen, S

2001-06-01

In the first edition of this journal, we published a paper reporting that fathers and grandfathers of children with autism were over-represented in the field of engineering. This result was interpreted as providing supporting evidence for the folk-psychology/folk-physics theory of autism. After carrying out further analyses on the same data, Jarrold and Routh found that fathers of children with autism were also over-represented in accountancy and science. They suggested that these results could either provide additional support for the folk-psychology/folk-physics theory or be accounted for by an over-representation of professionals amongst the fathers of children with autism. Here we present evidence that engineers are still over-represented among fathers of children with autism, even taking into account the professional bias.

Using temporal detrending to observe the spatial correlation of traffic.

PubMed

Ermagun, Alireza; Chatterjee, Snigdhansu; Levinson, David

2017-01-01

This empirical study sheds light on the spatial correlation of traffic links under different traffic regimes. We mimic the behavior of real traffic by pinpointing the spatial correlation between 140 freeway traffic links in a major sub-network of the Minneapolis-St. Paul freeway system with a grid-like network topology. This topology enables us to juxtapose the positive and negative correlation between links, which has been overlooked in short-term traffic forecasting models. To accurately and reliably measure the correlation between traffic links, we develop an algorithm that eliminates temporal trends in three dimensions: (1) hourly dimension, (2) weekly dimension, and (3) system dimension for each link. The spatial correlation of traffic links exhibits a stronger negative correlation in rush hours, when congestion affects route choice. Although this correlation occurs mostly in parallel links, it is also observed upstream, where travelers receive information and are able to switch to substitute paths. Irrespective of the time-of-day and day-of-week, a strong positive correlation is witnessed between upstream and downstream links. This correlation is stronger in uncongested regimes, as traffic flow passes through consecutive links more quickly and there is no congestion effect to shift or stall traffic. The extracted spatial correlation structure can augment the accuracy of short-term traffic forecasting models.

Using temporal detrending to observe the spatial correlation of traffic

PubMed Central

2017-01-01

This empirical study sheds light on the spatial correlation of traffic links under different traffic regimes. We mimic the behavior of real traffic by pinpointing the spatial correlation between 140 freeway traffic links in a major sub-network of the Minneapolis—St. Paul freeway system with a grid-like network topology. This topology enables us to juxtapose the positive and negative correlation between links, which has been overlooked in short-term traffic forecasting models. To accurately and reliably measure the correlation between traffic links, we develop an algorithm that eliminates temporal trends in three dimensions: (1) hourly dimension, (2) weekly dimension, and (3) system dimension for each link. The spatial correlation of traffic links exhibits a stronger negative correlation in rush hours, when congestion affects route choice. Although this correlation occurs mostly in parallel links, it is also observed upstream, where travelers receive information and are able to switch to substitute paths. Irrespective of the time-of-day and day-of-week, a strong positive correlation is witnessed between upstream and downstream links. This correlation is stronger in uncongested regimes, as traffic flow passes through consecutive links more quickly and there is no congestion effect to shift or stall traffic. The extracted spatial correlation structure can augment the accuracy of short-term traffic forecasting models. PMID:28472093

Upstream water resource management to address downstream pollution concerns: A policy framework with application to the Nakdong River basin in South Korea

NASA Astrophysics Data System (ADS)

Yoon, Taeyeon; Rhodes, Charles; Shah, Farhed A.

2015-02-01

An empirical framework for assisting with water quality management is proposed that relies on open-source hydrologic data. Such data are measured periodically at fixed water stations and commonly available in time-series form. To fully exploit the data, we suggest that observations from multiple stations should be combined into a single long-panel data set, and an econometric model developed to estimate upstream management effects on downstream water quality. Selection of the model's functional form and explanatory variables would be informed by rating curves, and idiosyncrasies across and within stations handled in an error term by testing contemporary correlation, serial correlation, and heteroskedasticity. Our proposed approach is illustrated with an application to the Nakdong River basin in South Korea. Three alternative policies to achieve downstream BOD level targets are evaluated: upstream water treatment, greater dam discharge, and development of a new water source. Upstream water treatment directly cuts off incoming pollutants, thereby presenting the smallest variation in its downstream effects on BOD levels. Treatment is advantageous when reliability of water quality is a primary concern. Dam discharge is a flexible tool, and may be used strategically during a low-flow season. We consider development of a new water corridor from an extant dam as our third policy option. This turns out to be the most cost-effective way for securing lower BOD levels in the downstream target city. Even though we consider a relatively simple watershed to illustrate the usefulness of our approach, it can be adapted easily to analyze more complex upstream-downstream issues.

The Histone Modification H3K27me3 Is Retained after Gene Duplication and Correlates with Conserved Noncoding Sequences in Arabidopsis

PubMed Central

Berke, Lidija; Snel, Berend

2014-01-01

The histone modification H3K27me3 is involved in repression of transcription and plays a crucial role in developmental transitions in both animals and plants. It is deposited by PRC2 (Polycomb repressive complex 2), a conserved protein complex. In Arabidopsis thaliana, H3K27me3 is found at 15% of all genes. These tend to encode transcription factors and other regulators important for development. However, it is not known how PRC2 is recruited to target loci nor how this set of target genes arose during Arabidopsis evolution. To resolve the latter, we integrated A. thaliana gene families with five independent genome-wide H3K27me3 data sets. Gene families were either significantly enriched or depleted of H3K27me3, showing a strong impact of shared ancestry to H3K27me3 distribution. To quantify this, we performed ancestral state reconstruction of H3K27me3 on phylogenetic trees of gene families. The set of H3K27me3-marked genes changed less than expected by chance, suggesting that H3K27me3 was retained after gene duplication. This retention suggests that the PRC2-recruiting signal could be encoded in the DNA and also conserved among certain duplicated genes. Indeed, H3K27me3-marked genes were overrepresented among paralogs sharing conserved noncoding sequences (CNSs) that are enriched with transcription factor binding sites. The association of upstream CNSs with H3K27me3-marked genes represents the first genome-wide connection between H3K27me3 and potential regulatory elements in plants. Thus, we propose that CNSs likely function as part of the PRC2 recruitment in plants. PMID:24567304

An uncertainty analysis of the flood-stage upstream from a bridge.

PubMed

Sowiński, M

2006-01-01

The paper begins with the formulation of the problem in the form of a general performance function. Next the Latin hypercube sampling (LHS) technique--a modified version of the Monte Carlo method is briefly described. The essential uncertainty analysis of the flood-stage upstream from a bridge starts with a description of the hydraulic model. This model concept is based on the HEC-RAS model developed for subcritical flow under a bridge without piers in which the energy equation is applied. The next section contains the characteristic of the basic variables including a specification of their statistics (means and variances). Next the problem of correlated variables is discussed and assumptions concerning correlation among basic variables are formulated. The analysis of results is based on LHS ranking lists obtained from the computer package UNCSAM. Results fot two examples are given: one for independent and the other for correlated variables.

SLIDER: a generic metaheuristic for the discovery of correlated motifs in protein-protein interaction networks.

PubMed

Boyen, Peter; Van Dyck, Dries; Neven, Frank; van Ham, Roeland C H J; van Dijk, Aalt D J

2011-01-01

Correlated motif mining (cmm) is the problem of finding overrepresented pairs of patterns, called motifs, in sequences of interacting proteins. Algorithmic solutions for cmm thereby provide a computational method for predicting binding sites for protein interaction. In this paper, we adopt a motif-driven approach where the support of candidate motif pairs is evaluated in the network. We experimentally establish the superiority of the Chi-square-based support measure over other support measures. Furthermore, we obtain that cmm is an np-hard problem for a large class of support measures (including Chi-square) and reformulate the search for correlated motifs as a combinatorial optimization problem. We then present the generic metaheuristic slider which uses steepest ascent with a neighborhood function based on sliding motifs and employs the Chi-square-based support measure. We show that slider outperforms existing motif-driven cmm methods and scales to large protein-protein interaction networks. The slider-implementation and the data used in the experiments are available on http://bioinformatics.uhasselt.be.

Identification of early zygotic genes in the yellow fever mosquito Aedes aegypti and discovery of a motif involved in early zygotic genome activation.

PubMed

Biedler, James K; Hu, Wanqi; Tae, Hongseok; Tu, Zhijian

2012-01-01

During early embryogenesis the zygotic genome is transcriptionally silent and all mRNAs present are of maternal origin. The maternal-zygotic transition marks the time over which embryogenesis changes its dependence from maternal RNAs to zygotically transcribed RNAs. Here we present the first systematic investigation of early zygotic genes (EZGs) in a mosquito species and focus on genes involved in the onset of transcription during 2-4 hr. We used transcriptome sequencing to identify the "pure" (without maternal expression) EZGs by analyzing transcripts from four embryonic time ranges of 0-2, 2-4, 4-8, and 8-12 hr, which includes the time of cellular blastoderm formation and up to the start of gastrulation. Blast of 16,789 annotated transcripts vs. the transcriptome reads revealed evidence for 63 (P<0.001) and 143 (P<0.05) nonmaternally derived transcripts having a significant increase in expression at 2-4 hr. One third of the 63 EZG transcripts do not have predicted introns compared to 10% of all Ae. aegypti genes. We have confirmed by RT-PCR that zygotic transcription starts as early as 2-3 hours. A degenerate motif VBRGGTA was found to be overrepresented in the upstream sequences of the identified EZGs using a motif identification software called SCOPE. We find evidence for homology between this motif and the TAGteam motif found in Drosophila that has been implicated in EZG activation. A 38 bp sequence in the proximal upstream sequence of a kinesin light chain EZG (KLC2.1) contains two copies of the mosquito motif. This sequence was shown to support EZG transcription by luciferase reporter assays performed on injected early embryos, and confers early zygotic activity to a heterologous promoter from a divergent mosquito species. The results of these studies are consistent with the model of early zygotic genome activation via transcriptional activators, similar to what has been found recently in Drosophila.

DLocalMotif: a discriminative approach for discovering local motifs in protein sequences.

PubMed

Mehdi, Ahmed M; Sehgal, Muhammad Shoaib B; Kobe, Bostjan; Bailey, Timothy L; Bodén, Mikael

2013-01-01

Local motifs are patterns of DNA or protein sequences that occur within a sequence interval relative to a biologically defined anchor or landmark. Current protein motif discovery methods do not adequately consider such constraints to identify biologically significant motifs that are only weakly over-represented but spatially confined. Using negatives, i.e. sequences known to not contain a local motif, can further increase the specificity of their discovery. This article introduces the method DLocalMotif that makes use of positional information and negative data for local motif discovery in protein sequences. DLocalMotif combines three scoring functions, measuring degrees of motif over-representation, entropy and spatial confinement, specifically designed to discriminatively exploit the availability of negative data. The method is shown to outperform current methods that use only a subset of these motif characteristics. We apply the method to several biological datasets. The analysis of peroxisomal targeting signals uncovers several novel motifs that occur immediately upstream of the dominant peroxisomal targeting signal-1 signal. The analysis of proline-tyrosine nuclear localization signals uncovers multiple novel motifs that overlap with C2H2 zinc finger domains. We also evaluate the method on classical nuclear localization signals and endoplasmic reticulum retention signals and find that DLocalMotif successfully recovers biologically relevant sequence properties. http://bioinf.scmb.uq.edu.au/dlocalmotif/

Dissecting transcription-coupled and global genomic repair in the chromatin of yeast GAL1-10 genes.

PubMed

Li, Shisheng; Smerdon, Michael J

2004-04-02

Transcription-coupled repair (TCR) and global genomic repair (GGR) of UV-induced cyclobutane pyrimidine dimers were investigated in the yeast GAL1-10 genes. Both Rpb9- and Rad26-mediated TCR are confined to the transcribed strands, initiating at upstream sites approximately 100 nucleotides from the upstream activating sequence shared by the two genes. However, TCR initiation sites do not correlate with either transcription start sites or TATA boxes. Rad16-mediated GGR tightly correlates with nucleosome positioning when the genes are repressed and are slow in the nucleosome core and fast in linker DNA. Induction of transcription enhanced GGR in nucleosome core DNA, especially in the nucleosomes around and upstream of the transcription start sites. Furthermore, when the genes were induced, GGR was slower in the transcribed regions than in the upstream regions. Finally, simultaneous deletion of RAD16, RAD26, and RPB9 resulted in no detectable repair in all sites along the region analyzed. Our results suggest that (a). TCR may be initiated by a transcription activator, presumably through the loading of RNA polymerase II, rather than by transcription initiation or elongation per se; (b). TCR and nucleosome disruption-enhanced GGR are the major causes of rapid repair in regions around and upstream of transcription start sites; (c). transcription machinery may hinder access of NER factors to a DNA lesion in the absence of a transcription-repair coupling factor; and (d). other than GGR mediated by Rad16 and TCR mediated by Rad26 and Rpb9, no other nucleotide excision repair pathway exists in these RNA polymerase II-transcribed genes.

Correlation of bow shock plasma wave turbulence with solar wind parameters

NASA Technical Reports Server (NTRS)

Rodriguez, P.; Gurnett, D. A.

1975-01-01

The r.m.s. field strengths of electrostatic and electromagnetic turbulence in the earth's bow shock, measured in the frequency range 20 Hz to 200 kHz with IMP-6 satellite, are found to correlate with specific solar wind parameters measured upstream of the bow shock.

SCREENING FOR PTSD AMONG INCARCERATED MEN

PubMed Central

WOLFF, NANCY; GREGORY CHUGO, M; SHI, JING; HUENING, JESSICA; FRUEH, B. CHRISTOPHER

2014-01-01

Trauma exposure is overrepresented in incarcerated male populations and is linked to psychiatric morbidity, particularly posttraumatic stress disorder (PTSD). This study tests the feasibility, reliability, and validity of using computer-administered interviewing (CAI) versus orally administered interviewing (OAI) to screen for PTSD among incarcerated men. A 2 × 2 factorial design was used to randomly assign 592 incarcerated men to screening modality. Findings indicate that computer screening was feasible. Compared with OAI, CAI produced equally reliable screening information on PTSD symptoms, with test–retest intraclass correlations for the PTSD Checklist (PCL) total score ranging from .774 to .817, and the Clinician-Administered PTSD scale and PCL scores were significantly correlated for OAI and CAI. These findings indicate that data on PTSD symptoms can be reliably and validly obtained from CAI technology, increasing the efficiency by which incarcerated populations can be screened for PTSD, and those at risk can be identified for treatment. PMID:25673900

CoPub: a literature-based keyword enrichment tool for microarray data analysis.

PubMed

Frijters, Raoul; Heupers, Bart; van Beek, Pieter; Bouwhuis, Maurice; van Schaik, René; de Vlieg, Jacob; Polman, Jan; Alkema, Wynand

2008-07-01

Medline is a rich information source, from which links between genes and keywords describing biological processes, pathways, drugs, pathologies and diseases can be extracted. We developed a publicly available tool called CoPub that uses the information in the Medline database for the biological interpretation of microarray data. CoPub allows batch input of multiple human, mouse or rat genes and produces lists of keywords from several biomedical thesauri that are significantly correlated with the set of input genes. These lists link to Medline abstracts in which the co-occurring input genes and correlated keywords are highlighted. Furthermore, CoPub can graphically visualize differentially expressed genes and over-represented keywords in a network, providing detailed insight in the relationships between genes and keywords, and revealing the most influential genes as highly connected hubs. CoPub is freely accessible at http://services.nbic.nl/cgi-bin/copub/CoPub.pl.

Wake characteristics of buildings in disturbed boundary layers

NASA Technical Reports Server (NTRS)

Logan, E., Jr.; Chang, J.

1980-01-01

Measurements relevant to the effect of buildings on the low level atmospheric boundary layer are presented. Field measurements of velocity and turbulence in the wake of a block building 3.2 m high and 26.8 m long are presented which show an apparent increase in momentum flow above the upwind value. Velocity-deficit and turbulence-excess decay characteristics of the disturbed or nonequilibrium layer are correlated with power law exponents and apparent roughness length at various distances downstream of the disturbance. Model wake profiles from the simulated building are compared at various stations for equilibrium and nonequilibrium upstream profiles. Empirical correlations relating building wake profiles to upstream nonequilibrium parameters are presented. The relationship of the data to the smooth-rough transition is discussed, and a flow model is presented.

Environmental correlates of upstream migration of yellow-phase American eels in the Potomac River drainage

USGS Publications Warehouse

Welsh, Stuart A.; Heather L. Liller,

2013-01-01

Assessing the relationships between upstream migration and environmental variables is important to understanding the ecology of yellow-phase American Eels Anguilla rostrata. During an American Eel migration study within the lower Shenandoah River (Potomac River drainage), we counted and measured American Eels at the Millville Dam eel ladder for three periods: 14 May–23 July 2004, 7–30 September 2004, and 1 June–31 July 2005. Using generalized estimating equations, we modeled each time series of daily American Eel counts by fitting time-varying environmental covariates of lunar illumination (LI), river discharge (RD), and water temperature (WT), including 1-d and 2-d lags of each covariate. Information-theoretic approaches were used for model selection and inference. A total of 4,847 American Eels (19–74 cm total length) used the ladder during the three periods, including 2,622 individuals during a 2-d span following a hurricane-induced peak in river discharge. Additive-effects models of RD + WT, a 2-d lag of LI + RD, and LI + RD were supported for the three periods, respectively. Parameter estimates were positive for river discharge for each time period, negative for lunar illumination for two periods and positive for water temperature during one period. Additive-effects models supported synergistic influences of environmental variables on the upstream migration of yellow-phase American Eels, although river discharge was consistently supported as an influential correlate of upstream migration.

Dissecting protein loops with a statistical scalpel suggests a functional implication of some structural motifs.

PubMed

Regad, Leslie; Martin, Juliette; Camproux, Anne-Claude

2011-06-20

One of the strategies for protein function annotation is to search particular structural motifs that are known to be shared by proteins with a given function. Here, we present a systematic extraction of structural motifs of seven residues from protein loops and we explore their correspondence with functional sites. Our approach is based on the structural alphabet HMM-SA (Hidden Markov Model - Structural Alphabet), which allows simplification of protein structures into uni-dimensional sequences, and advanced pattern statistics adapted to short sequences. Structural motifs of interest are selected by looking for structural motifs significantly over-represented in SCOP superfamilies in protein loops. We discovered two types of structural motifs significantly over-represented in SCOP superfamilies: (i) ubiquitous motifs, shared by several superfamilies and (ii) superfamily-specific motifs, over-represented in few superfamilies. A comparison of ubiquitous words with known small structural motifs shows that they contain well-described motifs as turn, niche or nest motifs. A comparison between superfamily-specific motifs and biological annotations of Swiss-Prot reveals that some of them actually correspond to functional sites involved in the binding sites of small ligands, such as ATP/GTP, NAD(P) and SAH/SAM. Our findings show that statistical over-representation in SCOP superfamilies is linked to functional features. The detection of over-represented motifs within structures simplified by HMM-SA is therefore a promising approach for prediction of functional sites and annotation of uncharacterized proteins.

Dissecting protein loops with a statistical scalpel suggests a functional implication of some structural motifs

PubMed Central

2011-01-01

Background One of the strategies for protein function annotation is to search particular structural motifs that are known to be shared by proteins with a given function. Results Here, we present a systematic extraction of structural motifs of seven residues from protein loops and we explore their correspondence with functional sites. Our approach is based on the structural alphabet HMM-SA (Hidden Markov Model - Structural Alphabet), which allows simplification of protein structures into uni-dimensional sequences, and advanced pattern statistics adapted to short sequences. Structural motifs of interest are selected by looking for structural motifs significantly over-represented in SCOP superfamilies in protein loops. We discovered two types of structural motifs significantly over-represented in SCOP superfamilies: (i) ubiquitous motifs, shared by several superfamilies and (ii) superfamily-specific motifs, over-represented in few superfamilies. A comparison of ubiquitous words with known small structural motifs shows that they contain well-described motifs as turn, niche or nest motifs. A comparison between superfamily-specific motifs and biological annotations of Swiss-Prot reveals that some of them actually correspond to functional sites involved in the binding sites of small ligands, such as ATP/GTP, NAD(P) and SAH/SAM. Conclusions Our findings show that statistical over-representation in SCOP superfamilies is linked to functional features. The detection of over-represented motifs within structures simplified by HMM-SA is therefore a promising approach for prediction of functional sites and annotation of uncharacterized proteins. PMID:21689388

Casein phosphopeptides drastically increase the secretion of extracellular proteins in Aspergillus awamori. Proteomics studies reveal changes in the secretory pathway.

PubMed

Kosalková, Katarina; García-Estrada, Carlos; Barreiro, Carlos; Flórez, Martha G; Jami, Mohammad S; Paniagua, Miguel A; Martín, Juan F

2012-01-10

The secretion of heterologous animal proteins in filamentous fungi is usually limited by bottlenecks in the vesicle-mediated secretory pathway. Using the secretion of bovine chymosin in Aspergillus awamori as a model, we found a drastic increase (40 to 80-fold) in cells grown with casein or casein phosphopeptides (CPPs). CPPs are rich in phosphoserine, but phosphoserine itself did not increase the secretion of chymosin. The stimulatory effect is reduced about 50% using partially dephosphorylated casein and is not exerted by casamino acids. The phosphopeptides effect was not exerted at transcriptional level, but instead, it was clearly observed on the secretion of chymosin by immunodetection analysis. Proteomics studies revealed very interesting metabolic changes in response to phosphopeptides supplementation. The oxidative metabolism was reduced, since enzymes involved in fermentative processes were overrepresented. An oxygen-binding hemoglobin-like protein was overrepresented in the proteome following phosphopeptides addition. Most interestingly, the intracellular pre-protein enzymes, including pre-prochymosin, were depleted (most of them are underrepresented in the intracellular proteome after the addition of CPPs), whereas the extracellular mature form of several of these secretable proteins and cell-wall biosynthetic enzymes was greatly overrepresented in the secretome of phosphopeptides-supplemented cells. Another important 'moonlighting' protein (glyceraldehyde-3-phosphate dehydrogenase), which has been described to have vesicle fusogenic and cytoskeleton formation modulating activities, was clearly overrepresented in phosphopeptides-supplemented cells. In summary, CPPs cause the reprogramming of cellular metabolism, which leads to massive secretion of extracellular proteins.

Flowfield dynamics in blunt fin-induced shock wave/turbulent boundary layer interactions

NASA Technical Reports Server (NTRS)

Dolling, David S.; Brusniak, Leon

1994-01-01

Fluctuating wall pressure measurements have been made on centerline upstream of a blunt fin in a Mach 5 turbulent boundary layer. By examining the ensemble averaged wall pressure distributions for different separation shock foot positions, it has been shown that local fluctuating wall pressure measurements are due to a distinct pressure distribution, Rho(sub i), which undergoes a stretching and flattening effect as its upstream boundary translates aperiodically between the upstream influence and separation lines. The locations of the maxima and minima in the wall pressure standard deviation can be accurately predicted using this distribution, providing quantitative confirmation of the model. This model also explains the observed cross-correlations and ensemble average measurements within the interaction. Using the Rho(sub i) model, wall pressure signals from under the separated flow region were used to reproduce the position-time history of the separation shock foot. Further, the negative time delay peak in the cross-correlation between the predicted and actual shock foot histories suggests that the separated region fluctuations precede shock foot motion. The unsteady behavior of the primary horseshoe vortex and its relation to the unsteady separation shock are described.

Remote radio observations of solar wind parameters upstream of planetary bow shocks

NASA Technical Reports Server (NTRS)

Macdowall, R. J.; Stone, R. G.; Gaffey, J. D., Jr.

1992-01-01

Radio emission is frequently produced at twice the electron plasma frequency 2fp in the foreshock region upstream of the terrestrial bow shock. Observations of this emission provide a remote diagnostic of solar wind parameters in the foreshock. Using ISEE-3 radio data, we present the first evidence that the radio intensity is proportional to the kinetic energy flux and to other parameters correlated with solar wind density. We provide a qualitative explanation of this intensity behavior and predict the detection of similar emission at Jupiter by the Ulysses spacecraft.

Casein phosphopeptides drastically increase the secretion of extracellular proteins in Aspergillus awamori. Proteomics studies reveal changes in the secretory pathway

PubMed Central

2012-01-01

Background The secretion of heterologous animal proteins in filamentous fungi is usually limited by bottlenecks in the vesicle-mediated secretory pathway. Results Using the secretion of bovine chymosin in Aspergillus awamori as a model, we found a drastic increase (40 to 80-fold) in cells grown with casein or casein phosphopeptides (CPPs). CPPs are rich in phosphoserine, but phosphoserine itself did not increase the secretion of chymosin. The stimulatory effect is reduced about 50% using partially dephosphorylated casein and is not exerted by casamino acids. The phosphopeptides effect was not exerted at transcriptional level, but instead, it was clearly observed on the secretion of chymosin by immunodetection analysis. Proteomics studies revealed very interesting metabolic changes in response to phosphopeptides supplementation. The oxidative metabolism was reduced, since enzymes involved in fermentative processes were overrepresented. An oxygen-binding hemoglobin-like protein was overrepresented in the proteome following phosphopeptides addition. Most interestingly, the intracellular pre-protein enzymes, including pre-prochymosin, were depleted (most of them are underrepresented in the intracellular proteome after the addition of CPPs), whereas the extracellular mature form of several of these secretable proteins and cell-wall biosynthetic enzymes was greatly overrepresented in the secretome of phosphopeptides-supplemented cells. Another important 'moonlighting' protein (glyceraldehyde-3-phosphate dehydrogenase), which has been described to have vesicle fusogenic and cytoskeleton formation modulating activities, was clearly overrepresented in phosphopeptides-supplemented cells. Conclusions In summary, CPPs cause the reprogramming of cellular metabolism, which leads to massive secretion of extracellular proteins. PMID:22234238

Investigation of hit-and-run crash occurrence and severity using real-time loop detector data and hierarchical Bayesian binary logit model with random effects.

PubMed

Xie, Meiquan; Cheng, Wen; Gill, Gurdiljot Singh; Zhou, Jiao; Jia, Xudong; Choi, Simon

2018-02-17

Most of the extensive research dedicated to identifying the influential factors of hit-and-run (HR) crashes has utilized typical maximum likelihood estimation binary logit models, and none have employed real-time traffic data. To fill this gap, this study focused on investigating factors contributing to HR crashes, as well as the severity levels of HR. This study analyzed 4-year crash and real-time loop detector data by employing hierarchical Bayesian models with random effects within a sequential logit structure. In addition to evaluation of the impact of random effects on model fitness and complexity, the prediction capability of the models was examined. Stepwise incremental sensitivity and specificity were calculated and receiver operating characteristic (ROC) curves were utilized to graphically illustrate the predictive performance of the model. Among the real-time flow variables, the average occupancy and speed from the upstream detector were observed to be positively correlated with HR crash possibility. The average upstream speed and speed difference between upstream and downstream speeds were correlated with the occurrence of severe HR crashes. In addition to real-time factors, other variables found influential for HR and severe HR crashes were length of segment, adverse weather conditions, dark lighting conditions with malfunctioning street lights, driving under the influence of alcohol, width of inner shoulder, and nighttime. This study suggests the potential traffic conditions of HR and severe HR occurrence, which refer to relatively congested upstream traffic conditions with high upstream speed and significant speed deviations on long segments. The above findings suggest that traffic enforcement should be directed toward mitigating risky driving under the aforementioned traffic conditions. Moreover, enforcement agencies may employ alcohol checkpoints to counter driving under the influence (DUI) at night. With regard to engineering improvements, wider inner shoulders may be constructed to potentially reduce HR cases and street lights should be installed and maintained in working condition to make roads less prone to such crashes.

Arabidopsis intragenomic conserved noncoding sequence

PubMed Central

Thomas, Brian C.; Rapaka, Lakshmi; Lyons, Eric; Pedersen, Brent; Freeling, Michael

2007-01-01

After the most recent tetraploidy in the Arabidopsis lineage, most gene pairs lost one, but not both, of their duplicates. We manually inspected the 3,179 retained gene pairs and their surrounding gene space still present in the genome using a custom-made viewer application. The display of these pairs allowed us to define intragenic conserved noncoding sequences (CNSs), identify exon annotation errors, and discover potentially new genes. Using a strict algorithm to sort high-scoring pair sequences from the bl2seq data, we created a database of 14,944 intragenomic Arabidopsis CNSs. The mean CNS length is 31 bp, ranging from 15 to 285 bp. There are ≈1.7 CNSs associated with a typical gene, and Arabidopsis CNSs are found in all areas around exons, most frequently in the 5′ upstream region. Gene ontology classifications related to transcription, regulation, or “response to …” external or endogenous stimuli, especially hormones, tend to be significantly overrepresented among genes containing a large number of CNSs, whereas protein localization, transport, and metabolism are common among genes with no CNSs. There is a 1.5% overlap between these CNSs and the 218,982 putative RNAs in the Arabidopsis Small RNA Project database, allowing for two mismatches. These CNSs provide a unique set of noncoding sequences enriched for function. CNS function is implied by evolutionary conservation and independently supported because CNS-richness predicts regulatory gene ontology categories. PMID:17301222

Methylmercury Modulation in Amazon Rivers Linked to Basin Characteristics and Seasonal Flood-Pulse.

PubMed

Kasper, Daniele; Forsberg, Bruce R; Amaral, João H F; Py-Daniel, Sarah S; Bastos, Wanderley R; Malm, Olaf

2017-12-19

We investigated the impact of the seasonal inundation of wetlands on methylmercury (MeHg) concentration dynamics in the Amazon river system. We sampled 38 sites along the Solimões/Amazon and Negro rivers and their tributaries during distinct phases of the annual flood-pulse. MeHg dynamics in both basins was contrasted to provide insight into the factors controlling export of MeHg to the Amazon system. The export of MeHg by rivers was substantially higher during high-water in both basins since elevated MeHg concentrations and discharge occurred during this time. MeHg concentration was positively correlated to %flooded area upstream of the sampling site in the Solimões/Amazon Basin with the best correlation obtained using 100 km buffers instead of whole basin areas. The lower correlations obtained with the whole basin apparently reflected variable losses of MeHg exported from upstream wetlands due to demethylation, absorption, deposition, and degradation before reaching the sampling site. A similar correlation between %flooded area and MeHg concentrations was not observed in the Negro Basin probably due to the variable export of MeHg from poorly drained soils that are abundant in this basin but not consistently flooded.

Body morphology differs in wild juvenile Chinook salmon Oncorhynchus tshawytscha in the Willamette River, Oregon, USA

USGS Publications Warehouse

Billman, E.J.; Whitman, L.D.; Schroeder, R.K.; Sharpe, C.S.; Noakes, David L. G.; Schreck, Carl B.

2014-01-01

Body morphology of juvenile Chinook salmon Oncorhynchus tshawytscha in the upper Willamette River, Oregon, U.S.A., was analysed to determine if variation in body shape is correlated with migratory life-history tactics followed by juveniles. Body shape was compared between migrating juveniles that expressed different life-history tactics, i.e. autumn migrants and yearling smolts, and among parr sampled at three sites along a longitudinal river gradient. In the upper Willamette River, the expression of life-history tactics is associated with where juveniles rear in the basin with fish rearing in downstream locations generally completing ocean ward migrations earlier in life than fish rearing in upstream locations. The morphological differences that were apparent between autumn migrants and yearling smolts were similar to differences between parr rearing in downstream and upstream reaches, indicating that body morphology is correlated with life-history tactics. Autumn migrants and parr from downstream sampling sites had deeper bodies, shorter heads and deeper caudal peduncles compared with yearling smolts and parr from the upstream sampling site. This study did not distinguish between genetic and environmental effects on morphology; however, the results suggest that downstream movement of juveniles soon after emergence is associated with differentiation in morphology and with the expression of life-history variation.

Upstream waves in Saturn's foreshock

NASA Technical Reports Server (NTRS)

Bavassano Cattaneo, M. B.; Cattaneo, P.; Moreno, G.; Lepping, R. P.

1991-01-01

An analysis based on plasma and magnetic-field data obtained from Voyager 1 during its Saturn encounter is reported. The plasma data provided every 96 sec and magnetic-field data averaged over 48 sec are utilized. The evidence of upstream waves at Saturn are detected. The waves have a period, in the spacecraft frame, of about 550 sec and a relative amplitude larger than 0.3, are left- and right-hand elliptically polarized, and propagate at about 30 deg with respect to the average magnetic field. The appearance of the waves is correlated with the spacecraft being magnetically connected to the bow shock.

Torque fluctuations caused by upstream mean flow and turbulence

NASA Astrophysics Data System (ADS)

Farr, T. D.; Hancock, P. E.

2014-12-01

A series of studies are in progress investigating the effects of turbine-array-wake interactions for a range of atmospheric boundary layer states by means of the EnFlo meteorological wind tunnel. The small, three-blade model wind turbines drive 4-quadrant motor-generators. Only a single turbine in neutral flow is considered here. The motor-generator current can be measured with adequate sensitivity by means of a current sensor allowing the mean and fluctuating torque to be inferred. Spectra of torque fluctuations and streamwise velocity fluctuations ahead of the rotor, between 0.1 and 2 diameters, show that only the large-scale turbulent motions contribute significantly to the torque fluctuations. Time-lagged cross-correlation between upstream velocity and torque fluctuations are largest over the inner part of the blade. They also show the turbulence to be frozen in behaviour over the 2 diameters upstream of the turbine.

Male and female chronic pain patients categorized by DSM-III psychiatric diagnostic criteria.

PubMed

Fishbain, D A; Goldberg, M; Meagher, B R; Steele, R; Rosomoff, H

1986-08-01

Two hundred and eighty-three chronic pain patients, consecutive admissions to the Comprehensive Pain Center of the University of Miami School of Medicine, received an extensive psychiatric evaluation based upon the American Psychiatric Association, Diagnostic and Statistical Manual of Mental Disorders (DSM-III) criteria and flowsheets. All patients received the following type of diagnoses: DSM-III axis I; DSM-III axis II, and personality type. The distribution of assigned diagnoses for the entire patient sample was reviewed and a statistical comparison between male and female patients was performed with regards to the prevalence of each diagnosis. Anxiety syndromes and depression of various diagnostic types were the most frequently assigned axis I diagnoses with over half the patient sample receiving each of these diagnoses. Males were significantly overrepresented in the axis I diagnoses of intermittent explosive disorders, adjustment disorders with work inhibitions, and alcohol abuse and other drug dependence, while females were significantly overrepresented in disorders of current depression of various diagnostic types and somatization disorders. 58.4% of the patients fulfilled criteria for axis II personality disorder diagnoses. The most frequently personality disorders found in the patient group were dependent (17.4%), passive aggressive (14.9%), and histrionic (11.7%). Males were significantly overrepresented in paranoid and narcissistic disorders while females were overrepresented in histrionic disorder. The most frequent personality types found in the patient group were compulsive (24.5%) and dependent (10.6%). All personality types were similarly distributed between the sexes. The results of the present study were compared to a previous study of DSM-III diagnoses in chronic pain patients and are discussed in terms of the prevalence of DSM-III diagnoses in the general population. Questions are raised as to the applicability of certain DSM-III diagnoses in the chronic pain population.

Dehydration-induced endodormancy in crown buds of leafy spurge highlights involvement of MAF3- and RVE1-like homologs, and hormone signaling cross-talk.

PubMed

Doğramacı, Münevver; Horvath, David P; Anderson, James V

2014-11-01

Vegetative shoot growth from underground adventitious buds of leafy spurge is critical for survival of this invasive perennial weed after episodes of severe abiotic stress. To determine the impact that dehydration-stress has on molecular mechanisms associated with vegetative reproduction of leafy spurge, greenhouse plants were exposed to mild- (3-day), intermediate- (7-day), severe- (14-day) and extended- (21-day) dehydration treatments. Aerial tissues of treated plants were then decapitated and soil was rehydrated to determine the growth potential of underground adventitious buds. Compared to well-watered plants, mild-dehydration accelerated new vegetative shoot growth, whereas intermediate- through extended-dehydration treatments both delayed and reduced shoot growth. Results of vegetative regrowth further confirmed that 14 days of dehydration induced a full-state of endodormancy in crown buds, which was correlated with a significant (P < 0.05) change in abundance of 2,124 transcripts. Sub-network enrichment analyses of transcriptome data obtained from the various levels of dehydration treatment also identified central hubs of over-represented genes involved in processes such as hormone signaling (i.e., ABA, auxin, ethylene, GA, and JA), response to abiotic stress (DREB1A/2A, RD22) and light (PIF3), phosphorylation (MPK4/6), circadian regulation (CRY2, PHYA), and flowering (AGL20, AP2, FLC). Further, results from this and previous studies highlight homologs most similar to Arabidopsis HY5, MAF3, RVE1 and RD22 as potential molecular markers for endodormancy in crown buds of leafy spurge. Early response to mild dehydration also highlighted involvement of upstream ethylene and JA-signaling, whereas severe dehydration impacted ABA-signaling. The identification of conserved ABRE- and MYC-consensus, cis-acting elements in the promoter of leafy spurge genomic clones similar to Arabidopsis RVE1 (AT5G17300) implicates a potential role for ABA-signaling in its dehydration-induced expression. Response of these molecular mechanisms to dehydration-stress provides insights on the ability of invasive perennial weeds to adapt and survive under harsh environments, which will be beneficial for addressing future management practices.

Determination of real-time predictors of the wind turbine wake meandering

NASA Astrophysics Data System (ADS)

Muller, Yann-Aël; Aubrun, Sandrine; Masson, Christian

2015-03-01

The present work proposes an experimental methodology to characterize the unsteady properties of a wind turbine wake, called meandering, and particularly its ability to follow the large-scale motions induced by large turbulent eddies contained in the approach flow. The measurements were made in an atmospheric boundary layer wind tunnel. The wind turbine model is based on the actuator disc concept. One part of the work has been dedicated to the development of a methodology for horizontal wake tracking by mean of a transverse hot wire rake, whose dynamic response is adequate for spectral analysis. Spectral coherence analysis shows that the horizontal position of the wake correlates well with the upstream transverse velocity, especially for wavelength larger than three times the diameter of the disc but less so for smaller scales. Therefore, it is concluded that the wake is actually a rather passive tracer of the large surrounding turbulent structures. The influence of the rotor size and downstream distance on the wake meandering is studied. The fluctuations of the lateral force and the yawing torque affecting the wind turbine model are also measured and correlated with the wake meandering. Two approach flow configurations are then tested: an undisturbed incoming flow (modelled atmospheric boundary layer) and a disturbed incoming flow, with a wind turbine model located upstream. Results showed that the meandering process is amplified by the presence of the upstream wake. It is shown that the coherence between the lateral force fluctuations and the horizontal wake position is significant up to length scales larger than twice the wind turbine model diameter. This leads to the conclusion that the lateral force is a better candidate than the upstream transverse velocity to predict in real time the meandering process, for either undisturbed (wake free) or disturbed incoming atmospheric flows.

Temperament and personality in bipolar II disorder.

PubMed

Fletcher, Kathryn; Parker, Gordon; Barrett, Melissa; Synnott, Howe; McCraw, Stacey

2012-02-01

There is limited research examining temperament and personality in bipolar II disorder. We sought to determine any over-represented temperament and personality features in bipolar II disorder compared to other affective groups. Scores on a self-report measure of temperament and personality were examined in a sample of 443 participants diagnosed with unipolar, bipolar I and bipolar II disorder. After controlling for age, gender, age of depression onset and current depression severity, those with bipolar II disorder were characterized by higher irritability, anxious worrying, self-criticism and interpersonal sensitivity scores, and with lower social avoidance scores compared to unipolar participants. No differences were found between bipolar sub-types on any temperament and personality sub-scales. Limitations included the lack of a control group, a relatively small sample of bipolar I participants, and with the cross-sectional design disallowing conclusions regarding premorbid personality traits as opposed to illness 'scarring' effects. Further research should seek to clarify whether certain temperament and personality styles are over-represented in bipolar II disorder. Any over-represented characteristics may assist with diagnostic differentiation from phenomenologically similar conditions and lead to more appropriate clinical management. Copyright © 2011 Elsevier B.V. All rights reserved.

Systemic response of the stony coral Pocillopora damicornis against acute cadmium stress.

PubMed

Zhou, Zhi; Yu, Xiaopeng; Tang, Jia; Wu, Yibo; Wang, Lingui; Huang, Bo

2018-01-01

Heavy metals have become one of the main pollutants in the marine environment and a major threat to the growth and reproduction of stony corals. In the present study, the density of symbiotic zooxanthellae, levels of crucial physiological activities and the transcriptome were investigated in the stony coral Pocillopora damicornis after the acute exposure to elevated cadmium concentration. The density of symbiotic zooxanthellae decreased significantly during 12-24h period, and reached lowest at 24h after acute cadmium stress. No significant changes were observed in the activity of glutathione S-transferase during the entire stress exposure. The activities of superoxide dismutase and catalase, and the concentration of glutathione decreased significantly, but the activation level of caspase3 increased significantly after cadmium exposure. Furthermore, transcriptome sequencing and bioinformatics analysis revealed 3538 significantly upregulated genes and 8048 significantly downregulated genes at 12h after the treatment. There were 12 overrepresented GO terms for significantly upregulated genes, mostly related to unfolded protein response, endoplasmic reticulum stress and apoptosis. In addition, a total of 32 GO terms were overrepresented for significantly downregulated genes, and mainly correlated with macromolecular metabolic processes. These results collectively suggest that acute cadmium stress could induce apoptosis by repressing the production of the antioxidants, elevating oxidative stress and activating the unfolded protein response. This cascade of reactions would result to the collapse of the coral-zooxanthella symbiosis and the expulsion of symbiotic zooxanthellae in the stony coral P. damicornis, ultimately leading to coral bleaching. Copyright © 2017 Elsevier B.V. All rights reserved.

Wood and Sediment Dynamics in River Corridors

NASA Astrophysics Data System (ADS)

Wohl, E.; Scott, D.

2015-12-01

Large wood along rivers influences entrainment, transport, and storage of mineral sediment and particulate organic matter. We review how wood alters sediment dynamics and explore patterns among volumes of instream wood, sediment storage, and residual pools for dispersed pieces of wood, logjams, and beaver dams. We hypothesized that: volume of sediment per unit area of channel stored in association with wood is inversely proportional to drainage area; the form of sediment storage changes downstream; sediment storage correlates most strongly with wood load; and volume of sediment stored behind beaver dams correlates with pond area. Lack of data from larger drainage areas limits tests of these hypotheses, but analyses suggest a negative correlation between sediment volume and drainage area and a positive correlation between wood and sediment volume. The form of sediment storage in relation to wood changes downstream, with wedges of sediment upstream from jammed steps most prevalent in small, steep channels and more dispersed sediment storage in lower gradient channels. Use of a published relation between sediment volume, channel width, and gradient predicted about half of the variation in sediment stored upstream from jammed steps. Sediment volume correlates well with beaver pond area. Historically more abundant instream wood and beaver populations likely equated to greater sediment storage within river corridors. This review of the existing literature on wood and sediment dynamics highlights the lack of studies on larger rivers.

CFD determination of flow perturbation boundary conditions for seal rotordynamic modeling

NASA Astrophysics Data System (ADS)

Venkatesan, Ganesh

2002-09-01

A new approach has been developed and utilized to determine the flow field perturbations (i.e. disturbance due to rotor eccentricity and/or motion) upstream of and within a non-contacting seal. The results are proposed for use with bulk-flow perturbation and CFD-perturbation seal rotordynamic models, as well as in fully 3-D CFD models, to specify approximate boundary conditions for the first-order variables at the computational domain inlet. The perturbation quantities were evaluated by subtracting the numerical flow field solutions corresponding to the concentric rotor position from that for an eccentric rotor position. The disturbance pressure quantities predicted from the numerical solutions were validated by comparing with previous pressure measurements. A parametric study was performed to understand the influence of upstream chamber height, seal clearance, shaft speed, whirl speed, zeroth-order streamwise and swirl velocities, and downstream pressure on the distribution of the first-order quantities in the upstream chamber, seal inlet and seal exit regions. Radially bulk-averaged first-order quantities were evaluated in the upstream chamber, as well as at the seal inlet and exit. The results were finally presented in the form of generalized dimensionless boundary condition correlations so that they can be applied to seal rotordynamic models over a wide range of operating conditions and geometries. To examine the effect of the proposed, approximate first-order boundary conditions on the solutions of the fully 3-D CFD rotordynamic models, the first-order boundary condition correlations for the upstream chamber were used to adjust the circumferential distribution of domain inlet values. The benefit of the boundary condition expressions was assessed for two previously measured test cases, one for a gas seal and the other for a liquid seal. For the gas seal case, a significant improvement in the prediction of the cross-coupled stiffness, when including the proposed first-order inlet boundary values, was found. In the case of liquid seals the tangential impedance values obtained with boundary condition adjustments showed a very slight improvement for a range of whirl speeds over those obtained without them. The radial impedance values obtained with the new adjustments showed a significant improvement over those obtained without them.

Assessing selenium contamination in the irrigated stream-aquifer system of the Arkansas River, Colorado.

PubMed

Gates, Timothy K; Cody, Brent M; Donnelly, Joseph P; Herting, Alexander W; Bailey, Ryan T; Mueller Price, Jennifer

2009-01-01

Prudent interventions for reducing selenium (Se) in groundwater and streams within an irrigated river valley must be guided by a sound understanding of current field conditions. An emerging picture of the nature of Se contamination within the Lower Arkansas River Valley in Colorado is provided by data from a large number of groundwater and surface water sampling locations within two study regions along the river. Measurements show that dissolved Se concentrations in the river are about double the current Colorado Department of Public Health and Environment (CDPHE) chronic standard of 4.6 microg L(-1) for aquatic habitat in the upstream region and exceed the standard by a factor of 2 to 4 in the downstream region. Groundwater concentrations average about 57.7 microg L(-1) upstream and 33.0 microg L(-1) downstream, indicating a large subsurface source for irrigation-induced dissolution and mobilization of Se loads to the river and its tributaries. Inverse correlation was found between Se concentration and the distance to the closest identified shale in the direction upstream along the principal groundwater flow gradient. The data also exhibited, among other relationships, a moderate to strong correlation between dissolved Se and total dissolved solids in groundwater and surface water, a strong correlation with uranium in groundwater, and power relationships with nitrate in groundwater. The relationship to nitrate, derived primarily from N fertilizers, reveals the degree to which dissolved Se depends on oxidation and inhibited reduction due to denitrification and suggests that there are prospects for reducing dissolved Se through nitrate control. Current and future results from these ongoing studies will help provide a foundation for modeling and for the discovery of best management practices (BMPs) in irrigated agriculture that can diminish Se contamination.

Seasonal variation of benthic macro invertebrates from Tons River of Garhwal Himalaya Uttarakhand.

PubMed

Negi, R K; Mamgain, Sheetal

2013-11-15

Present investigation was carried out to assess the seasonal variation of benthic macro-invertebrates from the Tons river, a tributary of Yamuna River in Garhwal Himalaya, Uttrakhand during December, 2007 to November, 2009. The seasonal benthic diversity was correlated with various physic-chemical parameters which documented that the macrobenthic diversity is mostly regulated by the dissolved oxygen in the water while temperature and free CO2 were found to be inversely correlated with the benthic fauna. Maximum diversity of benthos was reported at the upstream site ('H' 0.204) during the winter season while it was recorded minimum during the rainy season at all the sites. Maximum diversity is reported during the winter season at all the sites. The benthic fauna is represented by three phylum, 4 classes and 10 orders with Insecta emerging as the most dominant class. Maximum genera were reported from midstream site as it acts as ecotone between upstream and downstream.

Contribution of waste water treatment plants to pesticide toxicity in agriculture catchments.

PubMed

Le, Trong Dieu Hien; Scharmüller, Andreas; Kattwinkel, Mira; Kühne, Ralph; Schüürmann, Gerrit; Schäfer, Ralf B

2017-11-01

Pesticide residues are frequently found in water bodies and may threaten freshwater ecosystems and biodiversity. In addition to runoff or leaching from treated agricultural fields, pesticides may enter streams via effluents from wastewater treatment plants (WWTPs). We compared the pesticide toxicity in terms of log maximum Toxic Unit (log mTU) of sampling sites in small agricultural streams of Germany with and without WWTPs in the upstream catchments. We found an approximately half log unit higher pesticide toxicity for sampling sites with WWTPs (p < 0.001). Compared to fungicides and insecticides, herbicides contributed most to the total pesticide toxicity in streams with WWTPs. A few compounds (diuron, terbuthylazin, isoproturon, terbutryn and Metazachlor) dominated the herbicide toxicity. Pesticide toxicity was not correlated with upstream distance to WWTP (Spearman's rank correlation, rho = - 0.11, p > 0.05) suggesting that other context variables are more important to explain WWTP-driven pesticide toxicity. Our results suggest that WWTPs contribute to pesticide toxicity in German streams. Copyright © 2017 Elsevier Inc. All rights reserved.

The youngest children in each school cohort are overrepresented in referrals to mental health services.

PubMed

Berg, Shipra; Berg, Erlend

2014-05-01

To investigate whether the youngest children in each school cohort are overrepresented as users of specialist mental health services. Dates of birth were obtained for all 9,157 children and adolescents referred to specialist mental health services in 3 London boroughs from 2008 to 2011. The actual frequency of referrals by month of birth is compared to the expected frequency of referrals as determined by birth statistics for the relevant age group. August-born children, who are the youngest in their cohorts in England, represent 9.38% of referrals but only 8.59% of the population in the relevant age segment. Hence, August-born children are overrepresented in referrals to specialist mental health services (P value = .007). September- and October-born children, who are the oldest in their cohorts, are underrepresented: September-born children represent 8.62% of the population but 7.99% of referrals to mental health services (P value = .032), and October-born children are 8.56% of the population but 7.86% of referrals (P value = .016). Being among the youngest in a school cohort is associated with a higher risk of referral to mental health services, while being among the oldest is a protective factor. © Copyright 2014 Physicians Postgraduate Press, Inc.

oPOSSUM: identification of over-represented transcription factor binding sites in co-expressed genes

PubMed Central

Ho Sui, Shannan J.; Mortimer, James R.; Arenillas, David J.; Brumm, Jochen; Walsh, Christopher J.; Kennedy, Brian P.; Wasserman, Wyeth W.

2005-01-01

Targeted transcript profiling studies can identify sets of co-expressed genes; however, identification of the underlying functional mechanism(s) is a significant challenge. Established methods for the analysis of gene annotations, particularly those based on the Gene Ontology, can identify functional linkages between genes. Similar methods for the identification of over-represented transcription factor binding sites (TFBSs) have been successful in yeast, but extension to human genomics has largely proved ineffective. Creation of a system for the efficient identification of common regulatory mechanisms in a subset of co-expressed human genes promises to break a roadblock in functional genomics research. We have developed an integrated system that searches for evidence of co-regulation by one or more transcription factors (TFs). oPOSSUM combines a pre-computed database of conserved TFBSs in human and mouse promoters with statistical methods for identification of sites over-represented in a set of co-expressed genes. The algorithm successfully identified mediating TFs in control sets of tissue-specific genes and in sets of co-expressed genes from three transcript profiling studies. Simulation studies indicate that oPOSSUM produces few false positives using empirically defined thresholds and can tolerate up to 50% noise in a set of co-expressed genes. PMID:15933209

RNA-DNA and DNA-DNA base-pairing at the upstream edge of the transcription bubble regulate translocation of RNA polymerase and transcription rate.

PubMed

KIreeva, Maria; Trang, Cyndi; Matevosyan, Gayane; Turek-Herman, Joshua; Chasov, Vitaly; Lubkowska, Lucyna; Kashlev, Mikhail

2018-06-20

Translocation of RNA polymerase (RNAP) along DNA may be rate-limiting for transcription elongation. The Brownian ratchet model posits that RNAP rapidly translocates back and forth until the post-translocated state is stabilized by NTP binding. An alternative model suggests that RNAP translocation is slow and poorly reversible. To distinguish between these two models, we take advantage of an observation that pyrophosphorolysis rates directly correlate with the abundance of the pre-translocated fraction. Pyrophosphorolysis by RNAP stabilized in the pre-translocated state by bacteriophage HK022 protein Nun was used as a reference point to determine the pre-translocated fraction in the absence of Nun. The stalled RNAP preferentially occupies the post-translocated state. The forward translocation rate depends, among other factors, on melting of the RNA-DNA base pair at the upstream edge of the transcription bubble. DNA-DNA base pairing immediately upstream from the RNA-DNA hybrid stabilizes the post-translocated state. This mechanism is conserved between E. coli RNAP and S. cerevisiae RNA polymerase II and is partially dependent on the lid domain of the catalytic subunit. Thus, the RNA-DNA hybrid and DNA reannealing at the upstream edge of the transcription bubble emerge as targets for regulation of the transcription elongation rate.

A New Polar Magnetic Index of Geomagnetic Activity and its Application to Monitoring Ionospheric Parameters

NASA Technical Reports Server (NTRS)

Lyatsky, Wladislaw; Khazanov, George V.

2008-01-01

For improving the reliability of Space Weather prediction, we developed a new, Polar Magnetic (PM) index of geomagnetic activity, which shows high correlation with both upstream solar wind data and related events in the magnetosphere and ionosphere. Similarly to the existing polar cap PC index, the new, PM index was computed from data from two near-pole geomagnetic observatories; however, the method for computing the PM index is different. The high correlation of the PM index with both solar wind data and events in Geospace environment makes possible to improve significantly forecasting geomagnetic disturbances and such important parameters as the cross-polar-cap voltage and global Joule heating in high latitude ionosphere, which play an important role in the development of geomagnetic, ionospheric and thermospheric disturbances. We tested the PM index for 10-year period (1995-2004). The correlation between PM index and upstream solar wind data for these years is very high (the average correlation coefficient R approximately equal to 0.86). The PM index also shows the high correlation with the cross-polar-cap voltage and hemispheric Joule heating (the correlation coefficient between the actual and predicted values of these parameters is approximately 0.9), which results in significant increasing the prediction reliability of these parameters. Using the PM index of geomagnetic activity provides a significant increase in the forecasting reliability of geomagnetic disturbances and related events in Geospace environment. The PM index may be also used as an important input parameter in modeling ionospheric, magnetospheric, and thermospheric processes.

Logistic model of nitrate in streams of the upper-midwestern United States

USGS Publications Warehouse

Mueller, D.K.; Ruddy, B.C.; Battaglin, W.A.

1997-01-01

Nitrate in surface water can have adverse effects on aquatic life and, in drinking-water supplies, can be a risk to human health. As part of a regional study, nitrates as N (NO3-N) was analyzed in water samples collected from streams throughout 10 Midwestern states during synoptic surveys in 1989, 1990, and 1994. Data from the period immediately following crop planting at 124 sites were analyzed during logistic regression to relate discrete categories of NO3-N concentrations to characteristics of the basins upstream from the sites. The NO3-N data were divided into three categories representing probable background concentrations (10 mg L-1). Nitrate-N concentrations were positively correlated to streamflow, upstream area planted in corn (Zea mays L.), and upstream N- fertilizers application rates. Elevated NO3-N concentrations were associated with poorly drained soils and were weakly correlated with population density. Nitrate-N and streamflow data collected during 1989 and 1990 were used to calibrate the model, and data collected during 1994 were used for verification. The model correctly estimated NO3-N concentration categories for 79% of the samples in the calibration data set and 60% of the samples in the verification data set. The model was used to indicate where NO3-N concentrations might be elevated or exceed the NO3-N MCL in streams throughout the study area. The potential for elevated NO3-N concentrations was predicted to be greatest for streams in Illinois, Indiana, Iowa, and western Ohio.

Correlating field and laboratory rates of particle abrasion, Rio Medio, Sangre de Cristo Mountains, New Mexico

NASA Astrophysics Data System (ADS)

Polito, P. J.; Sklar, L. S.

2006-12-01

River bed sediments commonly fine downstream due to a combination of particle abrasion, selective transport of finer grains, and fining of the local sediment supply from hillslopes and tributaries. Particle abrasion rates can be directly measured in the laboratory using tumbling barrels and annular flumes, however, scaling experimental particle abrasion rates to the field has proven difficult due to the confounding effects of selective transport and local supply variations. Here we attempt to correlate laboratory and field rates of particle abrasion in a field setting where these confounding effects can be controlled. The Rio Medio, which flows westward from the crest of the Sangre de Cristo Mountains in north central New Mexico, is one of several streams studied by John P. Miller in the early 1960's. Several kilometers downstream of its headwaters, the river crosses the Picuris-Pecos fault. Upstream of the fault the river receives quartzite, sandstone and shale clasts from the Ortega Formation, while downstream sediments are supplied by the Embudo Granite. Because the upstream lithologies are not resupplied downstream of the fault, any observed fining of these clasts should be due only to abrasion and selective transport. We hypothesize that we can account for the effects of selective transport by comparing relative fining rates for the different upstream lithologies from both the field and a laboratory tumbler. By correlating laboratory abrasion rates with rock strength, we can predict the relative fining rates due solely to abrasion expected in the field; differences between the predicted and observed fining rates could then be attributed to selective transport. We used point counts to measure bed surface sediment grain size distributions at 15 locations along a 25 kilometer reach of the Rio Medio, beginning just downstream of the fault and ending upstream of a developed area with disturbed channel conditions. We recorded intermediate particle diameter as well as lithologic composition for 100 clasts at each location. To better characterize the size distribution of poorly represented lithologies we also measured every grain we could find of these minority lithologies within a one square meter area on adjacent bar top surfaces. At each sampling site we also measured channel gradient, and bank-full width and depth. We collected gravel samples for laboratory tumbling experiments and larger bedrock blocks from which we extracted cores for the Brazilian tensile splitting strength test. Preliminary results show very rapid fining of the weak sedimentary rocks downstream of the fault, much less rapid fining of the quartzite and a net downstream coarsening of the granitic sediments, which dominate the bed in the downstream end of the study reach. This enigmatic downstream coarsening may be a legacy of Pliestocene glaciation, which is evident in the landscape upstream of the fault. Outburst floods or debris flows from upstream moraines may have delivered large quantities of coarse sediments to downstream reaches, which are now relatively immobile. Despite these complications, the Rio Medio site may yet provide sufficient information to test our proposed method for scaling laboratory particle abrasion rates to the field.

Socioeconomic disadvantage and schizophrenia in migrants under mental health detention orders.

PubMed

Bulla, Jan; Hoffmann, Klaus; Querengässer, Jan; Ross, Thomas

2017-09-01

Migrants with mental hospital orders according to section 63 of the German criminal code are overrepresented in relation to their numbers in the general population. Subgroups originating from certain world regions are diagnosed with schizophrenia at a much higher rate than others. In the present literature, there is a strong evidence for a substantial correlation between migration, social disadvantage and the prevalence of schizophrenia. This study investigates the relationship between countries of origin, the risk of becoming a forensic patient and the proportion of schizophrenia spectrum disorders. Data from a comprehensive evaluation tool of forensic inpatients in the German federal state of Baden-Württemberg (FoDoBa) were compared with population statistics and correlated with the Human Development Index (HDI) and Multidimensional Poverty Index (MPI). For residents with migration background, the risk ratio to receive a mental hospital order is 1.3 in comparison to non-migrants. There was a highly significant correlation between the HDI of the country of origin and the risk ratio for detention in a forensic psychiatric hospital. The proportion of schizophrenia diagnoses also correlated significantly with the HDI. In contrast, the MPI country rankings were not associated with schizophrenia diagnoses. Two lines of explanations are discussed: first, higher prevalence of schizophrenia in migrants originating from low-income countries, and second, a specific bias in court rulings with regard to involuntary forensic treatment orders for these migrant groups.

Visualizing bacterial tRNA identity determinants and antideterminants using function logos and inverse function logos

PubMed Central

Freyhult, Eva; Moulton, Vincent; Ardell, David H.

2006-01-01

Sequence logos are stacked bar graphs that generalize the notion of consensus sequence. They employ entropy statistics very effectively to display variation in a structural alignment of sequences of a common function, while emphasizing its over-represented features. Yet sequence logos cannot display features that distinguish functional subclasses within a structurally related superfamily nor do they display under-represented features. We introduce two extensions to address these needs: function logos and inverse logos. Function logos display subfunctions that are over-represented among sequences carrying a specific feature. Inverse logos generalize both sequence logos and function logos by displaying under-represented, rather than over-represented, features or functions in structural alignments. To make inverse logos, a compositional inverse is applied to the feature or function frequency distributions before logo construction, where a compositional inverse is a mathematical transform that makes common features or functions rare and vice versa. We applied these methods to a database of structurally aligned bacterial tDNAs to create highly condensed, birds-eye views of potentially all so-called identity determinants and antideterminants that confer specific amino acid charging or initiator function on tRNAs in bacteria. We recovered both known and a few potentially novel identity elements. Function logos and inverse logos are useful tools for exploratory bioinformatic analysis of structure–function relationships in sequence families and superfamilies. PMID:16473848

A general diagram for estimating pore size of ultrafiltration and reverse osmosis membranes

NASA Technical Reports Server (NTRS)

Sarbolouki, M. N.

1982-01-01

A slit sieve model has been used to develop a general correlation between the average pore size of the upstream surface of a membrane and the molecular weight of the solute which it retains by better than 80%. The pore size is determined by means of the correlation using the high retention data from an ultrafiltration (UF) or a reverse osmosis (RO) experiment. The pore population density can also be calculated from the flux data via appropriate equations.

Vortex coupling in trailing vortex-wing interactions

NASA Astrophysics Data System (ADS)

Chen, C.; Wang, Z.; Gursul, I.

2018-03-01

The interaction of trailing vortices of an upstream wing with rigid and flexible downstream wings has been investigated experimentally in a wind tunnel, using particle image velocimetry, hot-wire, force, and deformation measurements. Counter-rotating upstream vortices exhibit increased meandering when they are close to the tip of the downstream wing. The upstream vortex forms a pair with the vortex shed from the downstream wing and then exhibits large displacements around the wing tip. This coupled motion of the pair has been found to cause large lift fluctuations on the downstream wing. The meandering of the vortex pair occurs at the natural meandering frequency of the isolated vortex, with a low Strouhal number, and is not affected by the frequency of the large-amplitude wing oscillations if the downstream wing is flexible. The displacement of the leading vortex is larger than that of the trailing vortex; however, it causes highly correlated variations of the core radius, core vorticity, and circulation of the trailing vortex with the coupled meandering motion. In contrast, co-rotating vortices do not exhibit any increased meandering.

Unsteady loading of a vertical-axis turbine in the interaction with an upstream deflector

NASA Astrophysics Data System (ADS)

Kim, Daegyoum; Gharib, Morteza

2014-01-01

Torque generation and flow distribution of a lift-based vertical-axis turbine with an upstream deflecting plate are investigated in water tunnel experiments. The deployment of a deflector in front of a lift-based turbine is a promising approach to increase local flow velocity and enhance energy conversion efficiency without consideration for complicated control. For the turbine with the deflector, the phase during which the blade passes near the front end of the turbine has a major contribution to torque increase from the case without the deflector. Meanwhile, the deflector can have a negative effect in torque generation at the phase when the blade moves upstream against free stream if the turbine is placed close to the deflector in a crosswise direction. The change of nearby flow distribution by the deflector is also examined to find its correlation with torque generation. When the blade rotates through the near-wake region of the deflector, the blade can collides with the vortical structure shed from the deflector. This interaction causes significant torque fluctuation.

EMMPRIN, an upstream regulator of MMPs, in CNS biology.

PubMed

Kaushik, Deepak Kumar; Hahn, Jennifer Nancy; Yong, V Wee

2015-01-01

Matrix metalloproteinases (MMPs) are engaged in pathologies associated with infections, tumors, autoimmune disorders and neurological dysfunctions. With the identification of an upstream regulator of MMPs, EMMPRIN (Extracellular matrix metalloproteinase inducer, CD147), it is relevant to address if EMMPRIN plays a role in the pathology of central nervous system (CNS) diseases. This would enable the possibility of a more upstream and effective therapeutic target. Indeed, conditions including gliomas, Alzheimer's disease (AD), multiple sclerosis (MS), and other insults such as hypoxia/ischemia show elevated levels of EMMPRIN which correlate with MMP production. In contrast, given EMMPRIN's role in CNS homeostasis with respect to regulation of monocarboxylate transporters (MCTs) and interactions with adhesion molecules including integrins, we need to consider that EMMPRIN may also serve important regulatory or protective functions. This review summarizes the current understanding of EMMPRIN's involvement in CNS homeostasis, its possible roles in escalating or reducing neural injury, and the mechanisms of EMMPRIN including and apart from MMP induction. Copyright © 2015 International Society of Matrix Biology. Published by Elsevier B.V. All rights reserved.

Upstream mononucleotide A-repeats play a cis-regulatory role in mammals through the DICER1 and Ago proteins.

PubMed

Aporntewan, Chatchawit; Pin-on, Piyapat; Chaiyaratana, Nachol; Pongpanich, Monnat; Boonyaratanakornkit, Viroj; Mutirangura, Apiwat

2013-10-01

A-repeats are the simplest form of tandem repeats and are found ubiquitously throughout genomes. These mononucleotide repeats have been widely believed to be non-functional 'junk' DNA. However, studies in yeasts suggest that A-repeats play crucial biological functions, and their role in humans remains largely unknown. Here, we showed a non-random pattern of distribution of sense A- and T-repeats within 20 kb around transcription start sites (TSSs) in the human genome. Different distributions of these repeats are observed upstream and downstream of TSSs. Sense A-repeats are enriched upstream, whereas sense T-repeats are enriched downstream of TSSs. This enrichment directly correlates with repeat size. Genes with different functions contain different lengths of repeats. In humans, tissue-specific genes are enriched for short repeats of <10 bp, whereas housekeeping genes are enriched for long repeats of ≥10 bp. We demonstrated that DICER1 and Argonaute proteins are required for the cis-regulatory role of A-repeats. Moreover, in the presence of a synthetic polymer that mimics an A-repeat, protein binding to A-repeats was blocked, resulting in a dramatic change in the expression of genes containing upstream A-repeats. Our findings suggest a length-dependent cis-regulatory function of A-repeats and that Argonaute proteins serve as trans-acting factors, binding to A-repeats.

Spatial correlation of atmospheric wind at scales relevant for large scale wind turbines

NASA Astrophysics Data System (ADS)

Bardal, L. M.; Sætran, L. R.

2016-09-01

Wind measurements a short distance upstream of a wind turbine can provide input for a feedforward wind turbine controller. Since the turbulent wind field will be different at the point/plane of measurement and the rotor plane the degree of correlation between wind speed at two points in space both in the longitudinal and lateral direction should be evaluated. This study uses a 2D array of mast mounted anemometers to evaluate cross-correlation of longitudinal wind speed. The degree of correlation is found to increase with height and decrease with atmospheric stability. The correlation is furthermore considerably larger for longitudinal separation than for lateral separation. The integral length scale of turbulence is also considered.

Investigating the influence of haemodynamic stimuli on intracranial aneurysm inception.

PubMed

Chen, Haoyu; Selimovic, Alisa; Thompson, Harry; Chiarini, Alessandro; Penrose, Justin; Ventikos, Yiannis; Watton, Paul N

2013-07-01

We propose a novel method to reconstruct the hypothetical geometry of the healthy vasculature prior to intracranial aneurysm (IA) formation: a Frenet frame is calculated along the skeletonization of the arterial geometry; upstream and downstream boundaries of the aneurysmal segment are expressed in terms of the local Frenet frame basis vectors; the hypothetical healthy geometry is then reconstructed by propagating a closed curve along the skeleton using the local Frenet frames so that the upstream boundary is smoothly morphed into the downstream boundary. This methodology takes into account the tortuosity of the arterial vasculature and requires minimal user subjectivity. The method is applied to 22 clinical cases depicting IAs. Computational fluid dynamic simulations of the vasculature without IA are performed and the haemodynamic stimuli in the location of IA formation are examined. We observe that locally elevated wall shear stress (WSS) and gradient oscillatory number (GON) are highly correlated (20/22 for WSS and 19/22 for GON) with regions susceptible to sidewall IA formation whilst haemodynamic indices associated with the oscillation of the WSS vectors have much lower correlations.

Should efforts in favor of medical student diversity be focused during admissions or farther upstream?

PubMed

Reiter, Harold I; Lockyer, Jocelyn; Ziola, Barry; Courneya, Carol-Ann; Eva, Kevin

2012-04-01

Traditional medical school admissions assessment tools may be limiting diversity. This study investigates whether the Multiple Mini-Interview (MMI) is diversity-neutral and, if so, whether applying it with greater weight would dilute the anticipated negative impact of diversity-limiting admissions measures. Interviewed applicants to six medical schools in 2008 and 2009 underwent MMI. Predictor variables of MMI scores, grade point average (GPA), and Medical College Admission Test (MCAT) scores were correlated with diversity measures of age, gender, size of community of origin, income level, and self-declared aboriginal status. A subset of the data was then combined with variable weight assigned to predictor variables to determine whether weighting during the applicant selection process would affect diversity among chosen applicants. MMI scores were unrelated to gender, size of community of origin, and income level. They correlated positively with age and negatively with aboriginal status. GPA and MCAT correlated negatively with age and aboriginal status, GPA correlated positively with income level, and MCAT correlated positively with size of community of origin. Even extreme combinations of MMI and GPA weightings failed to increase diversity among applicants who would be selected on the basis of weighted criteria. MMI could not neutralize the diversity-limiting properties of academic scores as selection criteria to interview. Using academic scores in this way causes range restriction, counteracting attempts to enhance diversity using downstream admissions selection measures such as MMI. Diversity efforts should instead be focused upstream. These results lend further support for the development of pipeline programs.

The giant mottled eel, Anguilla marmorata, uses blue-shifted rod photoreceptors during upstream migration.

PubMed

Wang, Feng-Yu; Fu, Wen-Chun; Wang, I-Li; Yan, Hong Young; Wang, Tzi-Yuan

2014-01-01

Catadromous fishes migrate between ocean and freshwater during particular phases of their life cycle. The dramatic environmental changes shape their physiological features, e.g. visual sensitivity, olfactory ability, and salinity tolerance. Anguilla marmorata, a catadromous eel, migrates upstream on dark nights, following the lunar cycle. Such behavior may be correlated with ontogenetic changes in sensory systems. Therefore, this study was designed to identify changes in spectral sensitivity and opsin gene expression of A. marmorata during upstream migration. Microspectrophotometry analysis revealed that the tropical eel possesses a duplex retina with rod and cone photoreceptors. The λmax of rod cells are 493, 489, and 489 nm in glass, yellow, and wild eels, while those of cone cells are 508, and 517 nm in yellow, and wild eels, respectively. Unlike European and American eels, Asian eels exhibited a blue-shifted pattern of rod photoreceptors during upstream migration. Quantitative gene expression analyses of four cloned opsin genes (Rh1f, Rh1d, Rh2, and SWS2) revealed that Rh1f expression is dominant at all three stages, while Rh1d is expressed only in older yellow eel. Furthermore, sequence comparison and protein modeling studies implied that a blue shift in Rh1d opsin may be induced by two known (N83, S292) and four putative (S124, V189, V286, I290) tuning sites adjacent to the retinal binding sites. Finally, expression of blue-shifted Rh1d opsin resulted in a spectral shift in rod photoreceptors. Our observations indicate that the giant mottled eel is color-blind, and its blue-shifted scotopic vision may influence its upstream migration behavior and habitat choice.

Association of serotonin transporter gene polymorphism with obstructive sleep apnea syndrome.

PubMed

Ylmaz, Metin; Bayazit, Yildirim A; Ciftci, Tansu Ulukavak; Erdal, M Emin; Urhan, Meral; Kokturk, Oguz; Kemaloglu, Yusuf K; Inal, Erdogan

2005-05-01

Obstructive sleep apnea syndrome (OSAS) is a common condition characterized by repetitive pharyngeal collapse during sleep and daytime sleepiness. There is genetic predisposition to sleep disorders. Serotonin is involved in the regulation of sleep. The synaptic 5-hydroxytryptamine (HT) is inactivated by presynaptic reuptake, which is mediated by the serotonin transporter. Blockage of the serotonin transporter leads to increased extracellular 5-HT. Polymorphism of the serotonin transporter gene (STG) leads to alterations in serotonin level and may be important in OSAS. In this study, we aimed to assess the role of STG polymorphism in OSAS. Twenty-seven OSAS patients and 162 healthy volunteers were involved in the study. STG polymorphism was investigated using leukocytes obtained from peripheral blood. There was no difference between the genotypes and allele frequencies of the patients and controls regarding VNTR and HTTLPR polymorphisms (P > .05). The VNTR and HTTLPR variants and the frequencies of 12/12, 12/10, L, and S alleles were not significantly different between male and female control subjects (P > .05). The 12/12 and SS genotypes were over-represented in the female patients, whereas 12/10 and LL genotypes were over-represented in the male patients (P < .05). The genotypes 12 to 12 were over-represented in the male controls, whereas the genotypes 12 to 10 and L/S were over-represented in the male patients (P < .05). The alleles 10 and L were more frequent in the male patients than male controls (P < .05). The genotypes of female patients and female controls were not significantly different (P > .05). The allele 10 and L were less frequent in the female patients than female controls with Fisher's exact testing (P < .05). There was no relation between genotypes and clinical data of the patients (P > .05). STG polymorphism appears to be associated with the occurrence of OSAS, especially in male patients. Absence of association of between genetic variants and polysomnography findings may suggest that some mechanisms other than STG polymorphism are involved in OSAS pathophysiology. Our results need confirmation in a larger group of patients with OSAS.

Methylation-dependent DNA discrimination in natural transformation of Campylobacter jejuni

PubMed Central

Leveque, Rhiannon M.; Dawid, Suzanne; DiRita, Victor J.

2017-01-01

Campylobacter jejuni, a leading cause of bacterial gastroenteritis, is naturally competent. Like many competent organisms, C. jejuni restricts the DNA that can be used for transformation to minimize undesirable changes in the chromosome. Although C. jejuni can be transformed by C. jejuni-derived DNA, it is poorly transformed by the same DNA propagated in Escherichia coli or produced with PCR. Our work indicates that methylation plays an important role in marking DNA for transformation. We have identified a highly conserved DNA methyltransferase, which we term Campylobacter transformation system methyltransferase (ctsM), which methylates an overrepresented 6-bp sequence in the chromosome. DNA derived from a ctsM mutant transforms C. jejuni significantly less well than DNA derived from ctsM+ (parental) cells. The ctsM mutation itself does not affect transformation efficiency when parental DNA is used, suggesting that CtsM is important for marking transforming DNA, but not for transformation itself. The mutant has no growth defect, arguing against ongoing restriction of its own DNA. We further show that E. coli plasmid and PCR-derived DNA can efficiently transform C. jejuni when only a subset of the CtsM sites are methylated in vitro. A single methylation event 1 kb upstream of the DNA involved in homologous recombination is sufficient to transform C. jejuni, whereas otherwise identical unmethylated DNA is not. Methylation influences DNA uptake, with a slight effect also seen on DNA binding. This mechanism of DNA discrimination in C. jejuni is distinct from the DNA discrimination described in other competent bacteria. PMID:28855338

Transcriptome analysis of reproductive-stage Arabidopsis plants exposed gamma-ray irradiation at various doses.

PubMed

Hwang, Sun-Goo; Kim, Dong Sub; Kim, Jin-Baek; Hwang, Jung Eun; Park, Hyun Mi; Kim, Jin Hyuk; Jang, Cheol Seong

2016-08-01

Gamma rays (GR) induce significant changes in the structure and expression of genes involved in the regulation of diverse biochemical and physiological processes. Arabidopsis plants exhibit different growth and development patterns in response to exposure to GR. The effects on gene expression of different radiation doses of GR (100 and 800 Gy) administered to Arabidopsis plants were examined at the reproductive stage. We irradiated 26-day-old plants with three replications [developmental stages 5.1-6.0, according to Boyes et al. ( 2001 )] using a GR irradiator (60 Co, ca. 150 TBq capacity, Atomic Energy of Canada Limited, Ontario, Canada) at the Korea Atomic Energy Research Institute. Plants were treated with 100, 200, 300, 400, 800, 1200, 1600, or 2000 Gy, and the doses were made from varying the distance to the source. We conducted a high-throughput screening analysis and detected 883 GR-responsive genes that showed significant changes; these were involved in several putative metabolic pathways related to biotic stress. Additionally, five overrepresented cis-regulatory elements were identified in the 1-kb upstream regions of GR-responsive genes by using motif enrichment analysis. We also detected three GR-responsive genes associated with stamen development and confirmed their co-regulation with functionally interacting genes. This finding suggests that a network-based analysis is a viable approach to identify significant GR-responsive genes associated with the reproductive stage of Arabidopsis. Our results provide further insights into the complex biological systems involved in the response to different doses of GR in plants.

Attractor neural networks with resource-efficient synaptic connectivity

NASA Astrophysics Data System (ADS)

Pehlevan, Cengiz; Sengupta, Anirvan

Memories are thought to be stored in the attractor states of recurrent neural networks. Here we explore how resource constraints interplay with memory storage function to shape synaptic connectivity of attractor networks. We propose that given a set of memories, in the form of population activity patterns, the neural circuit choses a synaptic connectivity configuration that minimizes a resource usage cost. We argue that the total synaptic weight (l1-norm) in the network measures the resource cost because synaptic weight is correlated with synaptic volume, which is a limited resource, and is proportional to neurotransmitter release and post-synaptic current, both of which cost energy. Using numerical simulations and replica theory, we characterize optimal connectivity profiles in resource-efficient attractor networks. Our theory explains several experimental observations on cortical connectivity profiles, 1) connectivity is sparse, because synapses are costly, 2) bidirectional connections are overrepresented and 3) are stronger, because attractor states need strong recurrence.

[Assessment of parental stress using the "Eltern-Belastungs-Screening zur Kindeswohlgefährdung" (EBSK) - association with emotional and behavioral problems in children].

PubMed

Eichler, Anna K; Glaubitz, Katharina A; Hartmann, Luisa C; Spangler, Gottfried

2014-07-01

Parental stress is increased in clinical contexts (e.g., child psychiatry) and correlates with behavioral and emotional problems of children. In addition, parental stress can result in a biased parental perception of child's behavior and emotions. These interrelations were examined in a normal (N = 320) and a clinical (N = 75) sample. The "Eltern-Belastungs-Screening zur Kindeswohlgefährdung" (EBSK; Deegener, Spangler, Körner & Becker, 2009) was used for the assessment of parental stress. As expected, increased EBSK scores were overrepresented in the clinical sample. In both samples stressed parents reported having children with more behavioral and emotional problems. Children of stressed parents in turn reported significantly less problems than their parents did. The rating of independent third persons, e.g. teachers, was not available and should be added in future research. Restrictions in methodology and conclusions for practice are discussed.

Assessing the moderating effects of anxiety sensitivity on antisocial behavior among urban African American youth.

PubMed

Nebbitt, Von Eugene; Lombe, Margaret; Williams, James Herbert

2008-02-01

African American adolescents are a vulnerable population, overrepresented in the juvenile justice system and underserved by mental health providers. Consequently, a disproportionate number of African American youth in the juvenile justice system have diagnosable mental health problems. This study investigates whether, among African American adolescents, the effects of attitude towards deviance, self-efficacy, and exposure to delinquent peers on antisocial behavior are moderated by anxiety sensitivity. A sample of 238 African American adolescents ages 13-19 from 3 public housing developments participated in this study. Results indicated that 40% of the adolescents reported no involvement in antisocial behaviors. Gender, anxiety sensitivity, and attitudes towards deviance were significant correlates of antisocial behavior. Interaction effects indicate that the relative impact of attitudes towards deviance and exposure to delinquent peers on antisocial behaviors is contingent upon adolescents' level of anxiety sensitivity. Implications for practice and future research are discussed.

Metagenomic sequencing reveals microbiota and its functional potential associated with periodontal disease

PubMed Central

Wang, Jinfeng; Qi, Ji; Zhao, Hui; He, Shu; Zhang, Yifei; Wei, Shicheng; Zhao, Fangqing

2013-01-01

Although attempts have been made to reveal the relationships between bacteria and human health, little is known about the species and function of the microbial community associated with oral diseases. In this study, we report the sequencing of 16 metagenomic samples collected from dental swabs and plaques representing four periodontal states. Insights into the microbial community structure and the metabolic variation associated with periodontal health and disease were obtained. We observed a strong correlation between community structure and disease status, and described a core disease-associated community. A number of functional genes and metabolic pathways including bacterial chemotaxis and glycan biosynthesis were over-represented in the microbiomes of periodontal disease. A significant amount of novel species and genes were identified in the metagenomic assemblies. Our study enriches the understanding of the oral microbiome and sheds light on the contribution of microorganisms to the formation and succession of dental plaques and oral diseases. PMID:23673380

Jet array impingement with crossflow-correlation of streamwise resolved flow and heat transfer distributions

NASA Technical Reports Server (NTRS)

Florschuetz, L. W.; Metzger, D. E.; Truman, C. R.

1981-01-01

Correlations for heat transfer coefficients for jets of circular offices and impinging on a surface parallel to the jet orifice plate are presented. The air, following impingement, is constrained to exit in a single direction along the channel formed by the jet orifice plate and the heat transfer (impingement) surface. The downstream jets are subjected to a crossflow originating from the upstream jets. Impingement surface heat transfer coefficients resolved to one streamwise jet orifice spacing, averaged across the channel span, are correlated with the associated individual spanwise orifice row jet and crossflow velocities, and with the geometric parameters.

How Women Manage.

ERIC Educational Resources Information Center

Feuer, Dale

1988-01-01

Discusses why women managers are overrepresented in low-level, low-status positions; why they are in go-nowhere staff roles, managing functions not people; and why so few hold top management positions in America's organizations. (JOW)

CORE_TF: a user-friendly interface to identify evolutionary conserved transcription factor binding sites in sets of co-regulated genes

PubMed Central

Hestand, Matthew S; van Galen, Michiel; Villerius, Michel P; van Ommen, Gert-Jan B; den Dunnen, Johan T; 't Hoen, Peter AC

2008-01-01

Background The identification of transcription factor binding sites is difficult since they are only a small number of nucleotides in size, resulting in large numbers of false positives and false negatives in current approaches. Computational methods to reduce false positives are to look for over-representation of transcription factor binding sites in a set of similarly regulated promoters or to look for conservation in orthologous promoter alignments. Results We have developed a novel tool, "CORE_TF" (Conserved and Over-REpresented Transcription Factor binding sites) that identifies common transcription factor binding sites in promoters of co-regulated genes. To improve upon existing binding site predictions, the tool searches for position weight matrices from the TRANSFACR database that are over-represented in an experimental set compared to a random set of promoters and identifies cross-species conservation of the predicted transcription factor binding sites. The algorithm has been evaluated with expression and chromatin-immunoprecipitation on microarray data. We also implement and demonstrate the importance of matching the random set of promoters to the experimental promoters by GC content, which is a unique feature of our tool. Conclusion The program CORE_TF is accessible in a user friendly web interface at . It provides a table of over-represented transcription factor binding sites in the users input genes' promoters and a graphical view of evolutionary conserved transcription factor binding sites. In our test data sets it successfully predicts target transcription factors and their binding sites. PMID:19036135

Water exchange through the Kerama Gap estimated with a 25-year Pacific HYbrid Coordinate Ocean Model

NASA Astrophysics Data System (ADS)

Zhou, Wenzheng; Yu, Fei; Nan, Feng

2017-11-01

Variations in water exchange through the Kerama Gap (between Okinawa Island and Miyakojima Island) from 1979 to 2003 were estimated with the 0.08° Pacific HYbrid Coordinate Ocean Model (HYCOM). The model results show that the mean transport through the Kerama Gap (KGT) from the Pacific Ocean to the East China Sea (ECS) was 2.1 Sv, which agrees well with the observed mean KGT (2.0 Sv) for 2009-2010. Over the time period examined, the monthly KGT varied from -10.9 Sv to 15.8 Sv and had a standard deviation of ± 5.0 Sv. The water mainly enters the ECS via the subsurface layer (300-500 m) along the northeastern slope of the Kerama Gap and mainly flows out of the ECS into the southwest of the Kerama Gap. The seasonal and interannual variations of the KGT and the Kuroshio upstream transport were negatively correlated. The Kuroshio upstream transport was largest in summer and smallest in autumn while the KGT was smallest in summer (1.02 Sv) and largest in spring (2.94 Sv) and autumn (2.44 Sv). The seasonal and interannual variations in the Kuroshio downstream (across the PN-line) transport differed significantly from the Kuroshio upstream transport but corresponded well with the KGT and the sum of the transport through the Kerama Gap and the Kuroshio upstream, which indicates that information about variation in the KGT is important for determining variation in the Kuroshio transport along the PN-line.

Pesticides drive risk of micropollutants in wastewater-impacted streams during low flow conditions.

PubMed

Munz, Nicole A; Burdon, Francis J; de Zwart, Dick; Junghans, Marion; Melo, Laura; Reyes, Marta; Schönenberger, Urs; Singer, Heinz P; Spycher, Barbara; Hollender, Juliane; Stamm, Christian

2017-03-01

Micropollutants enter surface waters through various pathways, of which wastewater treatment plants (WWTPs) are a major source. The large diversity of micropollutants and their many modes of toxic action pose a challenge for assessing environmental risks. In this study, we investigated the potential impact of WWTPs on receiving ecosystems by describing concentration patterns of micropollutants, predicting acute risks for aquatic organisms and validating these results with macroinvertebrate biomonitoring data. Grab samples were taken upstream, downstream and at the effluent of 24 Swiss WWTPs during low flow conditions across independent catchments with different land uses. Using liquid chromatography high resolution tandem mass spectrometry, a comprehensive target screening of almost 400 organic substances, focusing mainly on pesticides and pharmaceuticals, was conducted at two time points, and complemented with the analysis of a priority mixture of 57 substances over eight time points. Acute toxic pressure was predicted using the risk assessment approach of the multi-substance potentially affected fraction, first applying concentration addition for substances with the same toxic mode of action and subsequently response addition for the calculation of the risk of the total mixture. This toxic pressure was compared to macroinvertebrate sensitivity to pesticides (SPEAR index) upstream and downstream of the WWTPs. The concentrations were, as expected, especially for pharmaceuticals and other household chemicals higher downstream than upstream, with the detection frequency of plant protection products upstream correlating with the fraction of arable land in the catchments. While the concentration sums downstream were clearly dominated by pharmaceuticals or other household chemicals, the acute toxic pressure was mainly driven by pesticides, often caused by the episodic occurrence of these compounds even during low flow conditions. In general, five single substances explained much of the total risk, with diclofenac, diazinon and clothianidin as the main drivers. Despite the low predicted acute risk of 0%-2.1% for affected species, a significant positive correlation with macroinvertebrate sensitivity to pesticides was observed. However, more effect data for pharmaceuticals and a better quantification of episodic pesticide pollution events are needed for a more comprehensive risk assessment. Copyright © 2016 Elsevier Ltd. All rights reserved.

MR enterography-histology comparison in resected pediatric small bowel Crohn disease strictures: can imaging predict fibrosis?

PubMed

Barkmeier, Daniel T; Dillman, Jonathan R; Al-Hawary, Mahmoud; Heider, Amer; Davenport, Matthew S; Smith, Ethan A; Adler, Jeremy

2016-04-01

Crohn disease is a chronic inflammatory condition that can lead to intestinal strictures. The presence of fibrosis within strictures alters optimal management but is not reliably detected by current imaging methods. To correlate the MRI features of surgically resected small-bowel strictures in pediatric Crohn disease with histological inflammation and fibrosis scoring. We included children with Crohn disease who had symptomatic small-bowel strictures requiring surgical resection and had preoperative MR enterography (MRE) within 3 months of surgery (n = 20). Two blinded radiologists reviewed MRE examinations to document stricture-related findings. A pediatric pathologist scored stricture histological specimens for fibrosis (0-4) and inflammation (0-4). MRE findings were correlated with histological data using Spearman correlation (ρ) and exact logistic regression analysis. There was significant positive correlation between histological bowel wall fibrosis and inflammation in resected strictures (ρ = 0.55; P = 0.01). Confluent transmural histological fibrosis was associated with pre-stricture upstream small-bowel dilatation >3 cm at univariate (odds ratio [OR] = 51.7; 95% confidence interval [CI]: 7.6- > 999.9; P = 0.0002) and multivariate (OR = 43.4; 95% CI: 6.1- > 999.9; P = 0.0006, adjusted for age) analysis. The degree of bowel wall T2-weighted signal intensity failed to correlate with histological bowel wall fibrosis or inflammation (P-values >0.05). There were significant negative correlations between histological fibrosis score and patient age at resection (ρ = -0.48, P = 0.03), and time from diagnosis to surgery (ρ = -0.73, P = 0.0002). Histological fibrosis and inflammation co-exist in symptomatic pediatric Crohn disease small-bowel strictures and are positively correlated. Pre-stenotic upstream small-bowel dilatation greater than 3 cm is significantly associated with confluent transmural fibrosis.

Water quality of Cisadane River based on watershed segmentation

NASA Astrophysics Data System (ADS)

Effendi, Hefni; Ayu Permatasari, Prita; Muslimah, Sri; Mursalin

2018-05-01

The growth of population and industrialization combined with land development along river cause water pollution and environmental deterioration. Cisadane River is one of the river in Indonesia where urbanization, industrialization, and agricultural are extremely main sources of pollution. Cisadane River is an interesting case for investigating the effect of land use to water quality and comparing water quality in every river segment. The main objectives with this study were to examine if there is a correlation between land use and water quality in Cisadane River and there is a difference in water quality between the upstream section of Cisadane River compared with its downstream section. This study compared water quality with land use condition in each segment of river. Land use classification showed that river segment that has more undeveloped area has better water quality compared to river segment with developed area. in general, BOD and COD values have increased from upstream to downstream. However, BOD and COD values do not show a steady increase in each segment Water quality is closely related to the surrounding land use.Therefore, it can not be concluded that the water quality downstream is worse than in the upstream area.

Modification of suburban carbon and nitrogen fluxes by a coupled channel/floodplain system assessed using in situ sensors

NASA Astrophysics Data System (ADS)

Wollheim, W. M.; Pellerin, B. A.; Saraceno, J.; Hopkinson, C.; Hope, A.; Morse, N.

2010-12-01

Biogeochemical fluxes in human dominated streams and rivers are highly impacted, but effects can be attenuated downstream through natural ecosystem processes. We deployed in situ nitrate, fdom, and chlorophyll sensors to characterize biogeochemical fluxes draining a suburban catchment, and modifications by a channel-floodplain system located immediately downstream. The upstream site reflects the suburban signal; the downstream site reflects the influence of the channel/floodplain on the suburban signal. FDOM showed a diurnal signal at both sites, but was stronger downstream, likely indicating new DOC production within the channel-floodplain system, which contained a small pond. In situ chlorophyll concentrations were also highly correlated with FDOM. FDOM showed a stronger storm response upstream than downstream, indicating terrestrial sources are mobilized by storms and subsequent dampening of the pulse by the floodplain. Nitrate concentrations consistently dropped from 0.6 to 0.7 mg/l upstream to less than 0.4 mg/l downstream, indicating likely nitrogen retention or removal over a relatively short distance (~500m). Use of in situ sensors is likely to greatly advance our understanding of biogeochemical processes in aquatic systems.

Upstream and Downstream Influence in STBLI Instability

NASA Astrophysics Data System (ADS)

Martin, Pino; Priebe, Stephan; Helm, Clara

2016-11-01

Priebe and Martín (JFM, 2012) show that the low-frequency unsteadiness in shockwave and turbulent boundary layer interactions (STBLI) is governed by an inviscid instability. Priebe, Tu, Martín and Rowley (JFM, 2016) show that the instability is an inviscid centrifugal one, i.e Görtlerlike vortices. Previous works had given differing conclusions as to whether the low-frequency unsteadiness in STBLI is caused by an upstream or downstream mechanism. In this paper, we reconcile these opposite views and show that upstream and downstream correlations co-exist in the context of the nature of Görtler vortices. We find that the instability is similar to that in separated subsonic and laminar flows. Since the turbulence is modulated but passive to the global mode, the turbulent separated flows are amenable to linear global analysis. As such, the characteristic length and time scales, and the receptivity of the global mode might be determined, and low-order models that represent the low-frequency dynamics in STBLI might be developed. The centrifugal instability persists even under hypersonic conditions. This work is funded by the AFOSR Grant Number AF9550-15-1-0284 with Dr. Ivett Leyva.

Characterization of ROP18 alleles in human toxoplasmosis.

PubMed

Sánchez, Víctor; de-la-Torre, Alejandra; Gómez-Marín, Jorge Enrique

2014-04-01

The role of the virulent gene ROP18 polymorphisms is not known in human toxoplasmosis. A total of 320 clinical samples were analyzed. In samples positive for ROP18 gene, we determined by an allele specific PCR, if patients got the upstream insertion positive ROP18 sequence Toxoplasma strain (mouse avirulent strain) or the upstream insertion negative ROP18 sequence Toxoplasma strain (mouse virulent strain). We designed an ELISA assay for antibodies against ROP18 derived peptides from the three major clonal lineages of Toxoplasma. 20 clinical samples were of quality for ROP18 allele analysis. In patients with ocular toxoplasmosis, a higher inflammatory reaction on eye was associated to a PCR negative result for the upstream region of ROP18. 23.3%, 33% and 16.6% of serums from individuals with ocular toxoplasmosis were positive for type I, type II and type III ROP18 derived peptides, respectively but this assay was affected by cross reaction. The absence of Toxoplasma ROP18 promoter insertion sequence in ocular toxoplasmosis was correlated with severe ocular inflammatory response. Determination of antibodies against ROP18 protein was not useful for serotyping in human toxoplasmosis. © 2013.

Protein-Protein Interactions, Not Substrate Recognition, Dominate the Turnover of Chimeric Assembly Line Polyketide Synthases*

PubMed Central

Klaus, Maja; Ostrowski, Matthew P.; Austerjost, Jonas; Robbins, Thomas; Lowry, Brian; Cane, David E.; Khosla, Chaitan

2016-01-01

The potential for recombining intact polyketide synthase (PKS) modules has been extensively explored. Both enzyme-substrate and protein-protein interactions influence chimeric PKS activity, but their relative contributions are unclear. We now address this issue by studying a library of 11 bimodular and 8 trimodular chimeric PKSs harboring modules from the erythromycin, rifamycin, and rapamycin synthases. Although many chimeras yielded detectable products, nearly all had specific activities below 10% of the reference natural PKSs. Analysis of selected bimodular chimeras, each with the same upstream module, revealed that turnover correlated with the efficiency of intermodular chain translocation. Mutation of the acyl carrier protein (ACP) domain of the upstream module in one chimera at a residue predicted to influence ketosynthase-ACP recognition led to improved turnover. In contrast, replacement of the ketoreductase domain of the upstream module by a paralog that produced the enantiomeric ACP-bound diketide caused no changes in processing rates for each of six heterologous downstream modules compared with those of the native diketide. Taken together, these results demonstrate that protein-protein interactions play a larger role than enzyme-substrate recognition in the evolution or design of catalytically efficient chimeric PKSs. PMID:27246853

Seasonal and temporal patterns of NDMA formation potentials in surface waters.

PubMed

Uzun, Habibullah; Kim, Daekyun; Karanfil, Tanju

2015-02-01

The seasonal and temporal patterns of N-nitrosodimethylamine (NDMA) formation potentials (FPs) were examined with water samples collected monthly for 21 month period in 12 surface waters. This long term study allowed monitoring the patterns of NDMA FPs under dynamic weather conditions (e.g., rainy and dry periods) covering several seasons. Anthropogenically impacted waters which were determined by high sucralose levels (>100 ng/L) had higher NDMA FPs than limited impacted sources (<100 ng/L). In most sources, NDMA FP showed more variability in spring months, while seasonal mean values remained relatively consistent. The study also showed that watershed characteristics played an important role in the seasonal and temporal patterns. In the two dam-controlled river systems (SW A and G), the NDMA FP levels at the downstream sampling locations were controlled by the NDMA levels in the dams independent of either the increases in discharge rates due to water releases from the dams prior to or during the heavy rain events or intermittent high NDMA FP levels observed at the upstream of dams. The large reservoirs and impoundments on rivers examined in this study appeared serving as an equalization basin for NDMA precursors. On the other hand, in a river without an upstream reservoir (SW E), the NDMA levels were influenced by the ratio of an upstream wastewater treatment plant (WWTP) effluent discharge to the river discharge rate. The impact of WWTP effluent decreased during the high river flow periods due to rain events. Linear regression with independent variables DOC, DON, and sucralose yielded poor correlations with NDMA FP (R(2) < 0.27). Multiple linear regression analysis using DOC and log [sucralose] yielded a better correlation with NDMA FP (R(2) = 0.53). Copyright © 2014 Elsevier Ltd. All rights reserved.

Relative importance of redox buffers GSH and NAD(P)H in age-related neurodegeneration and Alzheimer disease-like mouse neurons.

PubMed

Ghosh, Debolina; Levault, Kelsey R; Brewer, Gregory J

2014-08-01

Aging, a major risk factor in Alzheimer's disease (AD), is associated with an oxidative redox shift, decreased redox buffer protection, and increased free radical reactive oxygen species (ROS) generation, probably linked to mitochondrial dysfunction. While NADH is the ultimate electron donor for many redox reactions, including oxidative phosphorylation, glutathione (GSH) is the major ROS detoxifying redox buffer in the cell. Here, we explored the relative importance of NADH and GSH to neurodegeneration in aging and AD neurons from nontransgenic and 3xTg-AD mice by inhibiting their synthesis to determine whether NADH can compensate for the GSH loss to maintain redox balance. Neurons stressed by either depleting NAD(P)H or GSH indicated that NADH redox control is upstream of GSH levels. Further, although depletion of NAD(P)H or GSH correlated linearly with neuron death, compared with GSH depletion, higher neurodegeneration was observed when NAD(P)H was extrapolated to zero, especially in old age, and in the 3xTg-AD neurons. We also observed an age-dependent loss of gene expression of key redox-dependent biosynthetic enzymes, NAMPT (nicotinamide phosphoribosyltransferase), and NNT (nicotinamide nucleotide transhydrogenase). Moreover, age-related correlations between brain NNT or NAMPT gene expression and NADPH levels suggest that these genes contribute to the age-related declines in NAD(P)H. Our data indicate that in aging and more so in AD-like neurons, NAD(P)H redox control is upstream of GSH and an oxidative redox shift that promotes neurodegeneration. Thus, NAD(P)H generation may be a more efficacious therapeutic target upstream of GSH and ROS. © 2014 The Authors. Aging Cell published by the Anatomical Society and John Wiley & Sons Ltd.

Influence of remediation in a mine-impacted river: Metal trends over large spatial and temporal scales

USGS Publications Warehouse

Hornberger, Michelle I.; Luoma, S.N.; Johnson, M.L.; Holyoak, M.

2009-01-01

The effectiveness of mine-waste remediation at the Clark Fork River Superfund site in western Montana, USA, was examined by monitoring metal concentrations in resident biota (caddisfly, Hydropsyche spp.) and bed sediment over a 19-year period. Remediation activities began in 1990 and are ongoing. In the upper 45 km, reduced Cu and Cd concentrations at some sites were coincident with remediation events. However, for a period of three years, the decline in Cu and Cd directly below the treatment ponds was offset by high arsenic concentrations, suggesting that remediation for cations (e.g., Cu and Cd) mobilized anions such as arsenic. The impact of remediation in the middle and lower reaches was confounded by a significant positive relationship between metal bioaccumulation and stream discharge. High flows did not dilute metals but redistributed contaminants throughout the river. The majority of clean-up efforts were focused on reducing metal-rich sediments in the most contaminated upstream reach, implicitly assuming that improvements upstream will positively impact the downstream stations. We tested this assumption by correlating temporal metal trends in sediment between and among stations. The strength of that association (r value) was our indicator of spatial connectivity. Connectivity for both Cu and Cd was strong at small spatial scales. Large-scale connectivity was strongest with Cu since similar temporal reductions were observed at most monitoring stations. The most upstream station, closest to remediation, had the lowest connectivity, but the next three downstream sites were strongly correlated to trends downstream. Targeted remediation in this reach would be an effective approach to positively influencing the downstream stations. ?? 2009 by the Ecological Society ot America.

Bioavailability of Pb and Zn from mine tailings as indicated by erythrocyte aminolevulinic acid dehydratase (ALA-D) activity in suckers (Pisces: catostomidae)

USGS Publications Warehouse

Schmitt, Christopher J.; Dwyer, F. James; Finger, Susan E.

1984-01-01

The activity of the erythrocyte enzyme δ-aminolevulinic acid dehydratase (ALA-D) was measured in 35 catostomids (black redhorse, Moxostoma duquesnei; golden redhorse, M. erythrurum; northern hogsucker, Hypentelium nigricans) collected from three sites on a stream contaminated with Pb-, Cd-, and Zn-rich mine tailings and from an uncontaminated site upstream. Enzyme activity was expressed in terms of hemoglobin (Hb), DNA, and protein concentrations; these variables can be determined in the laboratory on once-frozen blood samples. Concentrations of Pb and Zn in blood and of Pb in edible tissues were significantly higher, and ALA-D activity was significantly lower, at all three contaminated sites than upstream. At the most contaminated site, ALA-D activity was 62–67% lower than upstream. Lead concentrations in the edible tissues and in blood were positively correlated (r = 0.80), whereas ALA-D activity was negatively correlated with Pb in blood (r = −0.70) and in edible tissues (r = −0.59). Five statistically significant relations between Pb and Zn in blood and ALA-D activity were determined. The two models that explained the highest percentage (> 74%) of the total variance also included factors related to Hb concentration. All five significant models included negative coefficients for variables that represented Pb in blood and positive coefficients for Zn in blood. The ALA-D assay with results standardized to Hb concentration represents an expedient alternative to the more traditional hematocrit standardization, and the measurement of ALA-D activity by this method can be used to document exposure of fish to environmental Pb.

On the Relation Between Soft Electron Precipitations in the Cusp Region and Solar Wind Coupling Functions

NASA Astrophysics Data System (ADS)

Dang, Tong; Zhang, Binzheng; Wiltberge, Michael; Wang, Wenbin; Varney, Roger; Dou, Xiankang; Wan, Weixing; Lei, Jiuhou

2018-01-01

In this study, the correlations between the fluxes of precipitating soft electrons in the cusp region and solar wind coupling functions are investigated utilizing the Lyon-Fedder-Mobarry global magnetosphere model simulations. We conduct two simulation runs during periods from 20 March 2008 to 16 April 2008 and from 15 to 24 December 2014, which are referred as "Equinox Case" and "Solstice Case," respectively. The simulation results of Equinox Case show that the plasma number density in the high-latitude cusp region scales well with the solar wind number density (ncusp/nsw=0.78), which agrees well with the statistical results from the Polar spacecraft measurements. For the Solstice Case, the plasma number density of high-latitude cusp in both hemispheres increases approximately linearly with upstream solar wind number density with prominent hemispheric asymmetry. Due to the dipole tilt effect, the average number density ratio ncusp/nsw in the Southern (summer) Hemisphere is nearly 3 times that in the Northern (winter) Hemisphere. In addition to the solar wind number density, 20 solar wind coupling functions are tested for the linear correlation with the fluxes of precipitating cusp soft electrons. The statistical results indicate that the solar wind dynamic pressure p exhibits the highest linear correlation with the cusp electron fluxes for both equinox and solstice conditions, with correlation coefficients greater than 0.75. The linear regression relations for equinox and solstice cases may provide an empirical calculation for the fluxes of cusp soft electron precipitation based on the upstream solar wind driving conditions.

PAHs and PCBs deposited in surficial sediments along a rural to urban transect in a mid-Atlantic coastal river basin (USA).

PubMed

Foster, Gregory D; Cui, Vickie

2008-10-01

PAHs and PCBs were measured in river sediments along a 226 km longitudinal transect that spanned rural to urban land use settings through Valley and Ridge, Piedmont Plateau and Coastal Plain physiographic provinces in the Potomac River basin (mid-Atlantic USA). A gradient in PAH concentrations was found in river bed sediments along the upstream transect in the Potomac and Shenandoah Rivers that correlated with population densities in the nearby sub-basins. Sediment PAH concentrations halved per each approximately 40 km of transect distance upstream (i.e., the half-concentration distance) from the urban center (Washington, DC) of the Potomac River basin in direct proportion to population density. The PAH molecular composition was consistent across all geologic provinces, revealing a dominant pyrogenic source. Fluoranthene to perylene ratios served as useful markers for urban inputs, with a ratio > 2.4 observed in sediments near urban structures such as roadways, bridges and sewer outfalls. PCBs in sediments were not well correlated with population densities along the river basin transect, but the highest concentrations were found in the urban Coastal Plain region near Washington, DC and in the Shenandoah River near a known industrial Superfund site. PAHs were moderately correlated with sediment total organic carbon (TOC) in the Shenandoah River and Coastal Plain Potomac River regions, but TOC was poorly correlated with PCB concentrations throughout the entire basin. Although both PAHs and PCBs are widely recognized as urban-derived contaminants, their concentration profiles and geochemistry in river sediments were uniquely different throughout the upper Potomac River basin.

Canine sterile nodular panniculitis: a retrospective study of 39 dogs.

PubMed

Contreary, Caitlin L; Outerbridge, Catherine A; Affolter, Verena K; Kass, Philip H; White, Stephen D

2015-12-01

Canine sterile nodular panniculitis (SNP) is an inflammatory disease of the panniculus that is typically managed with immunomodulatory or immunosuppressive treatments. It has been reported to be a cutaneous marker of an underlying systemic disease. To assess the presence or absence of concurrent systemic diseases associated with canine SNP and to document breed predispositions. Thirty nine dogs presented to a veterinary teaching hospital from 1990 to 2012 which met inclusion criteria. Inclusion in this retrospective study required a diagnosis of SNP via histopathological analysis and negative special stains for infectious organisms. Breed distributions of affected dogs were compared to all other dogs examined at this hospital during the study period. Correlations between the histological pattern of panniculitis and the histological presence of dermatitis, clinical presentation of lesions, dog breed and therapeutic outcomes were assessed. Australian shepherd dogs, Brittany spaniels, Dalmatians, Pomeranians and Chihuahuas were significantly over-represented, but correlations between inflammatory patterns of panniculitis and other histological and clinical factors were not identified. Based on the information available in medical records, 32 dogs (82.1%) had no concurrent systemic diseases identified. Four dogs had concurrent polyarthritis, which may be related to SNP through unknown mechanisms. This study identified several novel breed predilections for SNP; it failed to find any clear correlations with associated systemic diseases other than polyarthritis. The histological inflammatory pattern of SNP does not predict therapeutic outcome. © 2015 ESVD and ACVD.

Bridging the gender pay gap.

PubMed

Pearce, Lynne

2016-08-31

Nursing may be a largely female profession, but men are vastly overrepresented in senior positions. Experts say the NHS has to take action to correct the huge gender imbalance - and female nurses need to learn how to help themselves.

A comparison of alcohol involvement in pedestrians and pedestrian casualties

DOT National Transportation Integrated Search

1979-10-01

The objectives of this study were to determine the frequency of alcohol involvement in adult (14 years +) pedestrian fatalities and injuries; determine if alcohol was overrepresented; determine the causal role of alcohol; and suggest countermeasures....

Understanding youthful risk taking and driving

DOT National Transportation Integrated Search

1995-06-01

Injuries from motor vehicle crashes are the leading cause of death for young persons, accounting for more than one-fifth of all deaths in the late teenage years. Youthful drivers are substantially overrepresented in motor vehicle crashes compared to ...

CABLE MEDIAN BARRIER FAILURE ANALYSIS AND REMEDIATION, PHASE II

DOT National Transportation Integrated Search

2013-06-20

On divided roadways, cross-median fatalities are disproportionately overrepresented in fatal and serious injury crashes. Many state DOTs sought to mitigate cross-median crash risk by installing cable median barriers. Despite increased crash rates, st...

Genome-wide targeted prediction of ABA responsive genes in rice based on over-represented cis-motif in co-expressed genes.

PubMed

Lenka, Sangram K; Lohia, Bikash; Kumar, Abhay; Chinnusamy, Viswanathan; Bansal, Kailash C

2009-02-01

Abscisic acid (ABA), the popular plant stress hormone, plays a key role in regulation of sub-set of stress responsive genes. These genes respond to ABA through specific transcription factors which bind to cis-regulatory elements present in their promoters. We discovered the ABA Responsive Element (ABRE) core (ACGT) containing CGMCACGTGB motif as over-represented motif among the promoters of ABA responsive co-expressed genes in rice. Targeted gene prediction strategy using this motif led to the identification of 402 protein coding genes potentially regulated by ABA-dependent molecular genetic network. RT-PCR analysis of arbitrarily chosen 45 genes from the predicted 402 genes confirmed 80% accuracy of our prediction. Plant Gene Ontology (GO) analysis of ABA responsive genes showed enrichment of signal transduction and stress related genes among diverse functional categories.

Exploring racial/ethnic differences in substance use: a preliminary theory-based investigation with juvenile justice-involved youth.

PubMed

Feldstein Ewing, Sarah W; Venner, Kamilla L; Mead, Hilary K; Bryan, Angela D

2011-08-16

Racial/ethnic differences in representation, substance use, and its correlates may be linked to differential long-term health outcomes for justice-involved youth. Determining the nature of these differences is critical to informing more efficacious health prevention and intervention efforts. In this study, we employed a theory-based approach to evaluate the nature of these potential differences. Specifically, we hypothesized that (1) racial/ethnic minority youth would be comparatively overrepresented in the juvenile justice system, (2) the rates of substance use would be different across racial/ethnic groups, and (3) individual-level risk factors would be better predictors of substance use for Caucasian youth than for youth of other racial/ethnic groups. To evaluate these hypotheses, we recruited a large, diverse sample of justice-involved youth in the southwest (N = 651; M age = 15.7, SD = 1.05, range = 14-18 years); 66% male; 41% Hispanic, 24% African American, 15% Caucasian, 11% American Indian/Alaska Native). All youth were queried about their substance use behavior (alcohol, marijuana, tobacco, illicit hard drug use) and individual-level risk factors (school involvement, employment, self-esteem, level of externalizing behaviors). As predicted, racial/ethnic minority youth were significantly overrepresented in the juvenile justice system. Additionally, Caucasian youth reported the greatest rates of substance use and substance-related individual-level risk factors. In contrast, African American youth showed the lowest rates for substance use and individual risk factors. Contrary to predictions, a racial/ethnic group by risk factor finding emerged for only one risk factor and one substance use category. This research highlights the importance of more closely examining racial/ethnic differences in justice populations, as there are likely to be differing health needs, and subsequent treatment approaches, by racial/ethnic group for justice-involved youth. Additionally, this study highlights the need for timely, empirically supported (developmentally and cross-culturally) substance abuse interventions for all justice-involved youth.

Exploring racial/ethnic differences in substance use: a preliminary theory-based investigation with juvenile justice-involved youth

PubMed Central

2011-01-01

Background Racial/ethnic differences in representation, substance use, and its correlates may be linked to differential long-term health outcomes for justice-involved youth. Determining the nature of these differences is critical to informing more efficacious health prevention and intervention efforts. In this study, we employed a theory-based approach to evaluate the nature of these potential differences. Specifically, we hypothesized that (1) racial/ethnic minority youth would be comparatively overrepresented in the juvenile justice system, (2) the rates of substance use would be different across racial/ethnic groups, and (3) individual-level risk factors would be better predictors of substance use for Caucasian youth than for youth of other racial/ethnic groups. Methods To evaluate these hypotheses, we recruited a large, diverse sample of justice-involved youth in the southwest (N = 651; M age = 15.7, SD = 1.05, range = 14-18 years); 66% male; 41% Hispanic, 24% African American, 15% Caucasian, 11% American Indian/Alaska Native). All youth were queried about their substance use behavior (alcohol, marijuana, tobacco, illicit hard drug use) and individual-level risk factors (school involvement, employment, self-esteem, level of externalizing behaviors). Results As predicted, racial/ethnic minority youth were significantly overrepresented in the juvenile justice system. Additionally, Caucasian youth reported the greatest rates of substance use and substance-related individual-level risk factors. In contrast, African American youth showed the lowest rates for substance use and individual risk factors. Contrary to predictions, a racial/ethnic group by risk factor finding emerged for only one risk factor and one substance use category. Conclusions This research highlights the importance of more closely examining racial/ethnic differences in justice populations, as there are likely to be differing health needs, and subsequent treatment approaches, by racial/ethnic group for justice-involved youth. Additionally, this study highlights the need for timely, empirically supported (developmentally and cross-culturally) substance abuse interventions for all justice-involved youth. PMID:21846356

Peri-abortion contraceptive choices of migrant Chinese women: a retrospective review of medical records.

PubMed

Rose, Sally B; Wei, Zhang; Cooper, Annette J; Lawton, Beverley A

2012-01-01

Migrant Asian women reportedly have low levels of contraceptive use and high rates of abortion in New Zealand. Chinese make up the largest proportion of migrant Asian in New Zealand. This study aimed to describe the contraceptive choices of Chinese women seeking abortion; to examine method choice in relation to demographic characteristics (including length of stay) and to determine whether Chinese women were over-represented among abortion clinic attendees. Retrospective review of medical records at a public hospital abortion clinic involving 305 Chinese women. Previously collected data for European (n = 277) and Maori women (n = 128) were used for comparative analyses. Regression analyses explored correlates of contraceptive method choice. Population census data were used to calculate rates of clinic attendance across ethnic groups. Chinese women were not over-represented among clinic attendees, and had similar rates of contraceptive non-use pre-abortion as women in comparison groups. Use of the oral contraceptive pill by Chinese was lower pre-abortion than for other ethnic groups, but choice of this method post-abortion was similar for Chinese (46.9%, 95% CI 41-52.7) and European women (43.7%, 95% CI 37.8-49.7). Post-abortion choice of an intrauterine device did not differ significantly between Chinese (28.9%, 95% CI 23.8-34.3) and Maori women (37%, 95% CI 28.4-45.7), but was higher than uptake of this method by European women (21.7%, 95% CI 17-27.0). Age, parity and previous abortion were significant predictors of post-abortion method choice by Chinese women (p<0.05). Following contraceptive counseling at the clinic, Chinese women chose more effective contraceptive methods for use post-abortion than they had used previously. As the population of migrant Chinese in New Zealand continues to increase, strategies are urgently needed to provide new arrivals with appropriate information and advice about contraception and where to access it, so women can be better prepared to avoid unplanned pregnancy.

Gene expression profile in mesenchymal stem cells derived from dental tissues and bone marrow

PubMed Central

Kim, Su-Hwan; Kim, Young-Sung; Lee, Su-Yeon; Kim, Kyoung-Hwa; Lee, Yong-Moo; Kim, Won-Kyung

2011-01-01

Purpose The aim of this study is to compare the gene expression profile in mesenchymal stem cells derived from dental tissues and bone marrow for characterization of dental stem cells. Methods We employed GeneChip analysis to the expression levels of approximately 32,321 kinds of transcripts in 5 samples of bone-marrow-derived mesenchymal stem cells (BMSCs) (n=1), periodontal ligament stem cells (PDLSCs) (n=2), and dental pulp stem cells (DPSCs) (n=2). Each cell was sorted by a FACS Vantage Sorter using immunocytochemical staining of the early mesenchymal stem cell surface marker STRO-1 before the microarray analysis. Results We identified 379 up-regulated and 133 down-regulated transcripts in BMSCs, 68 up-regulated and 64 down-regulated transcripts in PDLSCs, and 218 up-regulated and 231 down-regulated transcripts in DPSCs. In addition, anatomical structure development and anatomical structure morphogenesis gene ontology (GO) terms were over-represented in all three different mesenchymal stem cells and GO terms related to blood vessels, and neurons were over-represented only in DPSCs. Conclusions This study demonstrated the genome-wide gene expression patterns of STRO-1+ mesenchymal stem cells derived from dental tissues and bone marrow. The differences among the expression profiles of BMSCs, PDLSCs, and DPSCs were shown, and 999 candidate genes were found to be definitely up- or down-regulated. In addition, GOstat analyses of regulated gene products provided over-represented GO classes. These data provide a first step for discovering molecules key to the characteristics of dental stem cells. PMID:21954424

Genomics of Mature and Immature Olfactory Sensory Neurons

PubMed Central

Nickell, Melissa D.; Breheny, Patrick; Stromberg, Arnold J.; McClintock, Timothy S.

2014-01-01

The continuous replacement of neurons in the olfactory epithelium provides an advantageous model for investigating neuronal differentiation and maturation. By calculating the relative enrichment of every mRNA detected in samples of mature mouse olfactory sensory neurons (OSNs), immature OSNs, and the residual population of neighboring cell types, and then comparing these ratios against the known expression patterns of >300 genes, enrichment criteria that accurately predicted the OSN expression patterns of nearly all genes were determined. We identified 847 immature OSN-specific and 691 mature OSN-specific genes. The control of gene expression by chromatin modification and transcription factors, and neurite growth, protein transport, RNA processing, cholesterol biosynthesis, and apoptosis via death domain receptors, were overrepresented biological processes in immature OSNs. Ion transport (ion channels), presynaptic functions, and cilia-specific processes were overrepresented in mature OSNs. Processes overrepresented among the genes expressed by all OSNs were protein and ion transport, ER overload response, protein catabolism, and the electron transport chain. To more accurately represent gradations in mRNA abundance and identify all genes expressed in each cell type, classification methods were used to produce probabilities of expression in each cell type for every gene. These probabilities, which identified 9,300 genes expressed in OSNs, were 96% accurate at identifying genes expressed in OSNs and 86% accurate at discriminating genes specific to mature and immature OSNs. This OSN gene database not only predicts the genes responsible for the major biological processes active in OSNs, but also identifies thousands of never before studied genes that support OSN phenotypes. PMID:22252456

Overrepresentation of seat belt non-users in traffic crashes

DOT National Transportation Integrated Search

1988-04-01

This study used observations of driver belt use linked with driver history information to conclude that non-users of belts are overrepresented in traffic crashes. Examining average numbers of accidents and violations per observed belted and unbelted ...

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

PubMed

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

2016-10-01

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

N-Acetyltransferase 2 (NAT2) polymorphism as a risk modifier of susceptibility to pediatric acute lymphoblastic leukemia.

PubMed

Kamel, Azza M; Ebid, Gamal T A; Moussa, Heba S

2015-08-01

N-Acetyltransferases (NAT) have been known to modify the risk to a variety of solid tumors. However, the role of NAT2 polymorphism in risk susceptibility to childhood acute lymphoblastic leukemia (ALL) is still not well known. We performed a case-control study to determine if the common NAT2 polymorphisms play a role in altering susceptibility to pediatric ALL. DNA of 92 pediatric ALL patients and 312 healthy controls was analyzed for the NAT2 polymorphisms using the PCR-RFLP method. The wild-type NAT2*4 was encountered in 8.6 % of patients versus 11.8 % of controls (P = 0.23). The rapid acetylators NAT2*12 803A>G, AG, GG, and AG/GG were overrepresented in controls (P = 0.0001; odds ratio (OR) 0.22, 0.19, and 0.21 respectively). NAT2*5D 341T>C and NAT2*11A 481C>T were of comparable frequencies. For their combination, NAT2*5A, a slow acetylator, both TCTT and CCCT were overrepresented in patients (P < 0.001; OR 15.8 and 17.9 respectively). NAT2*5B (803A>G, 341T>C, 481C>T) was overrepresented in controls (P < 0.001; OR 0.12). Apparently, 803A>G ameliorated the combined effect of 341T>C and 481C>T. A similar effect was obtained with NAT2*5C (341T>A, 803A>G) (P < 0.0001; OR 0.11). For slow acetylator NAT2*7A 857G>A, GA and GA/AA were overrepresented in patients (P = 0.009 and 0.01; OR 2.74 and 2.72 respectively). NAT2*13 282C>T, NAT2*6B 590G>A, and NAT2*14A 191G>A were of comparable frequencies. NAT2 282C>A in combination with NAT2 857G>A (NAT2*7B) showed a synergistic effect in patients versus controls (P < 0.0001; OR 3.51). In conclusion, NAT2 gene polymorphism(s) with slow acetylator phenotype is generally associated with the risk of development of ALL in children.

CalA, a Cyanobacterial AbrB Protein, Interacts with the Upstream Region of hypC and Acts as a Repressor of Its Transcription in the Cyanobacterium Nostoc sp. Strain PCC 7120▿ †

PubMed Central

Agervald, Åsa; Zhang, Xiaohui; Stensjö, Karin; Devine, Ellenor; Lindblad, Peter

2010-01-01

The filamentous, heterocystous, nitrogen-fixing cyanobacterium Nostoc sp. strain PCC 7120 may contain, depending on growth conditions, up to two hydrogenases directly involved in hydrogen metabolism. HypC is one out of at least seven auxiliary gene products required for synthesis of a functional hydrogenase, specifically involved in the maturation of the large subunit. In this study we present a protein, CalA (Alr0946 in the genome), belonging to the transcription regulator family AbrB, which in protein-DNA assays was found to interact with the upstream region of hypC. Transcriptional investigations showed that calA is cotranscribed with the downstream gene alr0947, which encodes a putative protease from the abortive infection superfamily, Abi. CalA was shown to interact specifically not only with the upstream region of hypC but also with its own upstream region, acting as a repressor on hypC. The bidirectional hydrogenase activity was significantly downregulated when CalA was overexpressed, demonstrating a correlation with the transcription factor, either direct or indirect. In silico studies showed that homologues to both CalA and Alr0947 are highly conserved proteins within cyanobacteria with very similar physical organizations of the corresponding structural genes. Possible functions of the cotranscribed downstream protein Alr0947 are presented. In addition, we present a three-dimensional (3D) model of the DNA binding domain of CalA and putative DNA binding mechanisms are discussed. PMID:20023111

Fish community dynamics following dam removal in a fragmented agricultural stream

USGS Publications Warehouse

Kornis, Matthew; Weidel, Brian C.; Powers, Stephens; Diebel, Matthew W.; Cline, Timpthy; Fox, Justin; Kitchell, James F.

2014-01-01

Habitat fragmentation impedes dispersal of aquatic fauna, and barrier removal is increasingly used to increase stream network connectivity and facilitate fish dispersal. Improved understanding of fish community response to barrier removal is needed, especially in fragmented agricultural streams where numerous antiquated dams are likely destined for removal. We examined post-removal responses in two distinct fish communities formerly separated by a small aging mill dam. The dam was removed midway through the 6 year study, enabling passage for downstream fishes affiliated with a connected reservoir into previously inaccessible habitat, thus creating the potential for taxonomic homogenization between upstream and downstream communities. Both communities changed substantially post-removal. Two previously excluded species (white sucker, yellow perch) established substantial populations upstream of the former dam, contributing to a doubling of total fish biomass. Meanwhile, numerical density of pre-existing upstream fishes declined. Downstream, largemouth bass density was inversely correlated with prey fish density throughout the study, while post-removal declines in bluegill density coincided with cooler water temperature and increased suspended and benthic fine sediment. Upstream and downstream fish communities became more similar post-removal, represented by a shift in Bray-Curtis index from 14 to 41 % similarity. Our findings emphasize that barrier removal in highly fragmented stream networks can facilitate the unintended and possibly undesirable spread of species into headwater streams, including dispersal of species from remaining reservoirs. We suggest that knowledge of dispersal patterns for key piscivore and competitor species in both the target system and neighboring systems may help predict community outcomes following barrier removal.

Evaluating upstream passage and timing of approach by adult bigheaded carps at a gated dam on the Illinois River

USGS Publications Warehouse

Lubejko, Matthew; Whitledge, Greg; Coulter, Alison A.; Brey, Marybeth; Oliver, Devon; Garvey, James E.

2017-01-01

Dams are a conservation threat because they function as barriers to native fish movement; however, they may prevent the spread of invasive species. Invasive bigheaded carps (Hypophthalmichthys spp.) threaten the Great Lakes ecosystem and are advancing towards Lake Michigan via the Illinois River. Navigation dams on the Illinois River may deter bigheaded carps' upstream movement. We investigated the permeability of the Starved Rock Lock and Dam (SRLD), the most downstream gated Illinois River dam, to bigheaded carps' migration by examining the timing of individuals approaching and passing through SRLD in relation to gate openness, tailwater elevation, and water temperature. Using acoustic telemetry of (N = ~104 per year) tagged fish, 13 upstream passages of bigheaded carps occurred through SRLD between 2013 and 2016. Eleven passages occurred through the dam gates and 2 through the lock chamber, indicating deterrents (e.g., CO2) placed in SRLD lock chamber may only limit passage of a small proportion of all fish passing through the lock-and-dam structure. Passages were documented only in 2013 and 2015. Most of the dam gate passages occurred during high water when gates were completely out of the water. Timing of bigheaded carps approaching SRLD was positively correlated with rising water temperature and high tailwater elevation, and all fish approached during late March through mid-September. Movement through dams is rare; modifying gate operations to reduce gate openness during late spring and summer could further reduce the permeability of gated dams such as SRLD to bigheaded carps, slowing their upstream advance.

Drumming up Courage

ERIC Educational Resources Information Center

Faulkner, Simon

2012-01-01

The Holyoake DRUMBEAT (Discovering Relationships Using Music--Beliefs, Emotions, Attitudes, & Thoughts) program was first developed in 2003 as a means of engaging Australian Aboriginal youth who were resistant to talk-based therapeutic approaches. Aboriginal Australians, like indigenous peoples in many other countries, are over-represented in…

Divertor-localized fluctuations in NSTX-U L-mode discharges

NASA Astrophysics Data System (ADS)

Scotti, Filippo; Soukhanovskii, V. A.; Zweben, S.; Myra, J.; Baver, D.; Sabbagh, S. A.

2017-10-01

The 3-D structure of divertor turbulence is characterized in NSTX-U by means of fast camera imaging. Edge and divertor turbulence can be important in determining the heat flux width in fusion devices. Field-aligned filaments are found on the divertor legs via imaging of C III and D- α emission in NBI-heated diverted L-mode discharges, similar to observations in Alcator C-Mod and MAST. These flute-like fluctuations of up to 10-20% in RMS/mean are radially localized around the separatrix and limited to the region below the X-point. Poloidal and parallel correlation lengths are a few cm (10-50ρi) and several meters, respectively. For the outer leg filaments, poloidal correlation lengths decrease along the leg away from the strike point and typical effective toroidal mode numbers are in the range of 10-20. Opposite toroidal rotation is observed for inner (co-current rotation) and outer leg (counter-current rotation) filaments with apparent poloidal propagation of 1 km/s. The poloidal motion of outer leg filaments is opposite to the one typically observed for NSTX upstream blobs in the scrape-off layer. The shape, dynamics and absence of correlation with upstream turbulence suggest that these fluctuations are generated and localized in the divertor region. Supported by US DOE DE-AC52-07NA27344, DE-AC02-09CH11466, DE-FG02- 02ER54678, DE-FG02-99ER54524.

Modeled de facto reuse and contaminants of emerging concern in drinking water source waters

USGS Publications Warehouse

Nguyen, Thuy; Westerhoff, Paul; Furlong, Edward T.; Kolpin, Dana W.; Batt, Angela L.; Mash, Heath E.; Schenck, Kathleen M.; Boone, J. Scott; Rice, Jacelyn; Glassmeyer, Susan T.

2018-01-01

De facto reuse is the percentage of drinking water treatment plant (DWTP) intake potentially composed of effluent discharged from upstream wastewater treatment plants (WWTPs). Results from grab samples and a De Facto Reuse in our Nation's Consumable Supply (DRINCS) geospatial watershed model were used to quantify contaminants of emerging concern (CECs) concentrations at DWTP intakes to qualitatively compare exposure risks obtained by the two approaches. Between nine and 71 CECs were detected in grab samples. The number of upstream WWTP discharges ranged from 0 to >1,000; comparative de facto reuse results from DRINCS ranged from <0.1 to 13% during average flow and >80% during lower streamflows. Correlation between chemicals detected and DRINCS modeling results were observed, particularly DWTPs withdrawing from midsize water bodies. This comparison advances the utility of DRINCS to identify locations of DWTPs for future CEC sampling and treatment technology testing.

Detection of singly ionized energetic lunar pick-up ions upstream of earth's bow shock

NASA Technical Reports Server (NTRS)

Hilchenbach, M.; Hovestadt, D.; Klecker, B.; Moebius, E.

1992-01-01

Singly ionized suprathermal ions upstream of the earth's bow shock have been detected by using the time-of-flight spectrometer SULEICA on the AMPTE/IRM satellite. The data were collected between August and December 1985. The flux of the ions in the mass range between 23 and 37 amu is highly anisotropic towards the earth. The ions are observed with a period of about 29 days around new moon (+/- 3 days). The correlation of the energy of the ions with the solar wind speed and the interplanetary magnetic field orientation indicates the relation to the pick-up process. We conclude that the source of these pick-up ions is the moon. We argue that due to the impinging solar wind, atoms are sputtered off the lunar surface, ionized in the sputtering process or by ensuing photoionization and picked up by the solar wind.

Separated Flow over Wind Turbines

NASA Astrophysics Data System (ADS)

Brown, David; Lewalle, Jacques

2015-11-01

The motion of the separation point on an airfoil under unsteady flow can affect its performance and longevity. Of interest is to understand and control the performance decrease in wind turbines subject to turbulent flow. We examine flow separation on an airfoil at a 19 degree angle of attack under unsteady flow conditions. We are using a DU-96-W180 airfoil of chord length 242 mm. The unsteadiness is generated by a cylinder with diameter 203 mm located 7 diameters upstream of the airfoil's leading edge. The data comes from twenty surface pressure sensors located on the top and bottom of the airfoil as well as on the upstream cylinder. Methods of analysis include Mexican hat transforms, Morlet wavelet transforms, power spectra, and various cross correlations. With this study I will explore how the differences of signals on the pressure and suction sides of an airfoil are related to the motion of the separation point.

An experimental/computational study of sharp fin induced shock wave/turbulent boundary layer interactions at Mach 5 - Experimental results

NASA Technical Reports Server (NTRS)

Rodi, Patrick E.; Dolling, David S.

1992-01-01

A combined experimental/computational study has been performed of sharp fin induced shock wave/turbulent boundary layer interactions at Mach 5. The current paper focuses on the experiments and analysis of the results. The experimental data include mean surface heat transfer, mean surface pressure distributions and surface flow visualization for fin angles of attack of 6, 8, 10, 12, 14 and 16-degrees at Mach 5 under a moderately cooled wall condition. Comparisons between the results and correlations developed earlier show that Scuderi's correlation for the upstream influence angle (recast in a conical form) is superior to other such correlations in predicting the current results, that normal Mach number based correlations for peak pressure heat transfer are adequate and that the initial heat transfer peak can be predicted using pressure-interaction theory.

Cerebral Lateralization and Aggression.

ERIC Educational Resources Information Center

Hillbrand, Marc; And Others

1994-01-01

A resurgence of interest in the relationship between cerebral lateralization (the functional asymmetry of the cerebral cortex) and aggression has occurred. Most recent studies have found that individuals with abnormal patterns of lateralization are overrepresented among violent individuals. Intervening variables (such as drug and alcohol abuse)…

Sex Differences in Impulsivity: A Meta-Analysis

ERIC Educational Resources Information Center

Cross, Catharine P.; Copping, Lee T.; Campbell, Anne

2011-01-01

Men are overrepresented in socially problematic behaviors, such as aggression and criminal behavior, which have been linked to impulsivity. Our review of impulsivity is organized around the tripartite theoretical distinction between reward hypersensitivity, punishment hyposensitivity, and inadequate effortful control. Drawing on evolutionary,…

Comparison and correlation of Simple Sequence Repeats distribution in genomes of Brucella species

PubMed Central

Kiran, Jangampalli Adi Pradeep; Chakravarthi, Veeraraghavulu Praveen; Kumar, Yellapu Nanda; Rekha, Somesula Swapna; Kruti, Srinivasan Shanthi; Bhaskar, Matcha

2011-01-01

Computational genomics is one of the important tools to understand the distribution of closely related genomes including simple sequence repeats (SSRs) in an organism, which gives valuable information regarding genetic variations. The central objective of the present study was to screen the SSRs distributed in coding and non-coding regions among different human Brucella species which are involved in a range of pathological disorders. Computational analysis of the SSRs in the Brucella indicates few deviations from expected random models. Statistical analysis also reveals that tri-nucleotide SSRs are overrepresented and tetranucleotide SSRs underrepresented in Brucella genomes. From the data, it can be suggested that over expressed tri-nucleotide SSRs in genomic and coding regions might be responsible in the generation of functional variation of proteins expressed which in turn may lead to different pathogenicity, virulence determinants, stress response genes, transcription regulators and host adaptation proteins of Brucella genomes. Abbreviations SSRs - Simple Sequence Repeats, ORFs - Open Reading Frames. PMID:21738309

Genome sequencing and population genomic analyses provide insights into the adaptive landscape of silver birch.

PubMed

Salojärvi, Jarkko; Smolander, Olli-Pekka; Nieminen, Kaisa; Rajaraman, Sitaram; Safronov, Omid; Safdari, Pezhman; Lamminmäki, Airi; Immanen, Juha; Lan, Tianying; Tanskanen, Jaakko; Rastas, Pasi; Amiryousefi, Ali; Jayaprakash, Balamuralikrishna; Kammonen, Juhana I; Hagqvist, Risto; Eswaran, Gugan; Ahonen, Viivi Helena; Serra, Juan Alonso; Asiegbu, Fred O; de Dios Barajas-Lopez, Juan; Blande, Daniel; Blokhina, Olga; Blomster, Tiina; Broholm, Suvi; Brosché, Mikael; Cui, Fuqiang; Dardick, Chris; Ehonen, Sanna E; Elomaa, Paula; Escamez, Sacha; Fagerstedt, Kurt V; Fujii, Hiroaki; Gauthier, Adrien; Gollan, Peter J; Halimaa, Pauliina; Heino, Pekka I; Himanen, Kristiina; Hollender, Courtney; Kangasjärvi, Saijaliisa; Kauppinen, Leila; Kelleher, Colin T; Kontunen-Soppela, Sari; Koskinen, J Patrik; Kovalchuk, Andriy; Kärenlampi, Sirpa O; Kärkönen, Anna K; Lim, Kean-Jin; Leppälä, Johanna; Macpherson, Lee; Mikola, Juha; Mouhu, Katriina; Mähönen, Ari Pekka; Niinemets, Ülo; Oksanen, Elina; Overmyer, Kirk; Palva, E Tapio; Pazouki, Leila; Pennanen, Ville; Puhakainen, Tuula; Poczai, Péter; Possen, Boy J H M; Punkkinen, Matleena; Rahikainen, Moona M; Rousi, Matti; Ruonala, Raili; van der Schoot, Christiaan; Shapiguzov, Alexey; Sierla, Maija; Sipilä, Timo P; Sutela, Suvi; Teeri, Teemu H; Tervahauta, Arja I; Vaattovaara, Aleksia; Vahala, Jorma; Vetchinnikova, Lidia; Welling, Annikki; Wrzaczek, Michael; Xu, Enjun; Paulin, Lars G; Schulman, Alan H; Lascoux, Martin; Albert, Victor A; Auvinen, Petri; Helariutta, Ykä; Kangasjärvi, Jaakko

2017-06-01

Silver birch (Betula pendula) is a pioneer boreal tree that can be induced to flower within 1 year. Its rapid life cycle, small (440-Mb) genome, and advanced germplasm resources make birch an attractive model for forest biotechnology. We assembled and chromosomally anchored the nuclear genome of an inbred B. pendula individual. Gene duplicates from the paleohexaploid event were enriched for transcriptional regulation, whereas tandem duplicates were overrepresented by environmental responses. Population resequencing of 80 individuals showed effective population size crashes at major points of climatic upheaval. Selective sweeps were enriched among polyploid duplicates encoding key developmental and physiological triggering functions, suggesting that local adaptation has tuned the timing of and cross-talk between fundamental plant processes. Variation around the tightly-linked light response genes PHYC and FRS10 correlated with latitude and longitude and temperature, and with precipitation for PHYC. Similar associations characterized the growth-promoting cytokinin response regulator ARR1, and the wood development genes KAK and MED5A.

Eye Tracking Dysfunction in Schizophrenia: Characterization and Pathophysiology

PubMed Central

Sereno, Anne B.; Gooding, Diane C.; O’Driscoll, Gilllian A.

2011-01-01

Eye tracking dysfunction (ETD) is one of the most widely replicated behavioral deficits in schizophrenia and is over-represented in clinically unaffected first-degree relatives of schizophrenia patients. Here, we provide an overview of research relevant to the characterization and pathophysiology of this impairment. Deficits are most robust in the maintenance phase of pursuit, particularly during the tracking of predictable target movement. Impairments are also found in pursuit initiation and correlate with performance on tests of motion processing, implicating early sensory processing of motion signals. Taken together, the evidence suggests that ETD involves higher-order structures, including the frontal eye fields, which adjust the gain of the pursuit response to visual and anticipated target movement, as well as early parts of the pursuit pathway, including motion areas (the middle temporal area and the adjacent medial superior temporal area). Broader application of localizing behavioral paradigms in patient and family studies would be advantageous for refining the eye tracking phenotype for genetic studies. PMID:21312405

Ants at Plant Wounds: A Little-Known Trophic Interaction with Evolutionary Implications for Ant-Plant Interactions.

PubMed

Staab, Michael; Fornoff, Felix; Klein, Alexandra-Maria; Blüthgen, Nico

2017-09-01

Extrafloral nectaries (EFNs) allow plants to engage in mutualisms with ants, preventing herbivory in exchange for food. EFNs occur scattered throughout the plant phylogeny and likely evolved independent from herbivore-created wounds subsequently visited by ants collecting leaked sap. Records of wound-feeding ants are, however, anecdotal. By surveying 38,000 trees from 40 species, we conducted the first quantitative ecological study of this overlooked behavior. Ant-wound interactions were widespread (0.5% of tree individuals) and occurred on 23 tree species. Interaction networks were opportunistic, closely resembling ant-EFN networks. Fagaceae, a family lacking EFNs, was strongly overrepresented. For Fagaceae, ant occurrence at wounds correlated with species-level leaf damage, potentially indicating that wounds may attract mutualistic ants, which supports the hypothesis of ant-tended wounds as precursors of ant-EFN mutualisms. Given that herbivore wounds are common, wound sap as a steadily available food source might further help to explain the overwhelming abundance of ants in (sub)tropical forest canopies.

Spatiotemporal patterns and habitat associations of smallmouth bass (Micropterus dolomieu) invading salmon-rearing habitat

USGS Publications Warehouse

Lawrence, David J.; Olden, Julian D.; Torgersen, Christian E.

2012-01-01

1. Smallmouth bass (Micropterus dolomieu) have been widely introduced to fresh waters throughout the world to promote recreational fishing opportunities. In the Pacific Northwest (U.S.A.), upstream range expansions of predatory bass, especially into subyearling salmon-rearing grounds, are of increasing conservation concern, yet have received little scientific inquiry. Understanding the habitat characteristics that influence bass distribution and the timing and extent of bass and salmon overlap will facilitate the development of management strategies that mitigate potential ecological impacts of bass.2. We employed a spatially continuous sampling design to determine the extent of bass and subyearling Chinook salmon (Oncorhynchus tshawytscha) sympatry in the North Fork John Day River (NFJDR), a free-flowing river system in the Columbia River Basin that contains an upstream expanding population of non-native bass. Extensive (i.e. 53 km) surveys were conducted over 2 years and during an early and late summer period of each year, because these seasons provide a strong contrast in the river’s water temperature and flow condition. Classification and regression trees were applied to determine the primary habitat correlates of bass abundance at reach and channel-unit scales.3. Our study revealed that bass seasonally occupy up to 22% of the length of the mainstem NFJDR where subyearling Chinook salmon occur, and the primary period of sympatry between these species was in the early summer and not during peak water temperatures in late summer. Where these species co-occurred, bass occupied 60–76% of channel units used by subyearling Chinook salmon in the early summer and 28–46% of the channel units they occupied in the late summer. Because these rearing salmon were well below the gape limitation of bass, this overlap could result in either direct predation or sublethal effects of bass on subyearling Chinook salmon. The upstream extent of bass increased 10–23 km (2009 and 2010, respectively) as stream temperatures seasonally warmed, but subyearling Chinook salmon were also found farther upstream during this time.4. Our multiscale analysis suggests that bass were selecting habitat based on antecedent thermal history at a broad scale, and if satisfactory temperature conditions were met, mesoscale habitat features (i.e. channel-unit type and depth) played an additional role in determining bass abundance. The upstream extent of bass in the late summer corresponded to a high-gradient geomorphic discontinuity in the NFJDR, which probably hindered further upstream movements of bass. The habitat determinants and upstream extent of bass were largely consistent across years, despite marked differences in the magnitude and timing of spring peak flows prior to bass spawning.5. The overriding influence of water temperature on smallmouth bass distribution suggests that managers may be able limit future upstream range expansions of bass into salmon-rearing habitat by concentrating on restoration activities that mitigate climate- or land-use-related stream warming. These management activities could be prioritised to capitalise on survival bottlenecks in the life history of bass and spatially focused on landscape knick points such as high-gradient discontinuities to discourage further upstream movements of bass.

Biodiversity of antifungal lactic acid bacteria isolated from raw milk samples from cow, ewe and goat over one-year period.

PubMed

Delavenne, E; Mounier, J; Déniel, F; Barbier, G; Le Blay, G

2012-04-16

Antifungal lactic acid bacteria (ALAB) biodiversity was evaluated in raw milk from ewe, cow and goat over one year period. Lactic acid bacteria were enumerated using 8 semi-selective media, and systematically screened for their antifungal activity against 4 spoilage fungi commonly encountered in dairy products. Depending on the selective medium, between 0.05% (Elliker agar) and 5.5% (LAMVAB agar) screened colonies showed an antifungal activity. The great majority of these active colonies originated from cow (49%) and goat (43%) milks, whereas only 8% were isolated from ewe milk. Penicillium expansum was the most frequently inhibited fungus with 48.5% of colonies active against P. expansum among the 1235 isolated, followed by Mucor plumbeus with 30.6% of active colonies, Kluyveromyces lactis with only 12.1% of active colonies and Pichia anomala with 8.7% of active colonies. In the tested conditions, 94% of the sequenced active colonies belonged to Lactobacillus. Among them, targeted fungal species differed according to the Lactobacillus group, whose presence largely depended on year period and milk origin. The Lb. casei and Lb. reuteri groups, predominantly recovered in summer/fall, were overrepresented in the population targeting M. plumbeus, whereas isolates from the Lb. plantarum group, predominantly recovered in spring, were overrepresented in the population targeting K. lactis, the ones belonging to the Lb. buchneri group, predominantly recovered in spring, were overrepresented in the population targeting P. anomala. Raw milk, especially cow and goat milks from the summer/fall period appeared to be a productive reservoir for antifungal lactobacilli. Copyright © 2012 Elsevier B.V. All rights reserved.

Cofactors associated with Sudden Acquired Retinal Degeneration Syndrome: 151 dogs within a reference population.

PubMed

Auten, Candace R; Thomasy, Sara M; Kass, Philip H; Good, Kathryn L; Hollingsworth, Steven R; Maggs, David J

2018-05-01

To determine factors associated with sudden acquired retinal degeneration syndrome (SARDS) diagnosed within one referral population. 151 dogs diagnosed with SARDS. Breed, age, sex, and body weight were compared between dogs with electroretinogram-confirmed SARDS and dogs presented to the UC Davis Veterinary Medical Teaching Hospital (UCD-VMTH) from 1991 to 2014. SARDS was diagnosed in 151 dogs, representing 1.3% of dogs presented to the UCD-VMTH for ophthalmic disease. Although dogs of 36 breeds were affected, the Dachshund (n = 31, 21%), Schnauzer (16, 11%), Pug (11, 7%), and Brittany (5, 3%) were significantly overrepresented, and the Labrador Retriever (3, 2%) was significantly underrepresented vs. the reference population (P < 0.001). Median (range) age and body weight of affected vs. reference dogs were 8.9 (3-20) vs. 6.8 (0.1-26) years and 12.4 (2.8-52.7) vs. 22.3 (0.1-60) kg, respectively. Dogs 6-10 years of age and between 10-20 kg in body weight were significantly overrepresented in the SARDS population, while dogs <6 years of age were significantly underrepresented (P < 0.01). Spayed females (59% of affected dogs) were significantly overrepresented compared to the reference population, whereas intact females (1% of affected dogs) were significantly underrepresented. Consistent with previous studies, smaller, middle-aged, spayed female dogs may be at increased risk of developing SARDS. Unlike previous studies, this is the first study comparing a variety of SARDS-affected breeds to a reference population. Potentially increased risk of SARDS in several breeds, particularly Dachshunds, suggests a familial factor that warrants further investigation using genetic techniques. © 2017 American College of Veterinary Ophthalmologists.

Literature-based discovery of diabetes- and ROS-related targets

PubMed Central

2010-01-01

Background Reactive oxygen species (ROS) are known mediators of cellular damage in multiple diseases including diabetic complications. Despite its importance, no comprehensive database is currently available for the genes associated with ROS. Methods We present ROS- and diabetes-related targets (genes/proteins) collected from the biomedical literature through a text mining technology. A web-based literature mining tool, SciMiner, was applied to 1,154 biomedical papers indexed with diabetes and ROS by PubMed to identify relevant targets. Over-represented targets in the ROS-diabetes literature were obtained through comparisons against randomly selected literature. The expression levels of nine genes, selected from the top ranked ROS-diabetes set, were measured in the dorsal root ganglia (DRG) of diabetic and non-diabetic DBA/2J mice in order to evaluate the biological relevance of literature-derived targets in the pathogenesis of diabetic neuropathy. Results SciMiner identified 1,026 ROS- and diabetes-related targets from the 1,154 biomedical papers (http://jdrf.neurology.med.umich.edu/ROSDiabetes/). Fifty-three targets were significantly over-represented in the ROS-diabetes literature compared to randomly selected literature. These over-represented targets included well-known members of the oxidative stress response including catalase, the NADPH oxidase family, and the superoxide dismutase family of proteins. Eight of the nine selected genes exhibited significant differential expression between diabetic and non-diabetic mice. For six genes, the direction of expression change in diabetes paralleled enhanced oxidative stress in the DRG. Conclusions Literature mining compiled ROS-diabetes related targets from the biomedical literature and led us to evaluate the biological relevance of selected targets in the pathogenesis of diabetic neuropathy. PMID:20979611

Identification of quantitative trait loci affecting ectomycorrhizal symbiosis in an interspecific F1 poplar cross and differential expression of genes in ectomycorrhizas of the two parents: Populus deltoides and Populus trichocarpa

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

Labbe, Jessy L; Jorge, Veronique; Vion, Patrice

A Populus deltoides Populus trichocarpa F1 pedigree was analyzed for quantitative trait loci (QTLs) affecting ectomycorrhizal development and for microarray characterization of gene networks involved in this symbiosis. A 300 genotype progeny set was evaluated for its ability to form ectomycorrhiza with the basidiomycete Laccaria bicolor. The percentage of mycorrhizal root tips was determined on the root systems of all 300 progeny and their two parents. QTL analysis identified four significant QTLs, one on the P. deltoides and three on the P. trichocarpa genetic maps. These QTLs were aligned to the P. trichocarpa genome and each contained several megabases andmore » encompass numerous genes. NimbleGen whole-genome microarray, using cDNA from RNA extracts of ectomycorrhizal root tips from the parental genotypes P. trichocarpa and P. deltoides, was used to narrow the candidate gene list. Among the 1,543 differentially expressed genes (p value 0.05; 5.0-fold change in transcript level) having different transcript levels in mycorrhiza of the two parents, 41 transcripts were located in the QTL intervals: 20 in Myc_d1, 14 in Myc_t1, and seven in Myc_t2, while no significant differences among transcripts were found in Myc_t3. Among these 41 transcripts, 25 were overrepresented in P. deltoides relative to P. trichocarpa; 16 were overrepresented in P. trichocarpa. The transcript showing the highest overrepresentation in P. trichocarpa mycorrhiza libraries compared to P. deltoides mycorrhiza codes for an ethylene-sensitive EREBP-4 protein which may repress defense mechanisms in P. trichocarpa while the highest overrepresented transcripts in P. deltoides code for proteins/genes typically associated with pathogen resistance.« less

Nitrogen transporter and assimilation genes exhibit developmental stage-selective expression in maize (Zea mays L.) associated with distinct cis-acting promoter motifs.

PubMed

Liseron-Monfils, Christophe; Bi, Yong-Mei; Downs, Gregory S; Wu, Wenqing; Signorelli, Tara; Lu, Guangwen; Chen, Xi; Bondo, Eddie; Zhu, Tong; Lukens, Lewis N; Colasanti, Joseph; Rothstein, Steven J; Raizada, Manish N

2013-10-01

Nitrogen is considered the most limiting nutrient for maize (Zea mays L.), but there is limited understanding of the regulation of nitrogen-related genes during maize development. An Affymetrix 82K maize array was used to analyze the expression of ≤ 46 unique nitrogen uptake and assimilation probes in 50 maize tissues from seedling emergence to 31 d after pollination. Four nitrogen-related expression clusters were identified in roots and shoots corresponding to, or overlapping, juvenile, adult, and reproductive phases of development. Quantitative real time PCR data was consistent with the existence of these distinct expression clusters. Promoters corresponding to each cluster were screened for over-represented cis-acting elements. The 8-bp distal motif of the Arabidopsis 43-bp nitrogen response element (NRE) was over-represented in nitrogen-related maize gene promoters. This conserved motif, referred to here as NRE43-d8, was previously shown to be critical for nitrate-activated transcription of nitrate reductase (NIA1) and nitrite reductase (NIR1) by the NIN-LIKE PROTEIN 6 (NLP6) in Arabidopsis. Here, NRE43-d8 was over-represented in the promoters of maize nitrate and ammonium transporter genes, specifically those that showed peak expression during early-stage vegetative development. This result predicts an expansion of the NRE-NLP6 regulon and suggests that it may have a developmental component in maize. We also report leaf expression of putative orthologs of nitrite transporters (NiTR1), a transporter not previously reported in maize. We conclude by discussing how each of the four transcriptional modules may be responsible for the different nitrogen uptake and assimilation requirements of leaves and roots at different stages of maize development.

Both mechanism and age of duplications contribute to biased gene retention patterns in plants.

PubMed

Rody, Hugo V S; Baute, Gregory J; Rieseberg, Loren H; Oliveira, Luiz O

2017-01-06

All extant seed plants are successful paleopolyploids, whose genomes carry duplicate genes that have survived repeated episodes of diploidization. However, the survival of gene duplicates is biased with respect to gene function and mechanism of duplication. Transcription factors, in particular, are reported to be preferentially retained following whole-genome duplications (WGDs), but disproportionately lost when duplicated by tandem events. An explanation for this pattern is provided by the Gene Balance Hypothesis (GBH), which posits that duplicates of highly connected genes are retained following WGDs to maintain optimal stoichiometry among gene products; but such connected gene duplicates are disfavored following tandem duplications. We used genomic data from 25 taxonomically diverse plant species to investigate the roles of duplication mechanism, gene function, and age of duplication in the retention of duplicate genes. Enrichment analyses were conducted to identify Gene Ontology (GO) functional categories that were overrepresented in either WGD or tandem duplications, or across ranges of divergence times. Tandem paralogs were much younger, on average, than WGD paralogs and the most frequently overrepresented GO categories were not shared between tandem and WGD paralogs. Transcription factors were overrepresented among ancient paralogs regardless of mechanism of origin or presence of a WGD. Also, in many cases, there was no bias toward transcription factor retention following recent WGDs. Both the fixation and the retention of duplicated genes in plant genomes are context-dependent events. The strong bias toward ancient transcription factor duplicates can be reconciled with the GBH if selection for optimal stoichiometry among gene products is strongest following the earliest polyploidization events and becomes increasingly relaxed as gene families expand.

The Progeny of Arabidopsis thaliana Plants Exposed to Salt Exhibit Changes in DNA Methylation, Histone Modifications and Gene Expression

PubMed Central

Bilichak, Andriy; Ilnystkyy, Yaroslav; Hollunder, Jens; Kovalchuk, Igor

2012-01-01

Plants are able to acclimate to new growth conditions on a relatively short time-scale. Recently, we showed that the progeny of plants exposed to various abiotic stresses exhibited changes in genome stability, methylation patterns and stress tolerance. Here, we performed a more detailed analysis of methylation patterns in the progeny of Arabidopsis thaliana (Arabidopsis) plants exposed to 25 and 75 mM sodium chloride. We found that the majority of gene promoters exhibiting changes in methylation were hypermethylated, and this group was overrepresented by regulators of the chromatin structure. The analysis of DNA methylation at gene bodies showed that hypermethylation in the progeny of stressed plants was primarily due to changes in the 5′ and 3′ ends as well as in exons rather than introns. All but one hypermethylated gene tested had lower gene expression. The analysis of histone modifications in the promoters and coding sequences showed that hypermethylation and lower gene expression correlated with the enrichment of H3K9me2 and depletion of H3K9ac histones. Thus, our work demonstrated a high degree of correlation between changes in DNA methylation, histone modifications and gene expression in the progeny of salt-stressed plants. PMID:22291972

GOEAST: a web-based software toolkit for Gene Ontology enrichment analysis.

PubMed

Zheng, Qi; Wang, Xiu-Jie

2008-07-01

Gene Ontology (GO) analysis has become a commonly used approach for functional studies of large-scale genomic or transcriptomic data. Although there have been a lot of software with GO-related analysis functions, new tools are still needed to meet the requirements for data generated by newly developed technologies or for advanced analysis purpose. Here, we present a Gene Ontology Enrichment Analysis Software Toolkit (GOEAST), an easy-to-use web-based toolkit that identifies statistically overrepresented GO terms within given gene sets. Compared with available GO analysis tools, GOEAST has the following improved features: (i) GOEAST displays enriched GO terms in graphical format according to their relationships in the hierarchical tree of each GO category (biological process, molecular function and cellular component), therefore, provides better understanding of the correlations among enriched GO terms; (ii) GOEAST supports analysis for data from various sources (probe or probe set IDs of Affymetrix, Illumina, Agilent or customized microarrays, as well as different gene identifiers) and multiple species (about 60 prokaryote and eukaryote species); (iii) One unique feature of GOEAST is to allow cross comparison of the GO enrichment status of multiple experiments to identify functional correlations among them. GOEAST also provides rigorous statistical tests to enhance the reliability of analysis results. GOEAST is freely accessible at http://omicslab.genetics.ac.cn/GOEAST/

ESR1 Is Co-Expressed with Closely Adjacent Uncharacterised Genes Spanning a Breast Cancer Susceptibility Locus at 6q25.1

PubMed Central

Dunbier, Anita K.; Anderson, Helen; Ghazoui, Zara; Lopez-Knowles, Elena; Pancholi, Sunil; Ribas, Ricardo; Drury, Suzanne; Sidhu, Kally; Leary, Alexandra; Martin, Lesley-Ann; Dowsett, Mitch

2011-01-01

Approximately 80% of human breast carcinomas present as oestrogen receptor α-positive (ER+ve) disease, and ER status is a critical factor in treatment decision-making. Recently, single nucleotide polymorphisms (SNPs) in the region immediately upstream of the ER gene (ESR1) on 6q25.1 have been associated with breast cancer risk. Our investigation of factors associated with the level of expression of ESR1 in ER+ve tumours has revealed unexpected associations between genes in this region and ESR1 expression that are important to consider in studies of the genetic causes of breast cancer risk. RNA from tumour biopsies taken from 104 postmenopausal women before and after 2 weeks treatment with an aromatase (oestrogen synthase) inhibitor was analyzed on Illumina 48K microarrays. Multiple-testing corrected Spearman correlation revealed that three previously uncharacterized open reading frames (ORFs) located immediately upstream of ESR1, C6ORF96, C6ORF97, and C6ORF211 were highly correlated with ESR1 (Rs = 0.67, 0.64, and 0.55 respectively, FDR<1×10−7). Publicly available datasets confirmed this relationship in other groups of ER+ve tumours. DNA copy number changes did not account for the correlations. The correlations were maintained in cultured cells. An ERα antagonist did not affect the ORFs' expression or their correlation with ESR1, suggesting their transcriptional co-activation is not directly mediated by ERα. siRNA inhibition of C6ORF211 suppressed proliferation in MCF7 cells, and C6ORF211 positively correlated with a proliferation metagene in tumours. In contrast, C6ORF97 expression correlated negatively with the metagene and predicted for improved disease-free survival in a tamoxifen-treated published dataset, independently of ESR1. Our observations suggest that some of the biological effects previously attributed to ER could be mediated and/or modified by these co-expressed genes. The co-expression and function of these genes may be important influences on the recently identified relationship between SNPs in this region and breast cancer risk. PMID:21552322

Upregulation of endothelial nitric oxide synthase (eNOS) and its upstream regulators in Opisthorchis viverrini associated cholangiocarcinoma and its clinical significance.

PubMed

Suksawat, Manida; Techasen, Anchalee; Namwat, Nisana; Yongvanit, Puangrat; Khuntikeo, Narong; Titapun, Attapon; Koonmee, Supinda; Loilome, Watcharin

2017-08-01

Endothelial nitric oxide synthase (eNOS) is an isoform of the enzyme nitric oxide synthase (NOS) which is constitutively expressed in endothelial cells and plays important roles in vasodilation. We previously reported the importance of eNOS activation in cholangiocarcinoma (CCA) tissues and cell lines. The present study aims to investigate the relative abundance of eNOS and phosphorylated eNOS (P-eNOS) and their upstream regulators VEGFR3, VEGFC, EphA3 and ephrin-A1, in the Opisthorchis viverrini (Ov)/N-nitrosodimethylamine (NDMA)-induced hamster CCA model and in human CCA by semiquantitative immunohistochemical analysis of the relevant tissues. Results from the hamster model suggested an increase in eNOS and P-eNOS and upstream regulators during CCA genesis. In human CCA, high immunohistochemical staining intensity of all investigated proteins was associated with the presence of metastasis. A pairwise analysis of the staining data for eNOS and its upstream regulators showed that a concurrent increase in eNOS/VEGFR3, eNOS/ephrin-A1, eNOS/VEGFC and eNOS/EphA3 was significantly associated with metastasis. An increase in eNOS/VEGFR3, eNOS/ephrin-A1 was also associated with non-papillary type CCA. Additionally, an increase in eNOS and P-eNOS was significantly correlated with a high micro-vessel level (P=0.04). Our results indicate that the development of CCA involves upregulation of eNOS and P-eNOS and their regulators. This may drive angiogenesis and metastasis in CCA. Copyright © 2016 Elsevier Ireland Ltd. All rights reserved.

[Residue Concentration and Distribution Characteristics of Perfluorinated Compounds in Surface Water from Qiantang River in Hangzhou Section].

PubMed

Zhang, Ming; Tang, Fang-liang; Yu, Ya-yun; Xu, Jian-fen; Li, Hua; Wu, Min-hua; Zhang, Wei; Pan, Jian-yang

2015-12-01

This study studied the pollution characteristics of perfluorinated compounds (PFCs) in Qiantang River in Hangzhou section (QR). Surface water samples, collected in July 2014 and January 2015 from 14 sites in QR were analyzed for 16 PFCs. All samples were prepared by solid-phase extraction with Oasis WAX cartridges and analyzed using the ultra performance liquid chromatography interfaced to tandem mass spectrometry ( UPLC-MS/MS). The results showed that 8 medium-and short-chain PFCs including C₄ and C₈ perfluorinated sulfonates (PFSAs) and C₄-C₉ perfluorinated carboxylic acids (PFCAs) were detected in the surface waters. The total concentrations of PFCs ranged from 0.98 to 609 ng · L⁻¹, while perfluorooctanoic acid (PFOA) dominated, with range of 0.59-538 ng L⁻¹, and perfluorooctane sulfonate (PFOS) was detected at lower levels, ranging from 0 to 2.48 ng · L⁻¹. The spatial distribution of PFCs varied, and the pollutant concentrations at the sampling sites located in upstream of the river such as Lanjiangkou and Jiangjunyan were relatively high, PFCs concentration showed a decreasing trend from the upstream to the downstream. According to the ratio of feature components, PFCs in surface water of QR originated largely from the input of direct sewage emissions. Taken together, the PFCs pollution was highly correlated with the upstream of Qiantang River valley's industry distribution, and most of the mass load in the investigated river was attributed to upstream running water with a minor influence from the wastewater discharges along the river basin. Overall, the results presented here indicated that greater attention should be given to the contamination of PFCs, especially for PFOA in water body of QR.

Location Is Everything: Evaluating the Effects of Terrestrial and Marine Resource Subsidies on an Estuarine Bivalve

PubMed Central

Harding, Joel M. S.; Segal, Michelle R.; Reynolds, John D.

2015-01-01

Estuaries are amongst the world’s most productive ecosystems, lying at the intersection between terrestrial and marine environments. They receive substantial inputs from adjacent landscapes but the importance of resource subsidies is not well understood. Here, we test hypotheses for the effects of both terrestrial- and salmon-derived resource subsidies on the diet (inferred from stable isotopes of muscle tissue), size and percent nitrogen of the soft-shell clam (Mya arenaria), a sedentary estuarine consumer. We examine how these relationships shift across natural gradients among 14 estuaries that vary in upstream watershed size and salmon density on the central coast of British Columbia, Canada. We also test how assimilation and response to subsidies vary at smaller spatial scales within estuaries. The depletion and enrichment of stable isotope ratios in soft-shell clam muscle tissue correlated with increasing upstream watershed size and salmon density, respectively. The effects of terrestrial- and salmon-derived subsidies were also strongest at locations near stream outlets. When we controlled for age of individual clams, there were larger individuals with higher percent nitrogen content in estuaries below larger watersheds, though this effect was limited to the depositional zones below river mouths. Pink salmon exhibited a stronger effect on isotope ratios of clams than chum salmon, which could reflect increased habitat overlap as spawning pink salmon concentrate in lower stream reaches, closer to intertidal clam beds. However, there were smaller clams in estuaries that had higher upstream pink salmon densities, possibly due to differences in habitat requirements. Our study highlights the importance of upstream resource subsidies to this bivalve species, but that individual responses to subsidies can vary at smaller scales within estuaries. PMID:25993002

Meeting the Transition Needs of Incarcerated Youth with Disabilities

ERIC Educational Resources Information Center

Hogan, Kathleen A.; Bullock, Lyndal M.; Fritsch, Eric J.

2010-01-01

Research confirms that students with disabilities (e.g., emotional and behavioral disabilities, learning disabilities, and developmental delays) are overrepresented in correctional facilities across the United States. The literature suggests several reasons for the overrepresentation of students with disabilities in the correctional system: (a)…

An analysis of seatbelt use decision making among part-time users.

DOT National Transportation Integrated Search

2011-04-01

"Young people, in particular young males, are overrepresented in fatal crashes. In part, this elevated fatal crash rate results from the lack of seatbelt use among teen drivers and passengers. A recent review of more than 200 teen-targeted programs f...

The National Highway Traffic Safety Administration Traffic Safety Plan for Older Persons

DOT National Transportation Integrated Search

1993-03-01

This 1993 research serves as a follow-up to the National Highway Traffic Safety Administration plan in 1988 that indicates that older drivers are overrepresented in crashes at intersections and during certain hours of the day, that they are underrepr...

Breaking Barriers to Bike Share: Insights from Residents of Traditionally Underserved Neighborhoods

DOT National Transportation Integrated Search

2017-06-01

Evidence has shown that higher income and white populations are overrepresented in both access to and use of bike share. Efforts to overcome underserved communities barriers to access and use of bike share have been initiated in a number of cities...

Body size of young Australians aged five to 16 years.

PubMed

Hitchcock, N E; Maller, R A; Gilmour, A I

1986-10-20

In 1983-1984, 4578 Perth primary and secondary schoolchildren were studied. The selected sample was broadly representative of the ethnic groups that make up the Perth population and of the different social ranks within that population. The age, sex, weight, height, country of birth of the child and the parents, and occupation of the father were recorded for each subject. Weight, height and body mass index (BMI) increased with age. Age and sex were the most important determinants of body size. However, children of lower social rank and those with a southern European background were over-represented among the overweight children (greater than the 90th centile for BMI), particularly in adolescence. Children with an Asian background who were 11 years of age and younger were over-represented among the underweight children (less than or equal to the 10th centile for BMI). Results from this study indicate a continuing, though small (1.5 cm to 1.6 cm), secular increase in height over the past 13 to 14 years.

Using RSAT oligo-analysis and dyad-analysis tools to discover regulatory signals in nucleic sequences.

PubMed

Defrance, Matthieu; Janky, Rekin's; Sand, Olivier; van Helden, Jacques

2008-01-01

This protocol explains how to discover functional signals in genomic sequences by detecting over- or under-represented oligonucleotides (words) or spaced pairs thereof (dyads) with the Regulatory Sequence Analysis Tools (http://rsat.ulb.ac.be/rsat/). Two typical applications are presented: (i) predicting transcription factor-binding motifs in promoters of coregulated genes and (ii) discovering phylogenetic footprints in promoters of orthologous genes. The steps of this protocol include purging genomic sequences to discard redundant fragments, discovering over-represented patterns and assembling them to obtain degenerate motifs, scanning sequences and drawing feature maps. The main strength of the method is its statistical ground: the binomial significance provides an efficient control on the rate of false positives. In contrast with optimization-based pattern discovery algorithms, the method supports the detection of under- as well as over-represented motifs. Computation times vary from seconds (gene clusters) to minutes (whole genomes). The execution of the whole protocol should take approximately 1 h.

Methods of suicide used by children and adolescents.

PubMed

Hepp, Urs; Stulz, Niklaus; Unger-Köppel, Jürg; Ajdacic-Gross, Vladeta

2012-02-01

Although relatively rare, suicide is a leading cause of death in children and adolescents in the Western world. This study examined whether children and adolescents are drawn to other methods of suicide than adults. Swiss suicides from 1998 to 2007 were examined. The main methods of suicide were analysed with respect to age and gender. Of the 12,226 suicides which took place in this 10-year period, 333 were committed by children and adolescents (226 males, 107 females). The most prevalent methods of suicide in children and adolescents 0-19 years were hanging, jumping from heights and railway-suicides (both genders), intoxication (females) and firearms (males). Compared to adults, railway-suicides were over-represented in young males and females (both P < .001). Jumping from heights was over-represented in young males (P < .001). Thus, availability has an important effect on methods of suicide chosen by children and adolescents. Restricting access to most favoured methods of suicide might be an important strategy in suicide prevention.

Representation and redistribution in federations.

PubMed

Dragu, Tiberiu; Rodden, Jonathan

2011-05-24

Many of the world's most populous democracies are political unions composed of states or provinces that are unequally represented in the national legislature. Scattered empirical studies, most of them focusing on the United States, have discovered that overrepresented states appear to receive larger shares of the national budget. Although this relationship is typically attributed to bargaining advantages associated with greater legislative representation, an important threat to empirical identification stems from the fact that the representation scheme was chosen by the provinces. Thus, it is possible that representation and fiscal transfers are both determined by other characteristics of the provinces in a specific country. To obtain an improved estimate of the relationship between representation and redistribution, we collect and analyze provincial-level data from nine federations over several decades, taking advantage of the historical process through which federations formed and expanded. Controlling for a variety of country- and province-level factors and using a variety of estimation techniques, we show that overrepresented provinces in political unions around the world are rather dramatically favored in the distribution of resources.

oPOSSUM: integrated tools for analysis of regulatory motif over-representation

PubMed Central

Ho Sui, Shannan J.; Fulton, Debra L.; Arenillas, David J.; Kwon, Andrew T.; Wasserman, Wyeth W.

2007-01-01

The identification of over-represented transcription factor binding sites from sets of co-expressed genes provides insights into the mechanisms of regulation for diverse biological contexts. oPOSSUM, an internet-based system for such studies of regulation, has been improved and expanded in this new release. New features include a worm-specific version for investigating binding sites conserved between Caenorhabditis elegans and C. briggsae, as well as a yeast-specific version for the analysis of co-expressed sets of Saccharomyces cerevisiae genes. The human and mouse applications feature improvements in ortholog mapping, sequence alignments and the delineation of multiple alternative promoters. oPOSSUM2, introduced for the analysis of over-represented combinations of motifs in human and mouse genes, has been integrated with the original oPOSSUM system. Analysis using user-defined background gene sets is now supported. The transcription factor binding site models have been updated to include new profiles from the JASPAR database. oPOSSUM is available at http://www.cisreg.ca/oPOSSUM/ PMID:17576675

Microbial indicators in natural biofilms developed in the riverbed.

PubMed

Hirotani, Hiroshi; Yoshino, Miyuki

2010-01-01

Microbial indicators such as heterotrophic bacteria, total coliforms, and Escherichia coli in naturally developed riverbed biofilms were investigated. Pebbles covered with natural biofilm were sampled directly from the riverbed at sampling stations ranging from the upstream region within a quasi-national park to the midstream in the urban district. Heterotrophic bacteria densities in biofilm positively correlated with stream discharge. E. coli densities in biofilm positively correlated with temperature, which suggests the growth in the biofilm. It was considered that the attachment of planktonic bacteria to biofilm was negligible. The biofilm may serve as an internal source of false positive indication of fecal contamination in the water column.

The Black Self-Determination Experience

ERIC Educational Resources Information Center

Goff, Chauncey Demond

2010-01-01

For over four decades, America's educational system has overrepresented Black students in its special education programs. To little avail, and no avail if discussing a decrease in the disproportionate rates America identifies and refers the Black student for special education services, many authors have addressed the overrepresentation phenomenon.…

Serial Cohabitation and the Marital Life Course

ERIC Educational Resources Information Center

Lichter, Daniel T.; Qian, Zhenchao

2008-01-01

Using cohort data from the National Longitudinal Survey of Youth, this paper tracks the experiences of "serial cohabitors." Results indicate that only a minority of cohabiting women (about 15%-20%) were involved in multiple cohabitations. Serial cohabitations were overrepresented among economically disadvantaged groups, especially those with low…

Evaluating the Promise of Single-Track Year-Round Schools.

ERIC Educational Resources Information Center

Haenn, Joseph F.

1996-01-01

Describes two single-track year-round elementary schools in Durham, North Carolina, established in discrete attendance zones. Remediation and enrichment activities were provided during intersession. Low-SES students were overrepresented in remediation sessions. Student outcomes data (end-of-grade reading and math test scores) suggest that…

Anticipatory guidance provision related to driving safety/cessation for older drivers : a rural-urban comparison.

DOT National Transportation Integrated Search

2014-12-01

Older drivers are overrepresented in motor vehicle crash fatalities. As the U.S. population continues to : age, this problem will grow. Health care providers (HCPs) are in a position to provide their older patients : with education which may prevent ...

Which Disability Classifications Are Not Particularly Litigious under the IDEA?

ERIC Educational Resources Information Center

Zirkel, Perry A.

2011-01-01

A previous exploratory analysis revealed that students with autism were notably overrepresented in published court decisions concerning the IDEA's core concepts of "free appropriate public education" (FAPE) and "least restrictive environment" (LRE). More specifically, for the period 1993 to 2006, the proportion of this…

Protecting Black Girls

ERIC Educational Resources Information Center

Morris, Monique W.

2016-01-01

Statistics show that black girls in U.S. K-12 public schools are overrepresented among students who face disciplinary approaches (such as suspensions) that exclude or even criminalize them. Morris explains how black girls face conditions that make them vulnerable to a phenomenon she calls "school to confinement pathways"--conditions like…

Occurrence of polycyclic aromatic hydrocarbons below coal-tar-sealed parking lots and effects on stream benthic macroinvertebrate communities

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

Scoggins, M.; McClintock, N.L.; Gosselink, L.

2007-12-15

Parking-lot pavement sealants recently have been recognized as a major source of polycyclic aromatic hydrocarbons (PAHs) in urban stream sediments in Austin, Texas. Laboratory and field studies have shown that PAHs in sediments can be toxic to aquatic organisms and can degrade aquatic communities. After identifying increases in concentrations of PAHs in sediments below seal-coated parking lots, we investigated whether the increases had significant effects on stream biota in 5 Austin streams. We sampled sediment chemistry and biological communities above and below the point at which stormwater runoff from the parking lots discharged into the streams, thus providing 5 upstreammore » reference sites and 5 downstream treatment sites. Differences between upstream and downstream concentrations of total PAH ranged from 3.9 to 32 mg/kg. Analysis of the species occurrence data from pool and riffle habitats indicated a significant decrease in community health at the downstream sites, including decreases in richness, intolerant taxa, Diptera taxa, and density. In pool sediments, Chironomidae density was negatively correlated with PAH concentrations, whereas Oligochaeta density responded positively to PAH concentrations. In general, pool taxa responded more strongly than riffle taxa to PAHs, but riffle taxa responded more broadly than pool taxa. Increases in PAH sediment-toxicity units between upstream and downstream sites explained decreases in taxon richness and density in pools between upstream and downstream sites.« less

The Interaction of Turbulence with Parallel and Perpendicular Shocks: Theory and Observations at 1 au

NASA Astrophysics Data System (ADS)

Adhikari, L.; Zank, G. P.; Hunana, P.; Hu, Q.

2016-12-01

Shocks are thought to be responsible for the amplification of turbulence as well as for generating turbulence throughout the heliosphere. We study the interaction of turbulence with parallel and perpendicular shock waves using the six-coupled-equation turbulence transport model of Zank et al. We model a 1D stationary shock wave using a hyperbolic tangent function and the Rankine-Hugoniot conditions for both a reduced model with four coupled equations and the full model. Eight quasi-parallel and five quasi-perpendicular events in the WIND spacecraft data sets are identified, and we compute the fluctuating magnetic and kinetic energy, the energy in forward and backward propagating modes, the total turbulent energy, the normalized residual energy, and the normalized cross helicity upstream and downstream of the observed shocks. We compare the observed fitted values upstream and downstream of the shock with numerical solutions to our model equations. The comparison shows that our theoretical results are in reasonable agreement with observations for both quasi-parallel and perpendicular shocks. We find that (1) the total turbulent energy, the energy in forward and backward propagating modes, and the normalized residual energy increase across the shock, (2) the normalized cross helicity increases or decreases across the shock, and (3) the correlation length increases upstream and downstream of the shock, and slightly flattens or decreases across the shock.

THE INTERACTION OF TURBULENCE WITH PARALLEL AND PERPENDICULAR SHOCKS: THEORY AND OBSERVATIONS AT 1 au

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

Adhikari, L.; Zank, G. P.; Hunana, P.

Shocks are thought to be responsible for the amplification of turbulence as well as for generating turbulence throughout the heliosphere. We study the interaction of turbulence with parallel and perpendicular shock waves using the six-coupled-equation turbulence transport model of Zank et al. We model a 1D stationary shock wave using a hyperbolic tangent function and the Rankine–Hugoniot conditions for both a reduced model with four coupled equations and the full model. Eight quasi-parallel and five quasi-perpendicular events in the WIND spacecraft data sets are identified, and we compute the fluctuating magnetic and kinetic energy, the energy in forward and backwardmore » propagating modes, the total turbulent energy, the normalized residual energy, and the normalized cross helicity upstream and downstream of the observed shocks. We compare the observed fitted values upstream and downstream of the shock with numerical solutions to our model equations. The comparison shows that our theoretical results are in reasonable agreement with observations for both quasi-parallel and perpendicular shocks. We find that (1) the total turbulent energy, the energy in forward and backward propagating modes, and the normalized residual energy increase across the shock, (2) the normalized cross helicity increases or decreases across the shock, and (3) the correlation length increases upstream and downstream of the shock, and slightly flattens or decreases across the shock.« less

Occupational, Gender, and Geographic Representation of Information Sources in U.S. and Canadian Business Magazines.

ERIC Educational Resources Information Center

McShane, Steven L.

1995-01-01

Finds that business magazines rely heavily on senior executives as information sources; female sources are significantly underrepresented in most occupational groups; United States business magazines significantly overrepresent sources in the mid-Atlantic region while underrepresenting the Midwestern and Southwestern regions; and Canadian…

Improving Communication Outcomes for Young Offenders: A Proposed Response to Intervention Framework

ERIC Educational Resources Information Center

Snow, Pamela C.; Sanger, Dixie D.; Caire, Laura M.; Eadie, Patricia A.; Dinslage, Teagan

2015-01-01

Background: Speech, language and communication needs (SLCN) are strongly overrepresented in young offender populations, and there is growing commitment internationally to ensuring access to speech-language therapy services for such young people. However there is currently no framework in which such interventions might be conceptualized, delivered…

Disproportionate Minority Contact

ERIC Educational Resources Information Center

Piquero, Alex R.

2008-01-01

For many years, notes Alex Piquero, youth of color have been overrepresented at every stage of the U.S. juvenile justice system. As with racial disparities in a wide variety of social indicators, the causes of these disparities are not immediately apparent. Some analysts attribute the disparities to "differential involvement"--that is, to…

Black Juveniles in the Juvenile Justice System: A Cause for Alarm.

ERIC Educational Resources Information Center

LeFlore, Larry

This report examines the representation of black youth in the juvenile justice system, describes changes in juvenile justice philosophy, and discusses policy implications. Black youth are overrepresented at all stages of the juvenile justice system compared to white youth. Positivist theories explain this overrepresentation as the result of…

Psychiatry Trainees' Training and Experience in Fetal Alcohol Spectrum Disorders

ERIC Educational Resources Information Center

Eyal, Roy; O'Connor, Mary J.

2011-01-01

Background/Objective: Alcohol is a teratogen. Fetal alcohol spectrum disorders (FASDs) affect about 1% of live births, causing severe impairment. Individuals affected by FASDs are overrepresented in psychiatric settings. This study reports on the education and experience of psychiatry trainees in approaching FASDs. Method: Data were collected from…

Youth Homelessness 2006

ERIC Educational Resources Information Center

MacKenzie, David; Chamberlain, Chris

2008-01-01

The third national census of homeless school students, conducted in 2006, found that the number of homeless students had decreased since 2001. There were 9,389 homeless students in 2006 compared with 12,227 in 2001. Three groups were over-represented in the homeless population: Indigenous students, young people from single parent and blended…

Energetic-ion acceleration and transport in the upstream region of Jupiter: Voyager 1 and 2

NASA Technical Reports Server (NTRS)

Baker, D. N.; Zwickl, R. D.; Carbary, J. F.; Krimigis, S. M.; Lepping, R. P.

1982-01-01

Long-lived upstream energetic ion events at Jupiter appear to be very similar in nearly all respects to upstream ion events at Earth. A notable difference between the two planetary systems is the enhanced heavy ion compositional signature reported for the Jovian events. This compositional feature has suggested that ions escaping from the Jovian magnetosphere play an important role in forming upstream ion populations at Jupiter. In contrast, models of energetic upstream ions at Earth emphasize in situ acceleration of reflected solar wind ions within the upstream region itself. Using Voyager 1 and 2 energetic ( approximately 30 keV) ion measurements near the magnetopause, in the magnetosheath, and immediately upstream of the bow shock, the compositional patterns are examined together with typical energy spectra in each of these regions. A model involving upstream Fermi acceleration early in events and emphasizing energetic particle escape in the prenoon part of the Jovian magnetosphere late in events is presented to explain many of the features in the upstream region of Jupiter.

Integration of fluvial erosion factors for predicting landslides along meandering rivers

NASA Astrophysics Data System (ADS)

Chen, Yi-chin; Chang, Kang-tsung; Ho, Jui-yi

2015-04-01

River incision and lateral erosion are important geomorphologic processes in mountainous areas of Taiwan. During a typhoon or storm event, the increase of water discharge, flow velocity, and sediment discharge enhances the power of river erosion on channel bank. After the materials on toe of hillslope were removed by river erosion, landslides were triggered at outer meander bends. Although it has been long expected that river erosion can trigger landslide, studies quantifying the effects of river erosion on landslide and the application of river erosion index in landslide prediction are still overlooked. In this study, we investigated the effect of river erosion on landslide in a particular meanders landscape of the Jhoukou River, southern Taiwan. We developed a semi-automatic model to separate meandering lines into several reach segments based on the inflection points and to calculate river erosion indexes, e.g. sinuosity of meander, stream power, and stream order, for each reach segment. This model, then, built the spatial relationship between the reaches and its corresponding hillslopes, of which the toe was eroded by the reach. Based on the spatial relationship, we quantified the correlations between these indexes and landslides triggered by Typhoon Morakot in 2009 to examine the effects of river erosion on landslide. The correlated indexes were then used as landslide predictors in logistic regression model. Results of the study showed that there is no significant correlation between landslide density and meander sinuosity. This may be a result of wider channel dispersing the erosion at a meandering reach. On the other hand, landslide density at concave bank is significantly higher than that at convex bank in the downstream (stream order > 3), but that is almost the same in the upstream (stream order < 3). This may imply that river sediment play different roles between down- and upstream segments. River sediment in the upstream is an erosion agent vertically scouring the river bed, resulting in a symmetrical effect on both concave and convex bank. In contrast, river sediment in the downstream is an erosion agent eroding the concave bank laterally, but also depositing on the concave side and protecting the bank from erosion. Finally, the results also showed that the integration of fluvial erosion factors can improve the performance in predicting landsliding along meandering rivers.

PROSPECT improves cis-acting regulatory element prediction by integrating expression profile data with consensus pattern searches

PubMed Central

Fujibuchi, Wataru; Anderson, John S. J.; Landsman, David

2001-01-01

Consensus pattern and matrix-based searches designed to predict cis-acting transcriptional regulatory sequences have historically been subject to large numbers of false positives. We sought to decrease false positives by incorporating expression profile data into a consensus pattern-based search method. We have systematically analyzed the expression phenotypes of over 6000 yeast genes, across 121 expression profile experiments, and correlated them with the distribution of 14 known regulatory elements over sequences upstream of the genes. Our method is based on a metric we term probabilistic element assessment (PEA), which is a ranking of potential sites based on sequence similarity in the upstream regions of genes with similar expression phenotypes. For eight of the 14 known elements that we examined, our method had a much higher selectivity than a naïve consensus pattern search. Based on our analysis, we have developed a web-based tool called PROSPECT, which allows consensus pattern-based searching of gene clusters obtained from microarray data. PMID:11574681

Inlet Guide Vane Wakes Including Rotor Effects

NASA Astrophysics Data System (ADS)

Johnston, R. T.; Fleeter, S.

2001-02-01

Fundamental experiments are described directed at the investigation of forcing functions generated by an inlet guide vane (IGV) row, including interactions with the downstream rotor, for application to turbomachine forced response design systems. The experiments are performed in a high-speed research fan facility comprised of an IGV row upstream of a rotor. IGV-rotor axial spacing is variable, with the IGV row able to be indexed circumferentially, thereby allowing measurements to be made across several IGV wakes. With an IGV relative Mach number of 0.29, measurements include the IGV wake pressure and velocity fields for three IGV-rotor axial spacings. The decay characteristics of the IGV wakes are compared to the Majjigi and Gliebe empirical correlations. After Fourier decomposition, a vortical-potential gust splitting analysis is implemented to determine the vortical and potential harmonic wake gust forcing functions both upstream and downstream of the rotor. Higher harmonics of the vortical gust component of the IGV wakes are found to decay at a uniform rate due to viscous diffusion.

Subcritical and supercritical interplanetary shocks - Magnetic field and energetic particle observations

NASA Technical Reports Server (NTRS)

Bavassano-Cattaneo, M. B.; Tsurutani, B. T.; Smith, E. J.; Lin, R. P.

1986-01-01

A study of 34 forward interplanetary shocks observed by ISEE 3 during 1978 and 1979 has been conducted. Magnetic field and high-energy particle data have been used, and for each shock the first critical Mach number has been determined. The first surprising result is that the majority of the observed shocks appear to be supercritical, and consistent with their supercritical character, many shocks have a foot and/or an overshoot in the magnetic field structure. Large-amplitude low-frequency waves (period of about 20 s in the spacecraft frame) are commonly observed upstream of all supercritical shocks (except for a few quasi-perpendicular shocks) and also upstream of the few subcritical shocks. Intense particle events are frequently observed at many shocks: spikes at quasi-perpendicular shocks and energetic storm particle events associated with quasi-parallel shocks can be comparably intense. The correlation of the high-energy particle peak flux with various shock parameters is in agreement with the acceleration mechanisms proposed by previous studies.

Phosphorylation of basic helix-loop-helix transcription factor Twist in development and disease.

PubMed

Xue, Gongda; Hemmings, Brian A

2012-02-01

The transcription factor Twist plays vital roles during embryonic development through regulating/controlling cell migration. However, postnatally, in normal physiological settings, Twist is either not expressed or inactivated. Increasing evidence shows a strong correlation between Twist reactivation and both cancer progression and malignancy, where the transcriptional activities of Twist support cancer cells to disseminate from primary tumours and subsequently establish a secondary tumour growth in distant organs. However, it is largely unclear how this signalling programme is reactivated or what signalling pathways regulate its activity. The present review discusses recent advances in Twist regulation and activity, with a focus on phosphorylation-dependent Twist activity, potential upstream kinases and the contribution of these factors in transducing biological signals from upstream signalling complexes. The recent advances in these areas have shed new light on how phosphorylation-dependent regulation of the Twist proteins promotes or suppresses Twist activity, leading to differential regulation of Twist transcriptional targets and thereby influencing cell fate.

A study of the relationship between micropulsations and solar wind properties

NASA Technical Reports Server (NTRS)

Yedidia, B. A.; Lazarus, A. J.; Vellante, M.; Villante, U.

1991-01-01

A year-long comparison between daily averages of solar wind parameters obtained from the MIT experiment on IMP-8 and micropulsation measurements made by the Universita dell'Aquila has shown a correlation between solar wind speed and micropulsation power with peaks of the correlation coefficient greater than 0.8 in the period range from 20 to 40 s. Different behavior observed for different period bands suggests that the shorter period activity tends to precede the highest values of the solar wind speed while the longer period activity tends to persist for longer intervals within high velocity solar wind streams. A comparison with simultaneous interplanetary magnetic field measurements supports the upstream origin of the observed ground pulsations.

Epigenetic Loss of MLH1 Expression in Normal Human Hematopoietic Stem Cell Clones is Defined by the Promoter CpG Methylation Pattern Observed by High-Throughput Methylation Specific Sequencing

PubMed Central

Kenyon, Jonathan; Nickel-Meester, Gabrielle; Qing, Yulan; Santos-Guasch, Gabriela; Drake, Ellen; PingfuFu; Sun, Shuying; Bai, Xiaodong; Wald, David; Arts, Eric; Gerson, Stanton L.

2016-01-01

Normal human hematopoietic stem and progenitor cells (HPC) lose expression of MLH1, an important mismatch repair (MMR) pathway gene, with age. Loss of MMR leads to replication dependent mutational events and microsatellite instability observed in secondary acute myelogenous leukemia and other hematologic malignancies. Epigenetic CpG methylation upstream of the MLH1 promoter is a contributing factor to acquired loss of MLH1 expression in tumors of the epithelia and proximal mucosa. Using single molecule high-throughput bisulfite sequencing we have characterized the CpG methylation landscape from −938 to −337 bp upstream of the MLH1 transcriptional start site (position +0), from 30 hematopoietic colony forming cell clones (CFC) either expressing or not expressing MLH1. We identify a correlation between MLH1 promoter methylation and loss of MLH1 expression. Additionally, using the CpG site methylation frequencies obtained in this study we were able to generate a classification algorithm capable of sorting the expressing and non-expressing CFC. Thus, as has been previously described for many tumor cell types, we report for the first time a correlation between the loss of MLH1 expression and increased MLH1 promoter methylation in CFC derived from CD34+ selected hematopoietic stem and progenitor cells. PMID:27570841

Epigenetic Loss of MLH1 Expression in Normal Human Hematopoietic Stem Cell Clones is Defined by the Promoter CpG Methylation Pattern Observed by High-Throughput Methylation Specific Sequencing.

PubMed

Kenyon, Jonathan; Nickel-Meester, Gabrielle; Qing, Yulan; Santos-Guasch, Gabriela; Drake, Ellen; PingfuFu; Sun, Shuying; Bai, Xiaodong; Wald, David; Arts, Eric; Gerson, Stanton L

Normal human hematopoietic stem and progenitor cells (HPC) lose expression of MLH1 , an important mismatch repair (MMR) pathway gene, with age. Loss of MMR leads to replication dependent mutational events and microsatellite instability observed in secondary acute myelogenous leukemia and other hematologic malignancies. Epigenetic CpG methylation upstream of the MLH1 promoter is a contributing factor to acquired loss of MLH1 expression in tumors of the epithelia and proximal mucosa. Using single molecule high-throughput bisulfite sequencing we have characterized the CpG methylation landscape from -938 to -337 bp upstream of the MLH1 transcriptional start site (position +0), from 30 hematopoietic colony forming cell clones (CFC) either expressing or not expressing MLH1 . We identify a correlation between MLH1 promoter methylation and loss of MLH1 expression. Additionally, using the CpG site methylation frequencies obtained in this study we were able to generate a classification algorithm capable of sorting the expressing and non-expressing CFC. Thus, as has been previously described for many tumor cell types, we report for the first time a correlation between the loss of MLH1 expression and increased MLH1 promoter methylation in CFC derived from CD34 + selected hematopoietic stem and progenitor cells.

A gastric acid secretion model.

PubMed Central

de Beus, A M; Fabry, T L; Lacker, H M

1993-01-01

A theory of gastric acid production and self-protection is formulated mathematically and examined for clinical and experimental correlations, implications, and predictions using analytic and numerical techniques. In our model, gastric acid secretion in the stomach, as represented by an archetypal gastron, consists of two chambers, circulatory and luminal, connected by two different regions of ion exchange. The capillary circulation of the gastric mucosa is arranged in arterial-venous arcades which pass from the gastric glands up to the surface epithelial lining of the lumen; therefore the upstream region of the capillary chamber communicates with oxyntic cells, while the downstream region communicates with epithelial cells. Both cell types abut the gastric lumen. Ion currents across the upstream region are calculated from a steady-state oxyntic cell model with active ion transport, while the downstream ion fluxes are (facilitated) diffusion driven or secondarily active. Water transport is considered iso-osmotic. The steady-state model is solved in closed form for low gastric lumen pH. A wide variety of previously performed static and dynamic experiments on ion and CO2 transport in the gastric lumen and gastric blood supply are for the first time correlated with each other for an (at least) semiquantitative test of current concepts of gastric acid secretion and for the purpose of model verification. Agreement with the data is reported with a few outstanding and instructive exceptions. Model predictions and implications are also discussed. Images FIGURE 1 PMID:8396457

A Partial Least Squares Based Procedure for Upstream Sequence Classification in Prokaryotes.

PubMed

Mehmood, Tahir; Bohlin, Jon; Snipen, Lars

2015-01-01

The upstream region of coding genes is important for several reasons, for instance locating transcription factor, binding sites, and start site initiation in genomic DNA. Motivated by a recently conducted study, where multivariate approach was successfully applied to coding sequence modeling, we have introduced a partial least squares (PLS) based procedure for the classification of true upstream prokaryotic sequence from background upstream sequence. The upstream sequences of conserved coding genes over genomes were considered in analysis, where conserved coding genes were found by using pan-genomics concept for each considered prokaryotic species. PLS uses position specific scoring matrix (PSSM) to study the characteristics of upstream region. Results obtained by PLS based method were compared with Gini importance of random forest (RF) and support vector machine (SVM), which is much used method for sequence classification. The upstream sequence classification performance was evaluated by using cross validation, and suggested approach identifies prokaryotic upstream region significantly better to RF (p-value < 0.01) and SVM (p-value < 0.01). Further, the proposed method also produced results that concurred with known biological characteristics of the upstream region.

Glycosphingolipid storage in Fabry mice extends beyond globotriaosylceramide and is affected by ABCB1 depletion

PubMed Central

Kamani, Mustafa A; Provençal, Philippe; Boutin, Michel; Pacienza, Natalia; Fan, Xin; Novak, Anton; Huang, Tonny C; Binnington, Beth; Au, Bryan C; Auray-Blais, Christiane; Lingwood, Clifford A; Medin, Jeffrey A

2016-01-01

Aim: Fabry disease is caused by α-galactosidase A deficiency leading to accumulation of globotriaosylceramide (Gb3) in tissues. Clinical manifestations do not appear to correlate with total Gb3 levels. Studies examining tissue distribution of specific acyl chain species of Gb3 and upstream glycosphingolipids are lacking. Material & methods/Results: Thorough characterization of the Fabry mouse sphingolipid profile by LC-MS revealed unique Gb3 acyl chain storage profiles. Storage extended beyond Gb3; all Fabry tissues also accumulated monohexosylceramides. Depletion of ABCB1 had a complex effect on glycosphingolipid storage. Conclusion: These data provide insights into how specific sphingolipid species correlate with one another and how these correlations change in the α-galactosidase A-deficient state, potentially leading to the identification of more specific biomarkers of Fabry disease. PMID:28116130

The Jailing of America's Homeless: Evaluating the Rabble Management Thesis

ERIC Educational Resources Information Center

Fitzpatrick, Kevin M.; Myrstol, Brad

2011-01-01

The authors of this article test hypotheses derived from Irwin's rabble management thesis. The analysis uses data from 47,592 interviews conducted with jailed adults in 30 U.S. cities as part of the Arrestee Drug Abuse Monitoring program. Clearly, homeless persons are overrepresented among those arrested and booked into local jails. Bivariate…

Representation and Salary Gaps by Race-Ethnicity and Gender at Selective Public Universities

ERIC Educational Resources Information Center

Li, Diyi; Koedel, Cory

2017-01-01

We use data from 2015-2016 to document faculty representation and wage gaps by race-ethnicity and gender in six fields at selective public universities. Consistent with widely available information, Black, Hispanic, and female professors are underrepresented and White and Asian professors are overrepresented in our data. Disadvantaged minority and…

The Impact of CHAMPS on the Exclusionary Discipline Incidents of African-American Boys

ERIC Educational Resources Information Center

Russell-Smith, Saundra

2018-01-01

African-American boys who receive exclusionary discipline (i.e. in- or out-of-school suspensions) are overrepresented at the elementary (kindergarten through fifth grade) level. Although African-American boys comprised only 15% of the population of this school, they accounted for 70% of the exclusionary discipline incidents. This…

Taking Action on Racial Disproportionality in the Child Welfare System

ERIC Educational Resources Information Center

Clark, Patricia; Buchanan, Jackie; Legters, Lyman

2008-01-01

Mirroring national trends, children of color in Washington state's King County are overrepresented at every point in the child welfare system and fare worse by most measures than are Caucasian children. The King County Coalition on Racial Disproportionality was formed to reduce and ultimately eliminate racial disproportionality in the county's…

Fixing Systems, Not Kids: Changing the Narrative of Black Males in Guilford County Schools

ERIC Educational Resources Information Center

Brinkley, Barry; Hines, Eric; Jones, Akisha; McMillian, Effie G.; Sturdivant, Brooksie; Walker, Monica

2018-01-01

Considerable research on African American males (AAMs) in American schools over the past ten years shows that they are underrepresented in every positive measure of educational outcomes, and overrepresented in every negative measure. Many educators have developed low expectations, deficit thinking, and implicit biases toward AAMs and their…

Personality Characteristics and Professional Development of Adult Women.

ERIC Educational Resources Information Center

Yu, Miriam

The sample consisted of 109 women in traditionally male professions and 112 women in traditionally female professions with a mean age of 51.8. Subject selection was based on whether women were under-represented or over-represented in particular fields as stated in the 1960 U.S. census. The Sixteen Personality Factor Questionnaire, the Adjective…

The Development of the Bilingual Special Education Field: Major Issues, Accomplishments, Future Directions, and Recommendations

ERIC Educational Resources Information Center

Zhang, Chun; Choh, Su-Je

2010-01-01

In this paper, we review various challenges in regard to educating children with and without disabilities from culturally and linguistically diverse (CLD) backgrounds. The challenges discussed include (1) biased assessment that results in mis- or overrepresenting CLD students in special education, (2) difficulty distinguishing between disability…

Fetal Substance Exposure and Cumulative Environmental Risk in an African American Cohort

ERIC Educational Resources Information Center

Yumoto, Chie; Jacobson, Sandra W.; Jacobson, Joseph L.

2008-01-01

Two models of vulnerability to socioenvironmental risk were examined in 337 African American children (M = 7.8 years) recruited to overrepresent prenatal alcohol or cocaine exposure: The cumulative risk model predicted synergistic effects from exposure to multiple risk factors, and the fetal patterning of disease model predicted that prenatal…

Critical Factors in Mental Health Programming for Juveniles in Corrections Facilities

ERIC Educational Resources Information Center

Underwood, Lee A.; Phillips, Annie; von Dresner, Kara; Knight, Pamela D.

2006-01-01

Juveniles with mental health and other specialized needs are overrepresented in the juvenile justice system, and while juvenile corrections have not historically provided standardized and evidence-based mental health services for its incarcerated youth, the demand is evident. The reality is that juveniles with serious mental illness are committed…

Jobs for Women in Rural Industry and Services. Women in Development.

ERIC Educational Resources Information Center

Dixon, Ruth B.

Women's vulnerability to increased landlessness and other economic factors has created a need in most developing nations for year-round, rural, non-agricultural employment opportunities for women. Census data from 56 Third World countries reveal that women are generally underrepresented in the paid labor force and overrepresented in the…

An Empowerment Framework for Latinx Students in Developmental Education

ERIC Educational Resources Information Center

Doran, Erin E.

2017-01-01

While developmental education in community colleges has the potential to prepare students for college-level work, its effectiveness and need is often questioned. Further, while Latinx students are overrepresented in developmental courses, there is a dearth of literature on their experiences in such courses and how to effectively serve their needs…

Understanding the Influence of Model Minority Stereotypes on Asian American Community College Students

ERIC Educational Resources Information Center

Assalone, Amanda E.; Fann, Amy

2017-01-01

Contrary to the model minority myth that portrays Asian Americans as academic all-stars overrepresented in elite 4-year institutions, nearly half of all Asian American college students do, in fact, attend community colleges, and many experience myriad challenges. This exploratory study utilized a qualitative analysis and investigated how model…

Indigenous Young People in the Juvenile Justice System: 2010-11. Bulletin No. 109

ERIC Educational Resources Information Center

Morgan, Kirsten; Schlumpp, Arianne

2012-01-01

Aboriginal and Torres Strait Islander young people are substantially over-represented in the juvenile justice system in Australia, and this over-representation is highest in the most serious processes and outcomes--particularly in detention. This bulletin examines the numbers and characteristics of Indigenous young people in the juvenile justice…

Special Education Advocacy in the Juvenile Justice System: Perspectives from Probation Officers

ERIC Educational Resources Information Center

Burke, Meghan M.; Dalmage, Heather

2016-01-01

Although students with disabilities are over-represented in the juvenile justice system and frequently receive poor educational services, few studies have examined strategies to increase compliance with student needs and individualized education programs. In this study, we conducted interviews with eight probation officers in the Advocacy Unit of…

Are We Serious about Keeping Women in Science?

ERIC Educational Resources Information Center

White, Kate

2015-01-01

Women continue to be outnumbered by men in science leadership in most OECD countries. While they are over-represented as PhD students in some science disciplines, there are few senior women scientists. In 2014 women accounted for 63 per cent of applications for the Australian National Health and Medical Research Council's (NHMRC's) early-career…

Disproportionate Representation of Males in Special Education Services: Biology, Behavior, or Bias?

ERIC Educational Resources Information Center

Wehmeyer, Michael L.; Schwartz, Michelle

2001-01-01

To examine the possibility of gender bias in special education referral and admission, this study reviewed records of 695 students admitted to special education over 3 years. Findings support the hypothesis that males are not necessarily overrepresented in the special education population but, instead, females who could benefit from special…

Pre-Adoption Adversity, Maternal Stress, and Behavior Problems at School-Age in International Adoptees

ERIC Educational Resources Information Center

Gagnon-Oosterwaal, Noemi; Cossette, Louise; Smolla, Nicole; Pomerleau, Andree; Malcuit, Gerard; Chicoine, Jean-Francois; Belhumeur, Celine; Jeliu, Gloria; Begin, Jean; Seguin, Renee

2012-01-01

Internationally adopted children present more behavior problems than non-adopted children and are overrepresented in mental health services. These problems are related to children's pre-adoption environment, but adoptive families' functioning and characteristics may also affect the development of behavior problems in adopted children. The aim of…

Helping or Hindering? The Effects of Loans on Community College Student Persistence

ERIC Educational Resources Information Center

McKinney, Lyle; Burridge, Andrea Backscheider

2015-01-01

More community college students are taking out loans than ever before and their median debt levels are increasing. This trend is disconcerting because community college borrowers are overrepresented among loan defaulters and those who dropout without having earned a degree. While not without criticism, a growing number of community colleges are…

Parental Cognitive Impairment, Mental Health, and Child Outcomes in a Child Protection Population

ERIC Educational Resources Information Center

Feldman, Maurice; McConnell, David; Aunos, Marjorie

2012-01-01

Parents with cognitive impairments (CI) are overrepresented in child custody cases and their children are at risk for adverse outcomes. Ecological-transactional researchers propose that child outcomes are a function of the interaction of multiple distal, intermediate, and proximal risk and resilience factors. This study tested the fit of, and…

Hiring Processes in California of the PK-12 Superintendency

ERIC Educational Resources Information Center

Guthrie, Marcelline Marie

2013-01-01

In California women are underrepresented in the position of superintendent, yet are overrepresented in the field of education. The research questions for this study were (a) What are the processes used to hire superintendents? and (b) What are the processes when a woman is hired as superintendent? This research examined how organizational culture,…

Substance P at the Nexus of Mind and Body in Chronic Inflammation and Affective Disorders

ERIC Educational Resources Information Center

Rosenkranz, Melissa A.

2007-01-01

For decades, research has demonstrated that chronic diseases characterized by dysregulation of inflammation are particularly susceptible to exacerbation by stress and emotion. Likewise, rates of depression and anxiety are overrepresented in individuals suffering from chronic inflammatory disease. In recent years, substance P has been implicated in…

Comparative Analysis of Two Community-Based Efforts Designed to Impact Disproportionality

ERIC Educational Resources Information Center

Richardson, Brad

2008-01-01

Children of color are overrepresented in child welfare in Iowa at a rate double their percentage of the population. In 2005 the Iowa Department of Human Services implemented two pilot demonstration projects to address overrepresentation of Native American and African American children in the child welfare system. The projects, called the Minority…

Tic-Related School Problems: Impact on Functioning, Accommodations, and Interventions

ERIC Educational Resources Information Center

Packer, Leslie E.

2005-01-01

Children with Tourette's syndrome (TS) are statistically overrepresented in special education classes; however, the extent to which tics contribute to such placement is unclear. In this article, the results of a survey of parents or guardians of 71 children and adolescents with TS are described within the broader context of discussing the impact…

A Social Cognitive Examination of East Asian American Career Development: Contextual Factors Influencing Career Choice

ERIC Educational Resources Information Center

Liu, Jane

2012-01-01

Despite their educational and economic achievements in the United States, Asian Americans continue to be occupationally segregated in the labor force. Asian Americans are overrepresented in mathematics, engineering and biological sciences while underrepresented in field such as education, humanities, social and behavioral sciences (Bureau of Labor…

Improving Student Attainment in Community Colleges: Institutional Characteristics and Policies

ERIC Educational Resources Information Center

Bailey, Thomas; Alfonso, Mariana; Calcagno, Juan Carlos; Jenkins, Davis; Kienzl, Gregory; Leinbach, Tim

2004-01-01

Community colleges are a crucial point of access to higher education for low-income, minority, and other underserved students. These groups are overrepresented (with respect to their share of undergraduate enrollment) in two year and less than two year post secondary institutions. The community college access mission is built on low tuition, …

Diverse Literature in Elementary School Libraries: Who Chooses and Why?

ERIC Educational Resources Information Center

Bulatowicz, Donna Marie

2017-01-01

Published children's literature in the United States overrepresents some identities while underrepresenting others, such as people of color, LGBT people, people with disabilities, people who live below the poverty line (Crisp et al., 2016), and more. Thus, some children may not encounter text representative of their identities. As literature can…

Disproportionate Poverty, Conservatism, and the Disproportionate Identification of Minority Students with Emotional and Behavioral Disorders

ERIC Educational Resources Information Center

Wiley, Andrew L.; Brigham, Frederick J.; Kauffman, James M.; Bogan, Jane E.

2013-01-01

Previous investigations of disproportionate representation of students from certain ethnic groups in special education have suggested that disproportionality is the result of bias against the members of overrepresented groups or, conversely, the result of disproportionate exposure to poverty for these students. Strong evidence in favor of either…

Representation and redistribution in federations

PubMed Central

Dragu, Tiberiu; Rodden, Jonathan

2011-01-01

Many of the world's most populous democracies are political unions composed of states or provinces that are unequally represented in the national legislature. Scattered empirical studies, most of them focusing on the United States, have discovered that overrepresented states appear to receive larger shares of the national budget. Although this relationship is typically attributed to bargaining advantages associated with greater legislative representation, an important threat to empirical identification stems from the fact that the representation scheme was chosen by the provinces. Thus, it is possible that representation and fiscal transfers are both determined by other characteristics of the provinces in a specific country. To obtain an improved estimate of the relationship between representation and redistribution, we collect and analyze provincial-level data from nine federations over several decades, taking advantage of the historical process through which federations formed and expanded. Controlling for a variety of country- and province-level factors and using a variety of estimation techniques, we show that overrepresented provinces in political unions around the world are rather dramatically favored in the distribution of resources. PMID:21555553

The Views of the Public on Youth Offenders and the New Zealand Criminal Justice System.

PubMed

Barretto, Craig; Miers, Sarah; Lambie, Ian

2018-01-01

Public perceptions of crime and punishment have taken on increasing importance as countries grapple with how to address youth violence. The current study aimed to compare the views of those who have had personal experience of victimisation from youth offenders and those who have not, on what could be improved in managing youth offending in New Zealand. A qualitative methodology was used with data from open-ended survey responses from a nationally representative sample. Public sentiments favoured addressing systemic issues and providing rehabilitation as main emphases followed by more punitive measures, prevention, and restorative justice. Victims were over-represented on sentiments of prevention whereas non-victims were over-represented in support for more punitive measures and restorative justice. There was also considerable support for a multi-facetted approach that utilised a number of the approaches above, suggesting that the solution is as complex as the offender's circumstances. These findings are very much in line with the current goals of the youth justice system with its emphasis on diversion and rehabilitation.

Distinct taxonomic and functional composition of soil microbiomes along the gradient forest-restinga-mangrove in southeastern Brazil.

PubMed

Mendes, Lucas William; Tsai, Siu Mui

2018-01-01

Soil microorganisms play crucial roles in ecosystem functioning, and the central goal in microbial ecology studies is to elucidate which factors shape community structure. A better understanding of the relationship between microbial diversity, functions and environmental parameters would increase our ability to set conservation priorities. Here, the bacterial and archaeal community structure in Atlantic Forest, restinga and mangrove soils was described and compared based on shotgun metagenomics. We hypothesized that each distinct site would harbor a distinct taxonomic and functional soil community, which is influenced by environmental parameters. Our data showed that the microbiome is shaped by soil properties, with pH, base saturation, boron and iron content significantly correlated to overall community structure. When data of specific phyla were correlated to specific soil properties, we demonstrated that parameters such as boron, copper, sulfur, potassium and aluminum presented significant correlation with the most number of bacterial groups. Mangrove soil was the most distinct site and presented the highest taxonomic and functional diversity in comparison with forest and restinga soils. From the total 34 microbial phyla identified, 14 were overrepresented in mangrove soils, including several archaeal groups. Mangrove soils hosted a high abundance of sequences related to replication, survival and adaptation; forest soils included high numbers of sequences related to the metabolism of nutrients and other composts; while restinga soils included abundant genes related to the metabolism of carbohydrates. Overall, our finds show that the microbial community structure and functional potential were clearly different across the environmental gradient, followed by functional adaptation and both were related to the soil properties.

Immortalization of T-cells is accompanied by gradual changes in CpG methylation resulting in a profile resembling a subset of T-cell leukemias.

PubMed

Degerman, Sofie; Landfors, Mattias; Siwicki, Jan Konrad; Revie, John; Borssén, Magnus; Evelönn, Emma; Forestier, Erik; Chrzanowska, Krystyna H; Rydén, Patrik; Keith, W Nicol; Roos, Göran

2014-07-01

We have previously described gene expression changes during spontaneous immortalization of T-cells, thereby identifying cellular processes important for cell growth crisis escape and unlimited proliferation. Here, we analyze the same model to investigate the role of genome-wide methylation in the immortalization process at different time points pre-crisis and post-crisis using high-resolution arrays. We show that over time in culture there is an overall accumulation of methylation alterations, with preferential increased methylation close to transcription start sites (TSSs), islands, and shore regions. Methylation and gene expression alterations did not correlate for the majority of genes, but for the fraction that correlated, gain of methylation close to TSS was associated with decreased gene expression. Interestingly, the pattern of CpG site methylation observed in immortal T-cell cultures was similar to clinical T-cell acute lymphoblastic leukemia (T-ALL) samples classified as CpG island methylator phenotype positive. These sites were highly overrepresented by polycomb target genes and involved in developmental, cell adhesion, and cell signaling processes. The presence of non-random methylation events in in vitro immortalized T-cell cultures and diagnostic T-ALL samples indicates altered methylation of CpG sites with a possible role in malignant hematopoiesis. Copyright © 2014 Neoplasia Press, Inc. Published by Elsevier Inc. All rights reserved.

75 FR 68714 - Final Flood Elevation Determinations

Federal Register 2010, 2011, 2012, 2013, 2014

2010-11-09

... mile +683 Village of Mayfield. upstream of Rogers Road. Chagrin River Approximately 40 feet +786 Village of Moreland upstream of Woodland Hills. Road. Approximately 1,200 feet +789 upstream of Woodland... Miles Road. Countrymans Creek Upstream of I-71......... +721 Village of Lindale. Downstream of Bellaire...

Signal transduction molecules in gliomas of all grades.

PubMed

Ermoian, Ralph P; Kaprealian, Tania; Lamborn, Kathleen R; Yang, Xiaodong; Jelluma, Nannette; Arvold, Nils D; Zeidman, Ruth; Berger, Mitchel S; Stokoe, David; Haas-Kogan, Daphne A

2009-01-01

To interrogate grade II, III, and IV gliomas and characterize the critical effectors within the PI3-kinase pathway upstream and downstream of mTOR. Experimental design Tissues from 87 patients who were treated at UCSF between 1990 and 2004 were analyzed. Twenty-eight grade II, 17 grade III glioma, 26 grade IV gliomas, and 16 non-tumor brain specimens were analyzed. Protein levels were assessed by immunoblots; RNA levels were determined by polymerase chain reaction amplification. To address the multiple comparisons, first an overall analysis was done comparing the four groups using Spearman's Correlation Coefficient. Only if this analysis was statistically significant were individual pairwise comparisons done. Multiple comparison analyses revealed a significant correlation with grade for all variables examined, except phosphorylated-S6. Expression of phosphorylated-4E-BP1, phosphorylated-PKB/Akt, PTEN, TSC1, and TSC2 correlated with grade (P < 0.01 for all). We extended our analyses to ask whether decreases in TSC proteins levels were due to changes in mRNA levels, or due to changes in post-transcriptional alterations. We found significantly lower levels of TSC1 and TSC2 mRNA in GBMs than in grade II gliomas or non-tumor brain (P < 0.01). Expression levels of critical signaling molecules upstream and downstream of mTOR differ between non-tumor brain and gliomas of any grade. The single variable whose expression did not differ between non-tumor brain and gliomas was phosphorylated-S6, suggesting that other protein kinases, in addition to mTOR, contribute significantly to S6 phosphorylation. mTOR provides a rational therapeutic target in gliomas of all grades, and clinical benefit may emerge as mTOR inhibitors are combined with additional agents.

Turbulent Structure of a Simplified Urban Fluid Flow Studied Through Stereoscopic Particle Image Velocimetry

NASA Astrophysics Data System (ADS)

Monnier, Bruno; Goudarzi, Sepehr A.; Vinuesa, Ricardo; Wark, Candace

2018-02-01

Stereoscopic particle image velocimetry was used to provide a three-dimensional characterization of the flow around a simplified urban model defined by a 5 by 7 array of blocks, forming four parallel streets, perpendicular to the incoming wind direction corresponding to a zero angle of incidence. Channeling of the flow through the array under consideration was observed, and its effect increased as the incoming wind direction, or angle of incidence ( AOI), was changed from 0° to 15°, 30°, and 45°. The flow between blocks can be divided into two regions: a region of low turbulence kinetic energy (TKE) levels close to the leeward side of the upstream block, and a high TKE area close to the downstream block. The centre of the arch vortex is located in the low TKE area, and two regions of large streamwise velocity fluctuation bound the vortex in the spanwise direction. Moreover, a region of large spanwise velocity fluctuation on the downstream block is found between the vortex legs. Our results indicate that the reorientation of the arch vortex at increasing AOI is produced by the displacement of the different TKE regions and their interaction with the shear layers on the sides and top of the upstream and downstream blocks, respectively. There is also a close connection between the turbulent structure between the blocks and the wind gusts. The correlations among gust components were also studied, and it was found that in the near-wall region of the street the correlations between the streamwise and spanwise gusts R_{uv} were dominant for all four AOI cases. At higher wall-normal positions in the array, the R_{uw} correlation decreased with increasing AOI, whereas the R_{uv} coefficient increased as AOI increased, and at {it{AOI}}=45° all three correlations exhibited relatively high values of around 0.4.

Thinking Upstream: A 25-Year Retrospective and Conceptual Model Aimed at Reducing Health Inequities.

PubMed

Butterfield, Patricia G

Thinking upstream was first introduced into the nursing vernacular in 1990 with the goal of advancing broad and context-rich perspectives of health. Initially invoked as conceptual framing language, upstream precepts were subsequently adopted and adapted by a generation of thoughtful nursing scholars. Their work reduced health inequities by redirecting actions further up etiologic pathways and by emphasizing economic, political, and environmental health determinants. US health care reform has fostered a much broader adoption of upstream language in policy documents. This article includes a semantic exploration of thinking upstream and a new model, the Butterfield Upstream Model for Population Health (BUMP Health).

Enzootic origins for clinical manifestations of Lyme borreliosis.

PubMed

Jahfari, Setareh; Krawczyk, Aleksandra; Coipan, E Claudia; Fonville, Manoj; Hovius, Joppe W; Sprong, Hein; Takumi, Katsuhisa

2017-04-01

Both early localized and late disseminated forms of Lyme borreliosis are caused by Borrelia burgdorferi senso lato. Differentiating between the spirochetes that only cause localized skin infection from those that cause disseminated infection, and tracing the group of medically-important spirochetes to a specific vertebrate host species, are two critical issues in disease risk assessment and management. Borrelia burgdorferi senso lato isolates from Lyme borreliosis cases with distinct clinical manifestations (erythema migrans, neuroborreliosis, acrodermatitis chronica atrophicans, and Lyme arthritis) and isolates from Ixodes ricinus ticks feeding on rodents, birds and hedgehogs were typed to the genospecies level by sequencing part of the intergenic spacer region. In-depth molecular typing was performed by sequencing eight additional loci with different characteristics (plasmid-bound, regulatory, and housekeeping genes). The most abundant genospecies and genotypes in the clinical isolates were identified by using odds ratio as a measure of dominance. Borrelia afzelii was the most common genospecies in acrodermatitis patients and engorged ticks from rodents. Borrelia burgdorferi senso stricto was widespread in erythema migrans patients. Borrelia bavariensis was widespread in neuroborreliosis patients and in ticks from hedgehogs, but rare in erythema migrans patients. Borrelia garinii was the dominant genospecies in ticks feeding on birds. Spirochetes in ticks feeding on hedgehogs were overrepresented in genotypes of the plasmid gene ospC from spirochetes in erythema migrans patients. Spirochetes in ticks feeding on hedgehogs were overrepresented in genotypes of ospA from spirochetes in acrodermatitis patients. Spirochetes from ticks feeding on birds were overrepresented in genotypes of the plasmid and regulatory genes dbpA, rpoN and rpoS from spirochetes in neuroborreliosis patients. Overall, the analyses of our datasets support the existence of at least three transmission pathways from an enzootic cycle to a clinical manifestation of Lyme borreliosis. Based on the observations with these nine loci, it seems to be justified to consider the population structure of B. burgdorferi senso lato as being predominantly clonal. Copyright © 2017 Elsevier B.V. All rights reserved.

The Netherlands Cohort Study – Meat Investigation Cohort; a population-based cohort over-represented with vegetarians, pescetarians and low meat consumers

PubMed Central

2013-01-01

Background Vegetarian diets have been associated with lower risk of chronic disease, but little is known about the health effects of low meat diets and the reliability of self-reported vegetarian status. We aimed to establish an analytical cohort over-represented with vegetarians, pescetarians and 1 day/week meat consumers, and to describe their lifestyle and dietary characteristics. In addition, we were able to compare self-reported vegetarians with vegetarians whose status has been confirmed by their response on the extensive food frequency questionnaire (FFQ). Study methods Embedded within the Netherlands Cohort Study (n = 120,852; including 1150 self-reported vegetarians), the NLCS-Meat Investigation Cohort (NLCS-MIC) was defined by combining all FFQ-confirmed-vegetarians (n = 702), pescetarians (n = 394), and 1 day/week meat consumers (n = 1,396) from the total cohort with a random sample of 2–5 days/week- and 6–7 days/week meat consumers (n = 2,965 and 5,648, respectively). Results Vegetarians, pescetarians, and 1 day/week meat consumers had more favorable dietary intakes (e.g. higher fiber/vegetables) and lifestyle characteristics (e.g. lower smoking rates) compared to regular meat consumers in both sexes. Vegetarians adhered to their diet longer than pescetarians and 1 day/week meat consumers. 75% of vegetarians with a prevalent cancer at baseline had changed to this diet after diagnosis. 50% of self-reported vegetarians reported meat or fish consumption on the FFQ. Although the misclassification that occurred in terms of diet and lifestyle when merely relying on self-reporting was relatively small, the impact on associations with disease risk remains to be studied. Conclusion We established an analytical cohort over-represented with persons at the lower end of the meat consumption spectrum which should facilitate prospective studies of major cancers and causes of death using ≥20.3 years of follow-up. PMID:24289207

The Netherlands Cohort Study−Meat Investigation Cohort; a population-based cohort over-represented with vegetarians, pescetarians and low meat consumers.

PubMed

Gilsing, Anne M J; Weijenberg, Matty P; Goldbohm, R Alexandra; Dagnelie, Pieter C; van den Brandt, Piet A; Schouten, Leo J

2013-11-29

Vegetarian diets have been associated with lower risk of chronic disease, but little is known about the health effects of low meat diets and the reliability of self-reported vegetarian status. We aimed to establish an analytical cohort over-represented with vegetarians, pescetarians and 1 day/week meat consumers, and to describe their lifestyle and dietary characteristics. In addition, we were able to compare self-reported vegetarians with vegetarians whose status has been confirmed by their response on the extensive food frequency questionnaire (FFQ). Embedded within the Netherlands Cohort Study (n = 120,852; including 1150 self-reported vegetarians), the NLCS-Meat Investigation Cohort (NLCS-MIC) was defined by combining all FFQ-confirmed-vegetarians (n = 702), pescetarians (n = 394), and 1 day/week meat consumers (n = 1,396) from the total cohort with a random sample of 2-5 days/week- and 6-7 days/week meat consumers (n = 2,965 and 5,648, respectively). Vegetarians, pescetarians, and 1 day/week meat consumers had more favorable dietary intakes (e.g., higher fiber/vegetables) and lifestyle characteristics (e.g. lower smoking rates) compared to regular meat consumers in both sexes. Vegetarians adhered to their diet longer than pescetarians and 1 day/week meat consumers. 75% of vegetarians with a prevalent cancer at baseline had changed to this diet after diagnosis. 50% of self-reported vegetarians reported meat or fish consumption on the FFQ. Although the misclassification that occurred in terms of diet and lifestyle when merely relying on self-reporting was relatively small, the impact on associations with disease risk remains to be studied. We established an analytical cohort over-represented with persons at the lower end of the meat consumption spectrum which should facilitate prospective studies of major cancers and causes of death using ≥20.3 years of follow-up.

The Genome Sequence of the psychrophilic archaeon, Methanococcoides burtonii: the Role of Genome Evolution in Cold-adaptation

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

Allen, Michelle A.; Lauro, Federico M.; Williams, Timothy J.

2009-04-01

Psychrophilic archaea are abundant and perform critical roles throughout the Earth's expansive cold biosphere. Here we report the first complete genome sequence for a psychrophilic methanogenic archaeon, Methanococcoides burtonii. The genome sequence was manually annotated including the use of a five tiered Evidence Rating system that ranked annotations from Evidence Rating (ER) 1 (gene product experimentally characterized from the parent organism) to ER5 (hypothetical gene product) to provide a rapid means of assessing the certainty of gene function predictions. The genome is characterized by a higher level of aberrant sequence composition (51%) than any other archaeon. In comparison to hyper/thermophilicmore » archaea which are subject to selection of synonymous codon usage, M. burtonii has evolved cold adaptation through a genomic capacity to accommodate highly skewed amino acid content, while retaining codon usage in common with its mesophilic Methanosarcina cousins. Polysaccharide biosynthesis genes comprise at least 3.3% of protein coding genes in the genome, and Cell wall/membrane/envelope biogenesis COG genes are over-represented. Likewise, signal transduction (COG category T) genes are over-represented and M. burtonii has a high 'IQ' (a measure of adaptive potential) compared to many methanogens. Numerous genes in these two over-represented COG categories appear to have been acquired from {var_epsilon}- and {delta}-proteobacteria, as do specific genes involved in central metabolism such as a novel B form of aconitase. Transposases also distinguish M. burtonii from other archaea, and their genomic characteristics indicate they play an important role in evolving the M. burtonii genome. Our study reveals a capacity for this model psychrophile to evolve through genome plasticity (including nucleotide skew, horizontal gene transfer and transposase activity) that enables adaptation to the cold, and to the biological and physical changes that have occurred over the last several thousand years as it adapted from a marine, to an Antarctic lake environment.« less

The genome sequence of the psychrophilic archaeon, Methanococcoides burtonii: the role of genome evolution in cold adaptation

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

Allen, Michele A; Lauro, Federico M; Williams, Timothy J

2009-01-01

Psychrophilic archaea are abundant and perform critical roles throughout the Earth's expansive cold biosphere. Here we report the first complete genome sequence for a psychrophilic methanogenic archaeon, Methanococcoides burtonii. The genome sequence was manually annotated including the use of a five-tiered evidence rating (ER) system that ranked annotations from ER1 (gene product experimentally characterized from the parent organism) to ER5 (hypothetical gene product) to provide a rapid means of assessing the certainty of gene function predictions. The genome is characterized by a higher level of aberrant sequence composition (51%) than any other archaeon. In comparison to hyper/thermophilic archaea, which aremore » subject to selection of synonymous codon usage, M. burtonii has evolved cold adaptation through a genomic capacity to accommodate highly skewed amino-acid content, while retaining codon usage in common with its mesophilic Methanosarcina cousins. Polysaccharide biosynthesis genes comprise at least 3.3% of protein coding genes in the genome, and Cell wall, membrane, envelope biogenesis COG genes are overrepresented. Likewise, signal transduction (COG category T) genes are overrepresented and M. burtonii has a high 'IQ' (a measure of adaptive potential) compared to many methanogens. Numerous genes in these two overrepresented COG categories appear to have been acquired from - and -Proteobacteria, as do specific genes involved in central metabolism such as a novel B form of aconitase. Transposases also distinguish M. burtonii from other archaea, and their genomic characteristics indicate they have an important role in evolving the M. burtonii genome. Our study reveals a capacity for this model psychrophile to evolve through genome plasticity (including nucleotide skew, horizontal gene transfer and transposase activity) that enables adaptation to the cold, and to the biological and physical changes that have occurred over the last several thousand years as it adapted from a marine to an Antarctic lake environment.« less

Analysis of key thresholds leading to upstream dependencies in global transboundary water bodies

NASA Astrophysics Data System (ADS)

Munia, Hafsa Ahmed; Guillaume, Joseph; Kummu, Matti; Mirumachi, Naho; Wada, Yoshihide

2017-04-01

Transboundary water bodies supply 60% of global fresh water flow and are home to about 1/3 of the world's population; creating hydrological, social and economic interdependencies between countries. Trade-offs between water users are delimited by certain thresholds, that, when crossed, result in changes in system behavior, often related to undesirable impacts. A wide variety of thresholds are potentially related to water availability and scarcity. Scarcity can occur because of the country's own water use, and that is potentially intensified by upstream water use. In general, increased water scarcity escalates the reliance on shared water resources, which increases interdependencies between riparian states. In this paper the upstream dependencies of global transboundary river basins are examined at the scale of sub-basin areas. We aim to assess how upstream water withdrawals cause changes in the scarcity categories, such that crossing thresholds is interpreted in terms of downstream dependency on upstream water availability. The thresholds are defined for different types of water availability on which a sub-basin relies: - reliable local runoff (available even in a dry year), - less reliable local water (available in the wet year), - reliable dry year inflows from possible upstream area, and - less reliable wet year inflows from upstream. Possible upstream withdrawals reduce available water downstream, influencing the latter two water availabilities. Upstream dependencies have then been categorized by comparing a sub-basin's scarcity category across different water availability types. When population (or water consumption) grows, the sub-basin satisfies its needs using less reliable water. Thus, the factors affecting the type of water availability being used are different not only for each type of dependency category, but also possibly for every sub- basin. Our results show that, in the case of stress (impacts from high use of water), in 104 (12%) sub- basins out of 886 sub-basins are dependent on upstream water, while in the case of shortage (impacts from insufficient water availability per person), 79 (9%) sub-basins out of 886 sub-basins dependent on upstream water. Categorization of the upstream dependency of the sub-basins helps to differentiate between areas where i) there is currently no dependency on upstream water, ii) upstream water withdrawals are sufficiently high that they alter the scarcity and dependency status, and iii) which are always dependent on upstream water regardless of upstream water withdrawals. Our dependency assessment is expected to considerably support the studies and discussions of hydro-political power relations and management practices in transboundary basins.

Mitomycin C-induced pairing of heterochromatin reflects initiation of DNA repair and chromatid exchange formation.

PubMed

Abdel-Halim, H I; Natarajan, A T; Mullenders, L H F; Boei, J J W A

2005-04-15

Chromatid interchanges induced by the DNA cross-linking agent mitomycin C (MMC) are over-represented in human chromosomes containing large heterochromatic regions. We found that nearly all exchange breakpoints of chromosome 9 are located within the paracentromeric heterochromatin and over 70% of exchanges involving chromosome 9 are between its homologues. We provide evidence that the required pairing of chromosome 9 heterochromatic regions occurs in G(0)/G(1) and S-phase cells as a result of an active cellular process initiated upon MMC treatment. By contrast, no pairing was observed for a euchromatic paracentromeric region of the equal-sized chromosome 8. The MMC-induced pairing of chromosome 9 heterochromatin is observed in a subset of cells; its percentage closely mimics the frequency of homologous interchanges found at metaphase. Moreover, the absence of pairing in cells derived from XPF patients correlates with an altered spectrum of MMC-induced exchanges. Together, the data suggest that the heterochromatin-specific pairing following MMC treatment reflects the initiation of DNA cross-link repair and the formation of exchanges.

Method and apparatus for measuring flow velocity using matched filters

DOEpatents

Raptis, Apostolos C.

1983-01-01

An apparatus and method for measuring the flow velocities of individual phase flow components of a multiphase flow utilizes matched filters. Signals arising from flow noise disturbance are extracted from the flow, at upstream and downstream locations. The signals are processed through pairs of matched filters which are matched to the flow disturbance frequency characteristics of the phase flow component to be measured. The processed signals are then cross-correlated to determine the transit delay time of the phase flow component between sensing positions.

Laser transit anemometer measurements of a JANNAF nozzle base velocity flow field

NASA Technical Reports Server (NTRS)

Hunter, William W., Jr.; Russ, C. E., Jr.; Clemmons, J. I., Jr.

1990-01-01

Velocity flow fields of a nozzle jet exhausting into a supersonic flow were surveyed. The measurements were obtained with a laser transit anemometer (LTA) system in the time domain with a correlation instrument. The LTA data is transformed into the velocity domain to remove the error that occurs when the data is analyzed in the time domain. The final data is shown in velocity vector plots for positions upstream, downstream, and in the exhaust plane of the jet nozzle.

Application of a Depositional Facies Model to an Acid Mine Drainage Site▿ †

PubMed Central

Brown, Juliana F.; Jones, Daniel S.; Mills, Daniel B.; Macalady, Jennifer L.; Burgos, William D.

2011-01-01

Lower Red Eyes is an acid mine drainage site in Pennsylvania where low-pH Fe(II) oxidation has created a large, terraced iron mound downstream of an anoxic, acidic, metal-rich spring. Aqueous chemistry, mineral precipitates, microbial communities, and laboratory-based Fe(II) oxidation rates for this site were analyzed in the context of a depositional facies model. Depositional facies were defined as pools, terraces, or microterracettes based on cm-scale sediment morphology, irrespective of the distance downstream from the spring. The sediments were composed entirely of Fe precipitates and cemented organic matter. The Fe precipitates were identified as schwertmannite at all locations, regardless of facies. Microbial composition was studied with fluorescence in situ hybridization (FISH) and transitioned from a microaerophilic, Euglena-dominated community at the spring, to a Betaproteobacteria (primarily Ferrovum spp.)-dominated community at the upstream end of the iron mound, to a Gammaproteobacteria (primarily Acidithiobacillus)-dominated community at the downstream end of the iron mound. Microbial community structure was more strongly correlated with pH and geochemical conditions than depositional facies. Intact pieces of terrace and pool sediments from upstream and downstream locations were used in flowthrough laboratory reactors to measure the rate and extent of low-pH Fe(II) oxidation. No change in Fe(II) concentration was observed with 60Co-irradiated sediments or with no-sediment controls, indicating that abiotic Fe(II) oxidation was negligible. Upstream sediments attained lower effluent Fe(II) concentrations compared to downstream sediments, regardless of depositional facies. PMID:21097582

Connections between meteorological and hydrological droughts in a semi-arid basin of the middle Yellow River

NASA Astrophysics Data System (ADS)

Li, Binquan; Zhu, Changchang; Liang, Zhongmin; Wang, Guoqing; Zhang, Yu

2018-06-01

Differences between meteorological and hydrological droughts could reflect the regional water consumption by both natural elements and human water-use. The connections between these two drought types were analyzed using the Standardized Precipitation Evapotranspiration Index (SPEI) and Standardized Streamflow Index (SSI), respectively. In a typical semi-arid basin of the middle Yellow River (Qingjianhe River basin), annual precipitation and air temperature showed significantly downward and upward trends, respectively, with the rates of -2.37 mm yr-1 and 0.03 °C yr-1 (1961-2007). Under their synthetic effects, water balance variable (represented by SPEI) showed obviously downward (drying) trend at both upstream and whole basin areas. For the spatial variability of precipitation, air temperature and the calculated SPEI, both upstream and downstream areas experienced very similar change characteristics. Results also suggested that the Qingjianhe River basin experienced near normal condition during the study period. As a whole, this semi-arid basin mainly had the meteorological drought episodes in the mid-1960s, late-1990s and the 2000s depicted by 12-month SPEI. The drying trend could also be depicted by the hydrological drought index (12-month SSI) at both upstream and downstream stations (Zichang and Yanchuan), but the decreasing trends were not significant. A correlation analysis showed that hydrological system responds rapidly to the change of meteorological conditions in this semi-arid region. This finding could be an useful implication to drought research for those semi-arid basins with intensive human activities.

Two novel translocation breakpoints upstream of SOX9 define borders of the proximal and distal breakpoint cluster region in campomelic dysplasia.

PubMed

Leipoldt, M; Erdel, M; Bien-Willner, G A; Smyk, M; Theurl, M; Yatsenko, S A; Lupski, J R; Lane, A H; Shanske, A L; Stankiewicz, P; Scherer, G

2007-01-01

The semilethal skeletal malformation syndrome campomelic dysplasia (CD) with or without XY sex reversal is caused by mutations within the SOX9 gene on 17q24.3 or by chromosomal aberrations (translocations, inversions or deletions) with breakpoints outside the SOX9 coding region. The previously published CD translocation breakpoints upstream of SOX9 fall into two clusters: a proximal cluster with breakpoints between 50-300 kb and a distal cluster with breakpoints between 899-932 kb. Here, we present clinical, cytogenetic and molecular data from two novel CD translocation cases. Case 1 with karyotype 46,XY,t(1;17)(q42.1;q24.3) has characteristic symptoms of CD, including mild tibial bowing, cryptorchidism and hypospadias. By standard fluorescence in situ hybridization (FISH) and by high-resolution fiber FISH, the 17q breakpoint was mapped 375 kb from SOX9, defining the centromeric border of the proximal breakpoint cluster region. Case 2 with karyotype 46,X,t(Y;17)(q11.2;q24.3) has the acampomelic form of CD and complete XY sex reversal. By FISH and somatic cell hybrid analysis, the 17q breakpoint was mapped 789 kb from SOX9, defining the telomeric border of the distal breakpoint cluster region. We discuss the structure of the 1 Mb cis-control region upstream of SOX9 and the correlation between the position of the 14 mapped translocation breakpoints with respect to disease severity and XY sex reversal.

Sediment transport and water-quality characteristics and loads, White River, northwestern Colorado, water years 1975-88

USGS Publications Warehouse

Tobin, R.L.

1993-01-01

Streamflow, sediment, and water-quality data are summarized for 6 sites on the White River, Colorado for water years 1975-88. Correlation techniques were used to estimate annual data for unmeasured years. Annual stream discharge in the main stem of the White River ranged from about 200,000 to about 1 million acre-feet. Generally, bedload was less than/= 3.3 percent of total sediment load. Annual suspended-sediment loads ranged from about 2,100 tons at the upstream sites on the North Fork and South Fork of the White River to about 2 million tons at the most downstream site. Average annual suspended-sediment loads ranged from about 11,000 tons at the upstream sites to about 705,000 tons at the most downstream site. Annual capacity losses in a 50,000 acre-ft reservoir could range from less than 0.01 percent near upstream sites to about 2.5 percent near downstream sites. Maximum water temperatures in the White River ranged from less than 20 to 25 C in summer. Specific conductance ranged from 200 to 1,000 microsiemens/cm. Generally, values of pH ranged from 7.6 to 8.8, and concentrations of dissolved oxygen were greater than 6.0 mg/L. In small streamflows, values of pH and dissolved oxygen were affected by biologic processes. Composition of dissolved solids in the White River was mostly calcium, bicarbonate, and(or) sulfate. Changes in the composition of dissolved solids caused by the changes in the concentrations of sodium and sulfate were greatest in small stream discharges. Annual loads of dissolved solids ranged from 21,100 tons in the South Fork to about 480,000 tons at the most downstream site. Total solids transport in the White River was mostly as dissolved solids at upstream sites and mostly as suspended sediment at downstream sites. Concentration ranges of nutrients and trace constituents were determined.

Synergistic and singular effects of river discharge and lunar illumination on dam passage of upstream migrant yellow-phase American eels

USGS Publications Warehouse

Welsh, Stuart A.; Aldinger, Joni L.; Braham, Melissa A.; Zimmerman, Jennifer L.

2016-01-01

Monitoring of dam passage can be useful for management and conservation assessments of American eel, particularly if passage counts can be examined over multiple years. During a 7-year study (2007–2013) of upstream migration of American eels within the lower Shenandoah River (Potomac River drainage), we counted and measured American eels at the Millville Dam eel pass, where annual study periods were determined by the timing of the eel pass installation during spring or summer and removal during fall. Daily American eel counts were analysed with negative binomial regression models, with and without a year (YR) effect, and with the following time-varying environmental covariates: river discharge of the Shenandoah River at Millville (RDM) and of the Potomac River at Point of Rocks, lunar illumination (LI), water temperature, and cloud cover. A total of 17 161 yellow-phase American eels used the pass during the seven annual periods, and length measurements were obtained from 9213 individuals (mean = 294 mm TL, s.e. = 0.49, range 183–594 mm). Data on passage counts of American eels supported an additive-effects model (YR + LI + RDM) where parameter estimates were positive for river discharge (β = 7.3, s.e. = 0.01) and negative for LI (β = −1.9, s.e. = 0.34). Interestingly, RDM and LI acted synergistically and singularly as correlates of upstream migration of American eels, but the highest daily counts and multiple-day passage events were associated with increased RDM. Annual installation of the eel pass during late spring or summer prevented an early spring assessment, a period with higher RDM relative to those values obtained during sampling periods. Because increases in river discharge are climatically controlled events, upstream migration events of American eels within the Potomac River drainage are likely linked to the influence of climate variability on flow regime.

The Bullying Dynamic: Prevalence of Involvement among a Large-Scale Sample of Middle and High School Youth with and without Disabilities

ERIC Educational Resources Information Center

Rose, Chad A.; Simpson, Cynthia G.; Moss, Aaron

2015-01-01

Bullying has been the topic of much debate and empirical investigations over the past decade. Contemporary literature contends that students with disabilities may be overrepresented within the bullying dynamic as both perpetrators and victims. Unfortunately, prevalence rates associated with the representation of students with disabilities is…

Canadian First Nations Grandparents Raising Grandchildren: A Portrait in Resilience

ERIC Educational Resources Information Center

Fuller-Thomson, Esme

2005-01-01

Between 1991 and 2001, there was a 20% increase in the number of Canadian children under 18 years old who were living with their grandparents without a parent present in the home. Recent research revealed that Canadians of First Nations origin, including North American Indians, Mtis, and Inuit, were vastly over-represented among grandparents…

School-Linking Processes: Describing and Explaining Their Role in the Social Closure of French Elite Education

ERIC Educational Resources Information Center

Buisson-Fenet, Hélène; Draelants, Hugues

2013-01-01

In France, while schools are supposed to be sources of social mobility, as in any democratic society, it appears that children from privileged socio-economic categories are increasingly overrepresented in preparatory classes for the Grandes Écoles. The French studies trying to understand elite reproduction have mainly focused on family inheritance…

Judicial Reliance on Parental IQ in Appellate-Level Child Welfare Cases Involving Parents with Intellectual and Developmental Disabilities

ERIC Educational Resources Information Center

Callow, Ella; Tahir, Munazza; Feldman, Maurice

2017-01-01

Background: Parents with intellectual and developmental disabilities (IDDs) are over-represented in child welfare cases. Although IQ "per se" is an invalid indicator of parenting abilities, this study examined the prevalence of judicial consideration of parental IQ test evidence in US appellate cases. Methods: The present authors…

The Challenges of Reintegrating Indigenous Youth after Their Release from Detention

ERIC Educational Resources Information Center

Dawes, Glenn Desmond

2011-01-01

One of the greatest challenges for the juvenile justice system is to successfully reintegrate young offenders back to their communities so that they do not re-offend and return to detention. This challenge is even greater for young Aboriginal and Torres Strait Islander youth who are over-represented in the Queensland juvenile justice system in…

Child Maltreatment Reporting by Educational Personnel: Implications for Racial Disproportionality in the Child Welfare System

ERIC Educational Resources Information Center

Krase, Kathryn Suzanne

2015-01-01

African American children are disproportionally overrepresented in the U.S. child protection system. Because educational personnel are a significant source of reports of suspected child maltreatment across the country and in all states, the present study examines the impact of these reports on racial disproportionality and disparity at the…

Twinship as a Protective Factor against Behavioural and Emotional Problems at Preschool Age

ERIC Educational Resources Information Center

Tirkkonen, Tiina; Joskitt, Leena; Kunelius, Anne; Huhtaniska, Marika; Ebeling, Hanna; Moilanen, Irma

2016-01-01

Early attachment has both protective and risk factors as regards later mental health. In Finland, insecure-avoidant-type attachment is overrepresented. Does this indicate a risk for emotional and behavioural problems at preschool age? In this study, we examined and compared the association between attachment and mental health in Finnish singletons…

Special Education Referrals and Disciplinary Actions for Latino Students in the United States

ERIC Educational Resources Information Center

Moreno, Gerardo; Segura-Herrera, Theresa

2014-01-01

Latino students are the largest growing minority group in the U.S. school system. However, there are critical barriers that impeded the development of sustained academic success for this particular population. Latino students have been found to be over-represented in the delivery of disciplinary actions and in the identification of disabilities in…

Alaskan Natives and Other Minorities in the Special Education Programs of Four Alaskan School Districts.

ERIC Educational Resources Information Center

Pilla, Thomas V.

This report provides information on the percentages of Native Alaskans and other minorities in the special education programs of four Alaskan school districts. It was prompted by a civil rights complaint by parents in the Juneau School District alleging that Native Alaskans were overrepresented in special education programs. The complaint was…

Individual and Marital Adjustment among Bereaved and Nonbereaved Parents of Children Treated for Cancer.

ERIC Educational Resources Information Center

Tucker, Cindy L.; Hansen, James C.; Zevon, Michael A.

Studies of parents of children treated for cancer have rarely included adequate samples of fathers or couples. Further, bereaved parents have been over-represented as compared to parents of cancer survivors. This study investigated the personal and interpersonal effects of having a child treated for cancer on 124 parents. Twenty-seven married…

The Risk of Partner Violence among Low-Income Hispanic Subgroups

ERIC Educational Resources Information Center

Frias, Sonia M.; Angel, Ronald J.

2005-01-01

Women with few social resources are at elevated risk of partner abuse. Certain evidence suggests that African American and Hispanic women, who are overrepresented in the lower socioeconomic strata, are at particularly high risk. We compare women's risk of partner violence, defined as moderate and severe, among 2,400 low-income African American,…

Schooling for Resilience: Improving the Life Trajectory of Black and Latino Boys

ERIC Educational Resources Information Center

Fergus, Edward; Noguera, Pedro; Martin, Margary

2014-01-01

As a group, Black and Latino boys face persistent and devastating disparities in achievement when compared to their White counterparts: they are more likely to obtain low test scores and grades, be categorized as learning disabled, be absent from honors and gifted programs, and be overrepresented among students who are suspended and expelled from…

Leveled and Exclusionary Tracking: English Learners' Access to Academic Content in Middle School

ERIC Educational Resources Information Center

Umansky, Ilana M.

2016-01-01

This study examines the characteristics and determinants of English learners' (ELs') access to academic content in middle school (Grades 6-8). Following 10 years of data from a large urban school district in California, I identify two predominant characteristics of EL access to content: leveled tracking in which ELs are overrepresented in lower…

Democracy's Orphans: Rights, Responsibility, and the Role of the State in the Lives of Incarcerated Youth

ERIC Educational Resources Information Center

Gardner, Joby

2010-01-01

Transition to adulthood is increasingly complex, extended, and challenging. Working-class Brown and Black young men face very difficult transitions, as they are overrepresented in the justice system, poverty, foster care, special education, and among victims of violence. What effects do these developments have on young people's places in free…

Practitioners' Perceptions of Dyslexia and Approaches towards Teaching Learners with Dyslexia in Adult Literacy Classes

ERIC Educational Resources Information Center

Ade-Ojo, Gordon O.

2012-01-01

Learners with dyslexia are likely to be over-represented in adult literacy classes because of the convergence in perceptions, causes and understanding of literacy problems and dyslexia. Given the great amount of apprehension about practitioners' and policy makers' understanding of dyslexia itself, it is important to carry out an exploration of the…

Parental Socioeconomic Status and Risk of Offspring Autism Spectrum Disorders in a Swedish Population-Based Study

ERIC Educational Resources Information Center

Rai, Dheeraj; Lewis, Glyn; Lundberg, Michael; Araya, Ricardo; Svensson, Anna; Dalman, Christina; Carpenter, Peter; Magnusson, Cecilia

2012-01-01

Objective: Epidemiological studies in the United States consistently find autism spectrum disorders (ASD) to be overrepresented in high socioeconomic status (SES) families. These findings starkly contrast with SES gradients of many health conditions, and may result from SES inequalities in access to services. We hypothesized that prenatal measures…

Minorities in the Juvenile Justice System. 1999 National Report Series. Juvenile Justice Bulletin.

ERIC Educational Resources Information Center

Department of Justice, Washington, DC. Office of Juvenile Justice and Delinquency Prevention.

This report provides data on minorities in the juvenile justice system. Minority juveniles are significantly over-represented in the juvenile justice system. In 1997, minorities made up about one-third of the juvenile population nationwide but accounted for nearly two-thirds of the detained and committed population in secure juvenile facilities.…

Inequities in Infancy: Addressing the Overrepresentation of African American Infants in the Child Welfare System

ERIC Educational Resources Information Center

Harden, Brenda Jones

2008-01-01

African American infants have higher rates of child welfare system involvement than any other demographic group. They are overrepresented at every point on the child welfare continuum, from reporting, to substantiation, to foster care placement, to adoption. Racial disparities have also been noted in the services these children receive. This…

The Benefits of Being Latino: Differential Interpretations of Student Behavior and the Social Construction of Being Well Behaved

ERIC Educational Resources Information Center

Rueda, Eréndira

2015-01-01

Students of color are overrepresented in school disciplinary records nationally, but little is known about how disciplinary disproportionality varies among groups. Classroom observations in 1 elementary school suggested that when Latino students misbehaved, teachers were less inclined to interpret their behavior as problematic and less inclined to…

Are Hispanic, Asian, Native American, or Language-Minority Children Overrepresented in Special Education?

ERIC Educational Resources Information Center

Morgan, Paul L.; Farkas, George; Cook, Michael; Strassfeld, Natasha M.; Hillemeier, Marianne M.; Pun, Wik Hung; Wang, Yangyang; Schussler, Deborah L.

2018-01-01

We conducted a best-evidence synthesis of 22 studies to examine whether systemic bias explained minority disproportionate overrepresentation in special education. Of the total regression model estimates, only 7/168 (4.2%), 14/208 (6.7%), 2/37 (5.4%), and 6/91 (6.6%) indicated statistically significant overrepresentation for Hispanic, Asian, Native…

Gender Inequalities in Higher Education: Extent, Development and Mechanisms of Gender Differences in Enrolment and Field of Study Choice

ERIC Educational Resources Information Center

Lorz, Markus; Schindler, Steffen; Walter, Jessica G.

2011-01-01

In the course of educational expansion, gender differences in access to higher education have decreased substantially in many European countries. In Germany women are currently over-represented in upper secondary education and more frequently attain a general qualification for university entrance. Despite those advantages, women still enrol in…

Social Stratification and Higher Education Outcomes: The Case of Filipinos in Hawai`i

ERIC Educational Resources Information Center

Libarios, Ernest Niki D., Jr.

2013-01-01

Filipinos are the second largest ethnic group in Hawai'i and their population continues to grow at a rapid pace. However, they are among the lower socioeconomic groups in Hawai'i and are disproportionately represented in the University of Hawai'i system--overrepresented in the community colleges while underrepresented at the flagship campus, the…

The Barriers to Achievement for White/Black Caribbean Pupils in English Schools

ERIC Educational Resources Information Center

Haynes, Jo; Tikly, Leon; Caballero, Chamion

2006-01-01

Pupils of White and Black Caribbean descent make up the largest category of mixed heritage pupils in the United Kingdom. As a group they are at risk of underachieving and are proportionally over-represented in school exclusions. Yet little is known to date about the barriers to their achievement. The common-sense explanation for their…

Factor Structure of the Wechsler Intelligence Scales for Children-Fourth Edition among Referred Native American Students

ERIC Educational Resources Information Center

Nakano, Selena; Watkins, Marley W.

2013-01-01

The Native American population is severely underrepresented in empirical test validity research despite being overrepresented in special education programs and at increased risk for psychoeducational evaluation. The structural validity of the Wechsler Intelligence Scale for Children-Fourth Edition (WISC-IV) was investigated with a sample of 176,…

The Stuff of Stereotypes: Toward Unpacking Identity Threats amid African American Students' Learning Experiences

ERIC Educational Resources Information Center

Larnell, Gregory V.; Boston, Denise; Bragelman, John

2014-01-01

The purpose of this article is to shed light on scenarios in which threatening stereotypes unfold, specifically in an institutional context in which African Americans are overrepresented. Drawing on data and findings from a recent study examining mathematics learning and identity in non-credit-bearing remedial math courses, we present three…

Captive Students: Education and Training in America's Prisons. Policy Information Report.

ERIC Educational Resources Information Center

Barton, Paul E.; Coley, Richard J.

The United States has a history of vacillating between rehabilitation and punishment for prisoners. The current mood is to devote resources to building more prisons and to strengthen law enforcement and sentencing policies. Within the last 15 years, the U.S. prison population has tripled, with minority groups being overrepresented in prisons.…

Intellectual Disabilities and Neglectful Parenting: Preliminary Findings on the Role of Cognition in Parenting Risk

ERIC Educational Resources Information Center

Azar, Sandra T.; Stevenson, Michael T.; Johnson, David R.

2012-01-01

Parents with intellectual disabilities (PID) are overrepresented in the child protective services (CPS) system. This study examined a more nuanced view of the role of cognition in parenting risk. Its goal was to validate a social information processing (SIP) model of child neglect that draws on social cognition research and advances in…

Brief Report: Suggestibility, Compliance and Psychological Traits in High-Functioning Adults with Autism Spectrum Disorder

ERIC Educational Resources Information Center

Maras, Katie L.; Bowler, Dermot M.

2012-01-01

Individuals with autism spectrum disorder (ASD) may be over-represented within the criminal justice system; it is therefore important to understand how they fare under police questioning. The present study examined interrogative suggestibility and compliance in individuals with ASD, and whether this is associated with certain psychological traits.…

Identifying Head Start Children for Higher Tiers of Language and Literacy Instruction

ERIC Educational Resources Information Center

Albritton, Kizzy; Stuckey, Adrienne; Patton Terry, Nicole

2017-01-01

The application of Response to Intervention (RtI) to early childhood settings presents many opportunities and challenges; however, it remains unclear how best to implement this framework in settings in which children at risk of academic difficulty are overrepresented, like Head Start. One of the first steps in implementing any RtI process is the…

The Effects of African American and European American Males' Behavior Styles on Preservice Teachers' Ratings of Acceptability, Achievement, and Aggression

ERIC Educational Resources Information Center

Cichy, Bryan Ervin

2010-01-01

African American students are overrepresented in the category of Emotional Disturbance under the Individuals with Disabilities Education Act across the United States. This study examined how preservice teachers rated African American and European American students on three ratings scales across four culturally mediated behaviors: (a) movement…

African American and White Mothers' Substance Abuse, Depression, and Criminality as Risk Factors for School Suspension

ERIC Educational Resources Information Center

Smith-McKeever, Chedgzsey; Gao, Weihua

2010-01-01

School social workers are often responsible for developing and implementing programs to prevent school suspension, particularly for African American students, who are overrepresented among all students suspended. This article uses data from the National Longitudinal Survey to examine the relative roles of maternal substance and alcohol abuse,…

Nitrogen dynamics in a tidal river zone influenced by highly urbanization, western Japan

NASA Astrophysics Data System (ADS)

Saito, M.; Onodera, S. I.; Shimizu, Y.; Maruyama, Y.; Jin, G.; Aritomi, D.

2014-12-01

Tidal river and estuary are the transition zone between freshwater and seawater with high biological production. These areas have characteristics of water level fluctuation which causes surface water-groundwater interaction and the associated change in dynamics of nitrogen. Generally in coastal megacities, severe groundwater depression and high contaminants load influence on the environment of tidal river. However, these effects on the nitrogen dynamics and its load from a river to sea have not been fully evaluated in previous studies. Therefore, we aimed to clarify the characteristics of the nitrogen dynamics with the surface water-groundwater interaction in the tidal river zone of Osaka metropolitan city, western Japan. We conducted the field survey from the river mouth to the 7km upstream area of Yamato River, which has a length of 68km and a watershed area of 1,070 km2. Spatial variations in radon (222Rn) concentrations and the difference of hydraulic potential between river waters and the pore waters suggest that the groundwater discharges to the river channel in the upstream area. In contrast, the river water recharged into the groundwater near the river mouth area. It may be caused by the lowering of groundwater level associated with the excess abstraction in the urban area. The spatial and temporal variations in nutrient concentration indicate that nitrate-nitrogen (NO3-N) concentration changed temporally and it was negatively correlated with dissolved organic nitrogen (DON) concentration. Based on the mass balance estimation in winter and summer periods, nitrogen was removed in tidal river zone in both periods which was estimated to be about 10 % of total nitrogen (TN) load from the upstream. However, dissolved inorganic nitrogen (DIN) and DON was re-produced in winter and summer periods, respectively. NO3-N concentrations were negatively correlated with velocity of river water, which suggests the progress of denitrification in the tidal river zone under low discharge condition. Nitrogen and oxygen stable isotope ratios (δ15N, δ18O) of nitrate (NO3-) suggests the possibility of nitrification progress in the winter periods.

Global Gene Expression Profiling in Omental Adipose Tissue of Morbidly Obese Diabetic African Americans.

PubMed

Doumatey, Ayo P; Xu, Huichun; Huang, Hanxia; Trivedi, Niraj S; Lei, Lin; Elkahloun, Abdel; Adeyemo, Adebowale; Rotimi, Charles N

2015-06-01

Adipose tissues play important role in the pathophysiology of obesity-related diseases including type 2 diabetes (T2D). To describe gene expression patterns and functional pathways in obesity-related T2D, we performed global transcript profiling of omental adipose tissue (OAT) in morbidly obese individuals with or without T2D. Twenty morbidly obese (mean BMI: about 54 kg/m 2 ) subjects were studied, including 14 morbidly obese individuals with T2D (cases) and 6 morbidly obese individuals without T2D (reference group). Gene expression profiling was performed using the Affymetrix U133 Plus 2.0 human genome expression array. Analysis of covariance was performed to identify differentially expressed genes (DEGs). Bioinformatics tools including PANTHER and Ingenuity Pathway Analysis (IPA) were applied to the DEGs to determine biological functions, networks and canonical pathways that were overrepresented in these individuals. At an absolute fold-change threshold of 2 and false discovery rate (FDR) < 0.05, 68 DEGs were identified in cases compared to the reference group. Myosin X (MYO10) and transforming growth factor beta regulator 1 (TBRG1) were upregulated. MYO10 encodes for an actin-based motor protein that has been associated with T2D. Telomere extension by telomerase ( HNRNPA1, TNKS2 ), D-myo-inositol (1, 4, 5)-trisphosphate biosynthesis (PIP5K1A, PIP4K2A), and regulation of actin-based motility by Rho (ARPC3) were the most significant canonical pathways and overlay with T2D signaling pathway. Upstream regulator analysis predicted 5 miRNAs (miR-320b, miR-381-3p, miR-3679-3p, miR-494-3p, and miR-141-3p,) as regulators of the expression changes identified. This study identified a number of transcripts and miRNAs in OAT as candidate novel players in the pathophysiology of T2D in African Americans.

The PluriNetWork: An Electronic Representation of the Network Underlying Pluripotency in Mouse, and Its Applications

PubMed Central

Greber, Boris; Siatkowski, Marcin; Paudel, Yogesh; Warsow, Gregor; Cap, Clemens; Schöler, Hans; Fuellen, Georg

2010-01-01

Background Analysis of the mechanisms underlying pluripotency and reprogramming would benefit substantially from easy access to an electronic network of genes, proteins and mechanisms. Moreover, interpreting gene expression data needs to move beyond just the identification of the up-/downregulation of key genes and of overrepresented processes and pathways, towards clarifying the essential effects of the experiment in molecular terms. Methodology/Principal Findings We have assembled a network of 574 molecular interactions, stimulations and inhibitions, based on a collection of research data from 177 publications until June 2010, involving 274 mouse genes/proteins, all in a standard electronic format, enabling analyses by readily available software such as Cytoscape and its plugins. The network includes the core circuit of Oct4 (Pou5f1), Sox2 and Nanog, its periphery (such as Stat3, Klf4, Esrrb, and c-Myc), connections to upstream signaling pathways (such as Activin, WNT, FGF, BMP, Insulin, Notch and LIF), and epigenetic regulators as well as some other relevant genes/proteins, such as proteins involved in nuclear import/export. We describe the general properties of the network, as well as a Gene Ontology analysis of the genes included. We use several expression data sets to condense the network to a set of network links that are affected in the course of an experiment, yielding hypotheses about the underlying mechanisms. Conclusions/Significance We have initiated an electronic data repository that will be useful to understand pluripotency and to facilitate the interpretation of high-throughput data. To keep up with the growth of knowledge on the fundamental processes of pluripotency and reprogramming, we suggest to combine Wiki and social networking software towards a community curation system that is easy to use and flexible, and tailored to provide a benefit for the scientist, and to improve communication and exchange of research results. A PluriNetWork tutorial is available at http://www.ibima.med.uni-rostock.de/IBIMA/PluriNetWork/. PMID:21179244

Thermal effects of dams in the Willamette River basin, Oregon

USGS Publications Warehouse

Rounds, Stewart A.

2010-01-01

Methods were developed to assess the effects of dams on streamflow and water temperature in the Willamette River and its major tributaries. These methods were used to estimate the flows and temperatures that would occur at 14 dam sites in the absence of upstream dams, and river models were applied to simulate downstream flows and temperatures under a no-dams scenario. The dams selected for this study include 13 dams built and operated by the U.S. Army Corps of Engineers (USACE) as part of the Willamette Project, and 1 dam on the Clackamas River owned and operated by Portland General Electric (PGE). Streamflows in the absence of upstream dams for 2001-02 were estimated for USACE sites on the basis of measured releases, changes in reservoir storage, a correction for evaporative losses, and an accounting of flow effects from upstream dams. For the PGE dam, no-project streamflows were derived from a previous modeling effort that was part of a dam-relicensing process. Without-dam streamflows were characterized by higher peak flows in winter and spring and much lower flows in late summer, as compared to with-dam measured flows. Without-dam water temperatures were estimated from measured temperatures upstream of the reservoirs (the USACE sites) or derived from no-project model results (the PGE site). When using upstream data to estimate without-dam temperatures at dam sites, a typical downstream warming rate based on historical data and downstream river models was applied over the distance from the measurement point to the dam site, but only for conditions when the temperature data indicated that warming might be expected. Regressions with measured temperatures from nearby or similar sites were used to extend the without-dam temperature estimates to the entire 2001-02 time period. Without-dam temperature estimates were characterized by a more natural seasonal pattern, with a maximum in July or August, in contrast to the measured patterns at many of the tall dam sites where the annual maximum temperature typically occurred in September or October. Without-dam temperatures also tended to have more daily variation than with-dam temperatures. Examination of the without-dam temperature estimates indicated that dam sites could be grouped according to the amount of streamflow derived from high-elevation, spring-fed, and snowmelt-driven areas high in the Cascade Mountains (Cougar, Big Cliff/Detroit, River Mill, and Hills Creek Dams: Group A), as opposed to flow primarily derived from lower-elevation rainfall-driven drainages (Group B). Annual maximum temperatures for Group A ranged from 15 to 20 degree(s)C, expressed as the 7-day average of the daily maximum (7dADM), whereas annual maximum 7dADM temperatures for Group B ranged from 21 to 25 degrees C. Because summertime stream temperature is at least somewhat dependent on the upstream water source, it was important when estimating without-dam temperatures to use correlations to sites with similar upstream characteristics. For that reason, it also is important to maintain long-term, year-round temperature measurement stations at representative sites in each of the Willamette River basin's physiographic regions. Streamflow and temperature estimates downstream of the major dam sites and throughout the Willamette River were generated using existing CE-QUAL-W2 flow and temperature models. These models, originally developed for the Willamette River water-temperature Total Maximum Daily Load process, required only a few modifications to allow them to run under the greatly reduced without-dam flow conditions. Model scenarios both with and without upstream dams were run. Results showed that Willamette River streamflow without upstream dams was reduced to levels much closer to historical pre-dam conditions, with annual minimum streamflows approximately one-half or less of dam-augmented levels. Thermal effects of the dams varied according to the time of year, from cooling in mid-summer to warm

Effects of metals on a montane aquatic system evaluated using an integrated assessment approach

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

Beltman, D.; Lipton, J.; Cacela, D.

Surface water, benthic invertebrates, aufwuchs, and sediments were sampled in a Rocky Mountain stream impacted by a cobalt-copper mine. A randomized study design was employed to ensure valid inferences beyond the areas sampled. As, Co, and Cu concentrations in all media downstream of the mine were 1--3 orders of magnitude greater than concentrations upstream, and concentrations in invertebrates were greater than those that adversely affect trout via dietary intake. Correlational analysis shows that bioaccumulation mechanisms and pathways between the different media differ from element to element; the differences are related to geochemical characteristics of the elements. The benthic invertebrate communitymore » is severely impacted for at least 50 km downstream of the mine: Ephemeropteran density, number of taxa, and total biomass are as low as 0.1% of values upstream. Other indices of the effects of metals on invertebrate communities that have been used elsewhere were ineffective in detecting these severe impacts. The integrated assessment approach used in this study provides information on contaminant sources, exposure pathways and mechanisms, and impacts to the stream ecosystem at several organizational levels.« less

Temporal and spatial patterns of wetland sedimentation, West Tennessee

USGS Publications Warehouse

Hupp, C.R.; Bazemore, D.E.

1993-01-01

Dendrogeomorphic techniques were used to describe and interpret patterns of sedimentation rates at two forested wetland sites in West Tennessee. Fifty-five sampling stations were established along transects upstream and downstream from bridge structures, and 515 trees were examined for depth of sediment accretion and cored for age determination. Temporal variation in sedimentation rate may be related more to stream channelization and agricultural activity than to bridge and causeway construction. Sedimentation rates have increased substantially in the last 28 years, although channelized streams may have overall lower rates than unchannelized streams. Comparisons of sedimentation rates from deposition over artificial markers (short term) with those determined from tree-ring analysis (long-term) indicate that trends are similar where hydrogeomorphic conditions have not been altered substantially. No tendency for increased sedimentation upstream from bridges was observed. Deposition rates were inversely correlated with elevation and degree of ponding. Downstream deposition of sand splays appears to be related to flow constrictions and may be extensive. Mean overall rates of sedimentation (between 0.24 and 0.28 cm year-1), determined dendrogeomorphically, are comparable with other published rates. ?? 1993.

A speed limit compliance model for dynamic speed display sign.

PubMed

Ardeshiri, Anam; Jeihani, Mansoureh

2014-12-01

Violating speed limits is a major cause of motor vehicle crashes. Various techniques have been adopted to ensure that posted speed limits are obeyed by drivers. This study investigates the effect of dynamic speed display signs (DSDSs) on drivers' compliance with posted speed limit. An extensive speed data collection upstream of, adjacent to, and downstream of DSDS locations on multiple road classes with different speed limits (25, 35, and 45 mph) was performed short-term and long-term after DSDS installation. Conventional statistical analysis, regression models, and a Bayesian network were developed to assess the DSDS's effectiveness. General compliance with speed limit (upstream of the DSDS location), time of day, day of week, duration of DSDS operation, and distance from the DSDS location were significantly correlated with speed limit compliance adjacent to the DSDS. While compliance with the speed limit due to the DSDS increased by 5%, speed reduction occurred in 40% of the cases. Since drivers were likely to increase their speed after passing the DSDS, it should be installed on critical points supplemented with enforcement. Copyright © 2014 Elsevier Ltd. All rights reserved.

Effects of urban runoff and wastewater effluent on Wilsons Creek and James River near Springfield, Missouri

USGS Publications Warehouse

Berkas, Wayne R.

1980-01-01

Statistical analysis on water-quality parameters from James River upstream and downstream from the confluence of Wilsons Creek shows a significant difference for all parameters except temperature and dissolved silica at the 0.05 probability level. Regression analysis shows correlation for discharge with dissolved sodium, dissolved chloride, and dissolved potassium, and for specific conductance with dissolved chloride and dissolved sulfate at the station downstream from Wilsons Creek. This is due to the consistent quality of the effluent from the Southwest Wastewater Plant on Wilsons Creek. Water-quality monitor stations upstream and downstream from the wastewater plant indicate that the plant has a degrading effect on dissolved oxygen in Wilsons Creek and James River. The monitors also indicate that rainfall flushes momentarily poor quality water into Wilsons Creek from the urbanized Springfield area. Overall, the runoff is diluting the effluent from the wastewater plant. Rainfall and runoff stations indicate a rapid response of runoff to rainfall due to the high percentage of imperviousness and the filling or paving of sinkholes. (USGS)

Surface water discharge and salinity monitoring of coastal estuaries in Everglades National Park, USA, in support of the Comprehensive Everglades Restoration Plan

USGS Publications Warehouse

Woods, Jeff

2010-01-01

Discharge and salinity were measured along the southwest and the southeast coast of Florida in Everglades National Park (ENP) within several rivers and creeks from 1996 through 2008. Data were collected using hydro-acoustic instruments and continuous water-quality monitors at fixed monitoring stations. Water flowed through ENP within two distinct drainage basins; specifically, Shark Slough and Taylor Slough. Discharge to the southwest coast through Shark Slough was substantially larger than discharge to the southeast coast through Taylor Slough. Correlation analysis between coastal flows and regulated flows at water-management structures upstream from ENP suggests rainfall has a larger impact on discharge through Shark Slough than releases from the S-12 water management structures. In contrast, flow releases from water management structures upstream from Taylor Slough appear to be more closely related to discharge along the southeast coast. Salinity varied within a wide range (0 to 50 parts per thousand) along both coastlines. Periods of hypersalinity were greater along the southeast coast due to shallow compartmentalized basins within Florida Bay, which restrict circulation.

Risk Assessment of Pollution Emergencies in Water Source Areas of the Hanjiang-to-Weihe River Diversion Project

NASA Astrophysics Data System (ADS)

Liu, Luyao; Feng, Minquan

2018-03-01

[Objective] This study quantitatively evaluated risk probabilities of sudden water pollution accidents under the influence of risk sources, thus providing an important guarantee for risk source identification during water diversion from the Hanjiang River to the Weihe River. [Methods] The research used Bayesian networks to represent the correlation between accidental risk sources. It also adopted the sequential Monte Carlo algorithm to combine water quality simulation with state simulation of risk sources, thereby determining standard-exceeding probabilities of sudden water pollution accidents. [Results] When the upstream inflow was 138.15 m3/s and the average accident duration was 48 h, the probabilities were 0.0416 and 0.0056 separately. When the upstream inflow was 55.29 m3/s and the average accident duration was 48 h, the probabilities were 0.0225 and 0.0028 separately. [Conclusions] The research conducted a risk assessment on sudden water pollution accidents, thereby providing an important guarantee for the smooth implementation, operation, and water quality of the Hanjiang-to-Weihe River Diversion Project.

Using Soluble Reactive Phosphorus and Ammonia to Identify Point Source Discharge from Large Livestock Facilities

NASA Astrophysics Data System (ADS)

Borrello, M. C.; Scribner, M.; Chessin, K.

2013-12-01

A growing body of research draws attention to the negative environmental impacts on surface water from large livestock facilities. These impacts are mostly in the form of excessive nutrient loading resulting in significantly decreased oxygen levels. Over-application of animal waste on fields as well as direct discharge into surface water from facilities themselves has been identified as the main contributor to the development of hypoxic zones in Lake Erie, Chesapeake Bay and the Gulf of Mexico. Some regulators claim enforcement of water quality laws is problematic because of the nature and pervasiveness of non-point source impacts. Any direct discharge by a facility is a violation of permits governed by the Clean Water Act, unless the facility has special dispensation for discharge. Previous research by the principal author and others has shown runoff and underdrain transport are the main mechanisms by which nutrients enter surface water. This study utilized previous work to determine if the effects of non-point source discharge can be distinguished from direct (point-source) discharge using simple nutrient analysis and dissolved oxygen (DO) parameters. Nutrient and DO parameters were measured from three sites: 1. A stream adjacent to a field receiving manure, upstream of a large livestock facility with a history of direct discharge, 2. The same stream downstream of the facility and 3. A stream in an area relatively unimpacted by large-scale agriculture (control site). Results show that calculating a simple Pearson correlation coefficient (r) of soluble reactive phosphorus (SRP) and ammonia over time as well as temperature and DO, distinguishes non-point source from point source discharge into surface water. The r value for SRP and ammonia for the upstream site was 0.01 while the r value for the downstream site was 0.92. The control site had an r value of 0.20. Likewise, r values were calculated on temperature and DO for each site. High negative correlations between temperature and DO are indicative of a relatively unimpacted stream. Results from this study are commensurate with nutrient correlations and are: r = -0.97 for the upstream site, r = -0.21 for the downstream site and r = -0.89 for the control site. Results from every site tested were statistically significant (p ≤ 0.05). These results support previous studies and demonstrate that the simple analytical techniques mentioned provide an effective means for regulatory agencies and community groups to monitor and identify point source discharge from large livestock facilities.

Comparison of vapor concentrations of volatile organic compounds with ground-water concentrations of selected contaminants in sediments beneath the Sudbury River, Ashland, Massachusetts, 2000

USGS Publications Warehouse

Campbell, J.P.; Lyford, F.P.; Willey, Richard E.

2002-01-01

A mixed plume of contaminants in ground water, including volatile organic compounds (VOCs), semi-volatile organic compounds (SVOCs), and metals, near the former Nyanza property in Ashland, Massachusetts, discharges to the Sudbury River upstream and downstream of Mill Pond and a former mill raceway. Polyethylene-membrane vapor-diffusion (PVD) samplers were installed in river-bottom sediments to determine if PVD samplers provide an alternative to ground-water sampling from well points for identifying areas of detectable concentrations of contaminants in sediment pore water near the ground-water and surface-water interface. In August and September 2000, the PVD samplers were installed near well points at depths of 8 to 12 inches in both fine and coarse sediments, whereas the well points were installed at depths of 1 to 5 feet in coarse sediments only. Comparison between vapor and water samples at 29 locations upstream from Mill Pond show that VOC vapor concentrations from PVD samplers in coarse river-bottom sediments are more likely to correspond to ground-water concentrations from well points than PVD samplers installed in fine sediments. Significant correlations based on Kendall's Tau were shown between vapor and ground-water concentrations for trichloroethylene and chlorobenzene for PVD samplers installed in coarse sediments where the fine organic layer that separated the two sampling depths was 1 foot or less in thickness. VOC concentrations from vapor samples also were compared to VOC, SVOC, and metals concentrations from ground-water samples at 10 well points installed upstream and downstream from Mill Pond, and in the former mill raceway. Chlorobenzene vapor concentrations correlated significantly with ground-water concentrations for 5 VOCs, 2 SVOCs, and 10 metals. Trichloroethylene vapor concentrations did not correlate with any of the other ground-water constituents analyzed at the 10 well points. Chlorobenzene detected by use of PVD samplers appears to be a strong indicator of the presence of VOCs, SVOCs, and metals in ground water sampled from well points at this site. Results from PVD samplers indicate that contaminant concentrations in water from well points installed 1 to 5 ft below fine sediments may not reflect concentrations in pore water less than 1 foot below the river bottom. There is insufficient information available to determine if VOC concentrations detected in PVD samplers are useful for identifying detectable aqueous concentrations of SVOCs and metals in sediment pore water at this site. Samples of pore water from a similar depth as PVD samplers are needed for confirmation of this objective.

Evaluating the Effectiveness of a Road Safety Education Intervention for Pre-Drivers: An Application of the Theory of Planned Behaviour

ERIC Educational Resources Information Center

Poulter, Damian R.; McKenna, Frank P.

2010-01-01

Background: Young drivers are overrepresented in road traffic fatalities and collisions. Attempts to address this problem with pre-driver education have not met with unambiguous success. However, there is a lack of research on whether pre-driver education can change psychological antecedents to behaviour. Aims: The framework of the theory of…

Beyond Judgment Bias: How Students' Ethnicity and Academic Profile Consistency Influence Teachers' Tracking Judgments

ERIC Educational Resources Information Center

Glock, Sabine; Krolak-Schwerdt, Sabine; Klapproth, Florian; Böhmer, Matthias

2013-01-01

Research on school tracking has provided evidence that students with immigrant backgrounds are overrepresented in the lower school tracks. As teachers are the main decision makers when it comes to tracking, we investigated whether teachers' tracking judgments are biased by the immigrant backgrounds of the students and how teachers'…

A Good Learning Opportunity, but Is It for Me? A Study of Swedish Students' Attitudes towards Exchange Studies in Higher Education

ERIC Educational Resources Information Center

Ahn, Song-ee

2014-01-01

This article describes students' involvement and interest in exchange programmes in Swedish higher education. Law and Engineering bachelor's programmes were chosen to exemplify an over-represented and under-represented group respectively in terms of international mobility in this context. The study combines interview and survey data. The author…

Differences between Juvenile Offenders with and without Intellectual Disabilities in the Importance of Static and Dynamic Risk Factors for Recidivism

ERIC Educational Resources Information Center

van der Put, C. E.; Asscher, J. J.; Stams, G. J. J. M.; Moonen, X. M. H.

2014-01-01

Background: Juvenile offenders with intellectual disability (ID) have been largely ignored in the literature of risk assessment, while they are overrepresented in the criminal justice system, and ID is a risk factor for juvenile delinquency and recidivism. The aim of this study was to examine whether there are differences between juvenile…

Rethinking Initial Teacher Education: Preparing Teachers for Schools in Low Socio-Economic Communities in New Zealand

ERIC Educational Resources Information Center

Grudnoff, Lexie; Haigh, Mavis; Hill, Mary; Cochran-Smith, Marilyn; Ell, Fiona; Ludlow, Larry

2016-01-01

Differential student achievement has particular significance in New Zealand as it has one of the largest gaps between high and low achievers among all OECD countries. Students from low socio-economic status (SES) communities, who are often Maori and Pasifika, are heavily over-represented in the low achieving group, while students from wealthier…

Counseling Older Adults at Risk of Suicide: Recognizing Barriers, Reviewing Strategies, and Exploring Opportunities for Intervention

ERIC Educational Resources Information Center

Sawyer, Patricia; Williams, Beverly Rosa

2012-01-01

Age-related challenges to health and well-being among older adults give rise to a distinctive array of risk factors for suicide, calling for a unique approach to suicide interventions. Americans over the age of 65 are disproportionally overrepresented in the number of completed suicides. This paper examines the epidemiology of geriatric suicide,…

Innovation and Impact in Teacher Education: Community-Based Organizations as Field Placements for Preservice Teachers

ERIC Educational Resources Information Center

McDonald, Morva A.; Tyson, Kersti; Brayko, Kate; Bowman, Michael; Delport, John; Shimomura, Fuyu

2011-01-01

Background: Research shows that students who are overrepresented when it comes to failure are underrepresented when it comes to being taught by highly qualified teachers who are well prepared to teach students from diverse backgrounds. Teacher education, as one aspect of the educational system, plays a critical role in preparing teachers with the…

Teachers' Guidance, Family Participation and Track Choice: The Educational Disadvantage of Immigrant Students in Italy

ERIC Educational Resources Information Center

Bonizzoni, Paola; Romito, Marco; Cavallo, Cristina

2016-01-01

In Italy, as in other European countries, students of foreign origin are over-represented in the vocational school tracks, with relevant consequences on their limited chances of attaining a university degree. While research has long underlined the weight that a family's social, cultural and economic capital has on a child's school performance,…

In Search of a Family: The Contribution of Art Psychotherapy to a Collaborative Approach with a Man Residing in a Forensic Learning Disability Setting

ERIC Educational Resources Information Center

Caveney, Domanic; Wassall, Shaun; Rayner, Kelly

2018-01-01

Background: Clients with attachment issues are over-represented in learning disability services. Forensic inpatient services are no exception. Treatment pathways comprise multidisciplinary interventions, and skills-based treatments are considered vital to recovery and maintenance of prosocial and adaptive behaviour and reduction in risk. An…

Gender and Subject Choice: An Empirical Study on Undergraduate Students' Majors in Phnom Penh

ERIC Educational Resources Information Center

Dom, Vannak; Yi, Gihong

2018-01-01

The empirical study on 610 undergraduate students between the age of 16 to 25 in Phnom Penh, Cambodia, was set to examine the relationship of gender and subject choice. The findings have revealed that women were overrepresented in non-science subjects and their gender identity has strong connection with subject choice (*** p < 0.001). The study…

Economic Diversity among Selective Colleges: Measuring the Enrollment Impact of "No-Loan" Programs. Issue Brief

ERIC Educational Resources Information Center

Hillman, Nicholas

2012-01-01

Students from low-income families are underrepresented in higher education, despite the fact that many of them are well qualified to enroll. When low-income students do enroll in college, they tend to be overrepresented in public community colleges and for-profit institutions, or if they attend four-year institutions, tend to attend regional state…

Prevalence of Autism in Children Born to Somali Parents Living in Sweden: A Brief Report

ERIC Educational Resources Information Center

Barnevik-Olsson, Martina; Gillberg, Christopher; Fernell, Elisabeth

2008-01-01

In a geographical area of Stockholm, with a relatively large Somali immigrant population, parents as well as teachers in special schools and staff at habilitation centres have raised concerns over whether children with a Somali background are over-represented in the total group of children with autism. The aim of the study was, therefore, to…

Elicitor-induced transcription factors for metabolic reprogramming of secondary metabolism in Medicago truncatula

PubMed Central

Naoumkina, Marina A; He, XianZhi; Dixon, Richard A

2008-01-01

Background Exposure of Medicago truncatula cell suspension cultures to pathogen or wound signals leads to accumulation of various classes of flavonoid and/or triterpene defense molecules, orchestrated via a complex signalling network in which transcription factors (TFs) are essential components. Results In this study, we analyzed TFs responding to yeast elicitor (YE) or methyl jasmonate (MJ). From 502 differentially expressed TFs, WRKY and AP2/EREBP gene families were over-represented among YE-induced genes whereas Basic Helix-Loop-Helix (bHLH) family members were more over-represented among the MJ-induced genes. Jasmonate ZIM-domain (JAZ) transcriptional regulators were highly induced by MJ treatment. To investigate potential involvement of WRKY TFs in signalling, we expressed four Medicago WRKY genes in tobacco. Levels of soluble and wall bound phenolic compounds and lignin were increased in all cases. WRKY W109669 also induced tobacco endo-1,3-β-glucanase (NtPR2) and enhanced the systemic defense response to tobacco mosaic virus in transgenic tobacco plants. Conclusion These results confirm that Medicago WRKY TFs have broad roles in orchestrating metabolic responses to biotic stress, and that they also represent potentially valuable reagents for engineering metabolic changes that impact pathogen resistance. PMID:19102779

Males are overrepresented among life science researchers committing scientific misconduct.

PubMed

Fang, Ferric C; Bennett, Joan W; Casadevall, Arturo

2013-01-22

A review of the United States Office of Research Integrity annual reports identified 228 individuals who have committed misconduct, of which 94% involved fraud. Analysis of the data by career stage and gender revealed that misconduct occurred across the entire career spectrum from trainee to senior scientist and that two-thirds of the individuals found to have committed misconduct were male. This exceeds the overall proportion of males among life science trainees and faculty. These observations underscore the need for additional efforts to understand scientific misconduct and to ensure the responsible conduct of research. As many of humanity's greatest problems require scientific solutions, it is critical for the scientific enterprise to function optimally. Misconduct threatens the scientific enterprise by undermining trust in the validity of scientific findings. We have examined specific demographic characteristics of individuals found to have committed research misconduct in the life sciences. Our finding that misconduct occurs across all stages of career development suggests that attention to ethical aspects of the conduct of science should not be limited to those in training. The observation that males are overrepresented among those who commit misconduct implies a gender difference that needs to be better understood in any effort to promote research integrity.

Ethnic variations regarding clinical profiles and symptom representation in prisoners with psychotic disorders.

PubMed

Denzel, A Dorina; Harte, Joke M; van den Bergh, Mattis; Scherder, Erik J A

2018-01-01

Black and minority ethnic (BME) groups are known to have higher prevalences of psychotic disorders and are over-represented in western penitentiaries and forensic psychiatric institutions. Research from regular mental healthcare settings suggests that they could show different and more severe psychotic symptoms. Aims To explore ethnic variations in severity of symptomatology of BME and non-BME detainees with psychotic disorders. In this study, 824 patients with psychotic disorders from seven different ethnic groups, imprisoned in a penitentiary psychiatric centre in the Netherlands, were compared on symptom severity and symptom representation using the BPRS-E clinical interview. Data were analysed by means of a multilevel analysis. BME patients with psychotic disorders are over-represented in forensic psychiatry, and symptom profiles of prisoners with psychotic disorders vary by ethnicity. Additionally, severity levels of overall psychopathology differ between ethnic groups: patients with an ethnic majority status show more severe levels of psychopathology compared with BME patients. There are differences in symptom severity and symptom profiles between BME patients and non-BME patients. Disregarding these differences could have an adverse effect on the outcome of the treatment. Possible explanations and clinical impact are discussed. Declaration of interest None.

Comparative Metagenomic and Metatranscriptomic Analysis of Hindgut Paunch Microbiota in Wood- and Dung-Feeding Higher Termites

PubMed Central

He, Shaomei; Ivanova, Natalia; Kirton, Edward; Allgaier, Martin; Bergin, Claudia; Scheffrahn, Rudolf H.; Kyrpides, Nikos C.; Warnecke, Falk; Tringe, Susannah G.; Hugenholtz, Philip

2013-01-01

Termites effectively feed on many types of lignocellulose assisted by their gut microbial symbionts. To better understand the microbial decomposition of biomass with varied chemical profiles, it is important to determine whether termites harbor different microbial symbionts with specialized functionalities geared toward different feeding regimens. In this study, we compared the microbiota in the hindgut paunch of Amitermes wheeleri collected from cow dung and Nasutitermes corniger feeding on sound wood by 16S rRNA pyrotag, comparative metagenomic and metatranscriptomic analyses. We found that Firmicutes and Spirochaetes were the most abundant phyla in A. wheeleri, in contrast to N. corniger where Spirochaetes and Fibrobacteres dominated. Despite this community divergence, a convergence was observed for functions essential to termite biology including hydrolytic enzymes, homoacetogenesis and cell motility and chemotaxis. Overrepresented functions in A. wheeleri relative to N. corniger microbiota included hemicellulose breakdown and fixed-nitrogen utilization. By contrast, glycoside hydrolases attacking celluloses and nitrogen fixation genes were overrepresented in N. corniger microbiota. These observations are consistent with dietary differences in carbohydrate composition and nutrient contents, but may also reflect the phylogenetic difference between the hosts. PMID:23593407

Dysregulation of X-Linked Gene Expression in Klinefelter’s Syndrome and Association With Verbal Cognition

PubMed Central

Vawter, Marquis P.; Harvey, Philip D.; DeLisi, Lynn E.

2007-01-01

Klinefelter’s Syndrome (KS) is a chromosomal karyotype with one or more extra X chromosomes. KS individuals often show language impairment and the phenotype might be due to overexpression of genes on the extra X chromosome(s). We profiled mRNA derived from lymphoblastoid cell lines from males with documented KS and control males using the Affymetrix U133P microarray platform. There were 129 differentially expressed genes (DEGs) in KS group compared with controls after Benjamini–Hochberg false discovery adjustment. The DEGs included 14 X chromosome genes which were significantly over-represented. The Y chromosome had zero DEGs. In exploratory analysis of gene expression–cognition relationships, 12 DEGs showed significant correlation of expression with measures of verbal cognition in KS. Overexpression of one pseudoautosomal gene, GTPBP6 (GTP binding protein 6, putative) was inversely correlated with verbal IQ (r = −0.86, P < 0.001) and four other measures of verbal ability. Overexpression of XIST was found in KS compared to XY controls suggesting that silencing of many genes on the X chromosome might occur in KS similar to XX females. The microarray findings for eight DEGs were validated by quantitative PCR. The 14 X chromosome DEGs were not differentially expressed in prior studies comparing female and male brains suggesting a dysregulation profile unique to KS. Examination of X-linked DEGs, such as GTPBP6, TAF9L, and CXORF21, that show verbal cognition–gene expression correlations may establish a causal link between these genes, neurodevelopment, and language function. A screen of candidate genes may serve as biomarkers of KS for early diagnosis. PMID:17347996

Attention Deficit Hyperactivity Disorder in Adolescents With Epilepsy.

PubMed

Kwong, Karen L; Lam, David; Tsui, Sarah; Ngan, Mary; Tsang, Brian; Lam, Siu M

2016-04-01

We examined attention-deficit hyperactivity disorder in adolescents with epilepsy and the association with seizure-related and sociodemographic variables. Strengths and Weakness of Attention-Deficit Hyperactivity Disorder Symptoms and Normal Behaviors rating scale was administered to 122 children with epilepsy and 50 children with asthma, aged 10 to 18 years attending mainstream schools. Twenty-nine (23.7%) adolescents with epilepsy compared with five (10%) with asthma had attention deficit hyperactivity disorder (P = 0.037). Adolescents with epilepsy had a significantly higher score in the inattention subscale when compared with those with asthma (-0.25 ± 1.2 vs -0.64 ± 1.07, P = 0.049). Combined subtype was most frequent in the epilepsy group. Oppositional defiant disorders were more prevalent in those having attention deficit hyperactivity disorder. Psychiatric assistance had only been provided to one third of our patients with epilepsy and attention deficit hyperactivity disorder at the time of study. There was a negative correlation between attention deficit hyperactivity disorder scores and age of seizure onset. A positive correlation was observed between the number of antiepileptic drugs and the inattentive subscale score. The impact of various correlates on individual subtypes was not identical. Independent risk factors associated with attention deficit hyperactivity disorder were medical comorbidities (odds ratio = 12.82, 95% confidence interval 4.44, 37.03, P < 0.0001) and age at seizure onset (odds ratio = 0.73, 95% confidence interval 0.56, 0.94, P = 0.016). Attention deficit hyperactivity disorder is overrepresented in adolescents with epilepsy; screening for its symptoms should be an integral part of management in adolescents with epilepsy. Copyright © 2016 Elsevier Inc. All rights reserved.

Evidence for the innate immune response as a correlate of protection in human immunodeficiency virus (HIV)-1 highly exposed seronegative subjects (HESN)

PubMed Central

Tomescu, C; Abdulhaqq, S; Montaner, L J

2011-01-01

The description of highly exposed individuals who remain seronegative (HESN) despite repeated exposure to human immunodeficiency virus (HIV)-1 has heightened interest in identifying potential mechanisms of HIV-1 resistance. HIV-specific humoral and T cell-mediated responses have been identified routinely in HESN subjects, although it remains unknown if these responses are a definitive cause of protection or merely a marker for exposure. Approximately half of HESN lack any detectible HIV-specific adaptive immune responses, suggesting that other mechanisms of protection from HIV-1 infection also probably exist. In support of the innate immune response as a mechanism of resistance, increased natural killer (NK) cell activity has been correlated with protection from infection in several high-risk cohorts of HESN subjects, including intravenous drug users, HIV-1 discordant couples and perinatally exposed infants. Inheritance of protective NK KIR3DL1high and KIR3DS1 receptor alleles have also been observed to be over-represented in a high-risk cohort of HESN intravenous drug users and HESN partners of HIV-1-infected subjects. Other intrinsic mechanisms of innate immune protection correlated with resistance in HESN subjects include heightened dendritic cell responses and increased secretion of anti-viral factors such as β-chemokines, small anti-viral factors and defensins. This review will highlight the most current evidence in HESN subjects supporting the role of epithelial microenvironment and the innate immune system in sustaining resistance against HIV-1 infection. We will argue that as a front-line defence the innate immune response determines the threshold of infectivity that HIV-1 must overcome to establish a productive infection. PMID:21413945

Dysregulation of X-linked gene expression in Klinefelter's syndrome and association with verbal cognition.

PubMed

Vawter, Marquis P; Harvey, Philip D; DeLisi, Lynn E

2007-09-05

Klinefelter's Syndrome (KS) is a chromosomal karyotype with one or more extra X chromosomes. KS individuals often show language impairment and the phenotype might be due to overexpression of genes on the extra X chromosome(s). We profiled mRNA derived from lymphoblastoid cell lines from males with documented KS and control males using the Affymetrix U133P microarray platform. There were 129 differentially expressed genes (DEGs) in KS group compared with controls after Benjamini-Hochberg false discovery adjustment. The DEGs included 14 X chromosome genes which were significantly over-represented. The Y chromosome had zero DEGs. In exploratory analysis of gene expression-cognition relationships, 12 DEGs showed significant correlation of expression with measures of verbal cognition in KS. Overexpression of one pseudoautosomal gene, GTPBP6 (GTP binding protein 6, putative) was inversely correlated with verbal IQ (r = -0.86, P < 0.001) and four other measures of verbal ability. Overexpression of XIST was found in KS compared to XY controls suggesting that silencing of many genes on the X chromosome might occur in KS similar to XX females. The microarray findings for eight DEGs were validated by quantitative PCR. The 14 X chromosome DEGs were not differentially expressed in prior studies comparing female and male brains suggesting a dysregulation profile unique to KS. Examination of X-linked DEGs, such as GTPBP6, TAF9L, and CXORF21, that show verbal cognition-gene expression correlations may establish a causal link between these genes, neurodevelopment, and language function. A screen of candidate genes may serve as biomarkers of KS for early diagnosis. Copyright 2007 Wiley-Liss, Inc.

Quantitative analysis of diagnosing pancreatic fibrosis using EUS-elastography (comparison with surgical specimens).

PubMed

Itoh, Yuya; Itoh, Akihiro; Kawashima, Hiroki; Ohno, Eizaburo; Nakamura, Yosuke; Hiramatsu, Takeshi; Sugimoto, Hiroyuki; Sumi, Hajime; Hayashi, Daijuro; Kuwahara, Takamichi; Morishima, Tomomasa; Funasaka, Kohei; Nakamura, Masanao; Miyahara, Ryoji; Ohmiya, Naoki; Katano, Yoshiaki; Ishigami, Masatoshi; Goto, Hidemi; Hirooka, Yoshiki

2014-07-01

An accurate diagnosis of pancreatic fibrosis is clinically important and may have potential for staging chronic pancreatitis. The aim of this study was to diagnose the grade of pancreatic fibrosis through a quantitative analysis of endoscopic ultrasound elastography (EUS-EG). From September 2004 to October 2010, 58 consecutive patients examined by EUS-EG for both pancreatic tumors and their upstream pancreas before pancreatectomy were enrolled. Preoperative EUS-EG images in the upstream pancreas were statistically quantified, and the results were retrospectively compared with postoperative histological fibrosis in the same area. For the quantification of EUS-EG images, 4 parameters (mean, standard deviation, skewness, and kurtosis) were calculated using novel software. Histological fibrosis was graded into 4 categories (normal, mild fibrosis, marked fibrosis, and severe fibrosis) according to a previously reported scoring system. The fibrosis grade in the upstream pancreas was normal in 24 patients, mild fibrosis in 19, marked fibrosis in 6, and severe fibrosis in 9. Fibrosis grade was significantly correlated with all 4 quantification parameters (mean r = -0.75, standard deviation r = -0.54, skewness r = 0.69, kurtosis r = 0.67). According to the receiver operating characteristic analysis, the mean was the most useful parameter for diagnosing pancreatic fibrosis. Using the mean, the area under the ROC curves for the diagnosis of mild or higher-grade fibrosis, marked or higher-grade fibrosis and severe fibrosis were 0.90, 0.90, and 0.90, respectively. An accurate diagnosis of pancreatic fibrosis may be possible by analyzing EUS-EG images.

Food poisoning associated with ingestion of wild wasp broods in the upstream region of the Lancang river valley, Yunnan province, China.

PubMed

Jiang, Li; Huang, Tian

2018-04-01

Food poisoning due to wild wasp broods ingestion has long been noted in the upstream region of the Lancang river valley, Yunnan province, China. This study describes the epidemiological and clinical features of the poisoning and possible causes. Surveillance data collected between 2008 and 2016 were analyzed to produce demographic data on patients, information on clinical presentations, wasp species identification, and estimations of possible risk factors for symptomatic cases. Eleven poisoning events were associated with the ingestion of wild wasp broods, including 46 exposed persons with 31 symptomatic living cases and 8 deceased cases that were reported in the Yunnan province between 2008 and 2016. Poisoning cases were only detected in the upstream region of the Lancang river valley in the autumn. The severity of the symptoms was correlated with an evident dose-effect relationship regarding the quantity ingested. The mean latent period from wild wasp broods ingestion to the onset of the symptoms was 10 h for symptomatic living cases and 7 h for deceased cases, respectively. Both gastrointestinal and neurological symptoms were commonly observed in the poisoning cases. The toxin source may be indirectly caused by the wasp broods due to the prevalence of local poisonous plants, such as Tripterygium wilfordii Hook F, Tripterygium hypoglaucum Hutch and Vaccinium bracteatum Thunb. Educational programs at the start of wasp harvest season in September in the high-risk area should be carried out to reduce the incidence of poisonings. Copyright © 2018 Elsevier Ltd. All rights reserved.

Regulation of CCL2 expression by an upstream TALE homeodomain protein-binding site that synergizes with the site created by the A-2578G SNP.

PubMed

Page, Stephen H; Wright, Edward K; Gama, Lucio; Clements, Janice E

2011-01-01

CC Chemokine Ligand 2 (CCL2) is a potent chemoattractant produced by macrophages and activated astrocytes during periods of inflammation within the central nervous system. Increased CCL2 expression is correlated with disease progression and severity, as observed in pulmonary tuberculosis, HCV-related liver disease, and HIV-associated dementia. The CCL2 distal promoter contains an A/G polymorphism at position -2578 and the homozygous -2578 G/G genotype is associated with increased CCL2 production and inflammation. However, the mechanisms that contribute to the phenotypic differences in CCL2 expression are poorly understood. We previously demonstrated that the -2578 G polymorphism creates a TALE homeodomain protein binding site (TALE binding site) for PREP1/PBX2 transcription factors. In this study, we identified the presence of an additional TALE binding site 22 bp upstream of the site created by the -2578 G polymorphism and demonstrated the synergistic effects of the two sites on the activation of the CCL2 promoter. Using chromatin immunoprecipitation (ChIP) assays, we demonstrated increased binding of the TALE proteins PREP1 and PBX2 to the -2578 G allele, and binding of IRF1 to both the A and G alleles. The presence of TALE binding sites that form inverted repeats within the -2578 G allele results in increased transcriptional activation of the CCL2 distal promoter while the presence of only the upstream TALE binding site within the -2578 A allele exerts repression of promoter activity.

Lipid droplet-associated gene expression and chromatin remodelling in LIPASE 5'-upstream region from beginning- to mid-endodormant bud in 'Fuji' apple.

PubMed

Saito, Takanori; Wang, Shanshan; Ohkawa, Katsuya; Ohara, Hitoshi; Ikeura, Hiromi; Ogawa, Yukiharu; Kondo, Satoru

2017-11-01

We found that lipid accumulation in the meristem region and the expression of MdLIP2A, which appears to be regulated by chromatin remodeling, coincided with endodormancy induction in the 'Fuji' apple. In deciduous trees, including apples (Malus × domestica Borkh.), lipid accumulation in the meristem region towards endodormancy induction has been thought to be an important process for the acquisition of cold tolerance. In this study, we conducted histological staining of crude lipids in the meristem region of 'Fuji' apples and found that lipid accumulation coincided with endodormancy induction. Since a major component of lipid bodies (triacylglycerol) is esterified fatty acids, we analysed fatty acid-derived volatile compounds and genes encoding fatty acid-modifying enzymes (MdLOX1A and MdHPL2A); the reduction of lipid breakdown also coincided with endodormancy induction. We then characterised the expression patterns of lipid body-regulatory genes MdOLE1 and MdLIP2A during endodormancy induction and found that the expression of MdLIP2A correlated well with lipid accumulation towards endodormancy induction. Based on these results, we conducted chromatin remodelling studies and localized the cis-element in the 5'-upstream region of MdLIP2A to clarify its regulatory mechanism. Finally, we revealed that chromatin was concentrated - 764 to - 862 bp of the 5'-upstream region of MdLIP2A, which harbours the GARE [gibberellin responsive MYB transcription factor binding site] and CArG [MADS-box transcription factor binding site] motifs-meristem development-related protein-binding sites.

PAH occurrence in chalk river systems from the Jura region (France). Pertinence of suspended particulate matter and sediment as matrices for river quality monitoring.

PubMed

Chiffre, Axelle; Degiorgi, François; Morin-Crini, Nadia; Bolard, Audrey; Chanez, Etienne; Badot, Pierre-Marie

2015-11-01

This study investigates the variations of polycyclic aromatic hydrocarbon (PAH) levels in surface water, suspended particulate matter (SPM) and sediment upstream and downstream of the discharges of two wastewater treatment plant (WWTP) effluents. Relationships between the levels of PAHs in these different matrices were also investigated. The sum of 16 US EPA PAHs ranged from 73.5 to 728.0 ng L(-1) in surface water and from 85.4 to 313.1 ng L(-1) in effluent. In SPM and sediment, ∑16PAHs ranged from 749.6 to 2,463 μg kg(-1) and from 690.7 μg kg(-1) to 3,625.6 μg kg(-1), respectively. Investigations performed upstream and downstream of both studied WWTPs showed that WWTP discharges may contribute to the overall PAH contaminations in the Loue and the Doubs rivers. Comparison between gammarid populations upstream and downstream of WWTP discharge showed that biota was impacted by the WWTP effluents. When based only on surface water samples, the assessment of freshwater quality did not provide evidence for a marked PAH contamination in either of the rivers studied. However, using SPM and sediment samples, we found PAH contents exceeding sediment quality guidelines. We conclude that sediment and SPM are relevant matrices to assess overall PAH contamination in aquatic ecosystems. Furthermore, we found a positive linear correlation between PAH contents of SPM and sediment, showing that SPM represents an integrating matrix which is able to provide meaningful data about the overall contamination over a given time span.

Method and apparatus for measuring flow velocity using matched filters

DOEpatents

Raptis, A.C.

1983-09-06

An apparatus and method for measuring the flow velocities of individual phase flow components of a multiphase flow utilizes matched filters. Signals arising from flow noise disturbance are extracted from the flow, at upstream and downstream locations. The signals are processed through pairs of matched filters which are matched to the flow disturbance frequency characteristics of the phase flow component to be measured. The processed signals are then cross-correlated to determine the transit delay time of the phase flow component between sensing positions. 8 figs.

Analysis of Windward Side Hypersonic Boundary Layer Transition on Blunted Cones at Angle of Attack

DTIC Science & Technology

2017-01-09

AIAA-95-2294 , 1995. 6Wadhams, T. P., MacLean, M. G., Holden, M. S., and Mundy, E., “ Pre -Flight Ground Testing of the Full-Scale FRESH FX-1 at...correlated with PSE/LST N-Factors. 15. SUBJECT TERMS boundary layer transition, hypersonic, ground test 16. SECURITY CLASSIFICATION OF: 17. LIMITATION...movement of the windward transition front on a sharp and 6% blunt cones, but upstream movement for a 21% blunt cone at M = 11 and 13. Tests of the HIFiRE

A study of the coherence length of ULF waves in the earth's foreshock

NASA Technical Reports Server (NTRS)

Le, G.; Russell, C. T.

1990-01-01

High-time-resolution magnetic-field data for different separations of ISEE 1 and 2 in the earth's ion foreshock region are examined to study the coherence length of upstream ULF waves. Examining the correlation coefficients of the low-frequency waves as a function of separation distance shows that the correlation coefficient depends mainly on the separation distance of ISEE 1 and 2 transverse to the solar-wind flow. It drops to about 0.5 when the transverse separation is about 1 earth radius, a distance much larger than the proton thermal gyroradius in the solar wind. Thus the coherence length of the low-frequency waves is about one earth radius, which is of the order of the wavelength, and is consistent with that estimated from the bandwidth of the waves.

Some Finite Difference Solutions of the Laminar Compressible Boundary Layer Showing the Effects of Upstream Transpiration Cooling

NASA Technical Reports Server (NTRS)

Howe, John T.

1959-01-01

Three numerical solutions of the partial differential equations describing the compressible laminar boundary layer are obtained by the finite difference method described in reports by I. Flugge-Lotz, D.C. Baxter, and this author. The solutions apply to steady-state supersonic flow without pressure gradient, over a cold wall and over an adiabatic wall, both having transpiration cooling upstream, and over an adiabatic wall with upstream cooling but without upstream transpiration. It is shown that for a given upstream wall temperature, upstream transpiration cooling affords much better protection to the adiabatic solid wall than does upstream cooling without transpiration. The results of the numerical solutions are compared with those of approximate solutions. The thermal results of the finite difference solution lie between the results of Rubesin and Inouye, and those of Libby and Pallone. When the skin-friction results of one finite difference solution are used in the thermal analysis of Rubesin and Inouye, improved agreement between the thermal results of the two methods of solution is obtained.

Genotype-Correlated Expression of Lysyl Oxidase-Like 1 in Ocular Tissues of Patients with Pseudoexfoliation Syndrome/Glaucoma and Normal Patients

PubMed Central

Schlötzer-Schrehardt, Ursula; Pasutto, Francesca; Sommer, Pascal; Hornstra, Ian; Kruse, Friedrich E.; Naumann, Gottfried O.H.; Reis, André; Zenkel, Matthias

2008-01-01

Pseudoexfoliation (PEX) syndrome is a generalized disease of the extracellular matrix and the most common identifiable cause of open-angle glaucoma. Two single nucleotide polymorphisms in the lysyl oxidase-like 1 (LOXL1) gene (rs1048661 and rs3825942) have been recently identified as strong genetic risk factors for both PEX syndrome and PEX glaucoma. Here we investigated the expression and localization of LOXL1, LOXL2, and lysyl oxidase (LOX) in tissues of PEX syndrome/glaucoma patients and controls in correlation with their individual single nucleotide polymorphism genotypes and stages of disease. LOXL1 ocular expression was reduced by ∼20% per risk allele of rs1048661, whereas risk alleles of rs3825942, which were highly overrepresented in PEX cases, did not affect LOXL1 expression levels. Irrespective of the individual genotype, LOXL1 expression was significantly increased in early PEX stages but was decreased in advanced stages both with and without glaucoma compared with controls, whereas LOX and LOXL2 showed no differences between groups. LOXL1 was also found to be a major component of fibrillar PEX aggregates in both intra- and extraocular locations and to co-localize with various elastic fiber components. These findings provide evidence for LOXL1 involvement in the initial stages of abnormal fibrogenesis in PEX tissues. Alterations of LOXL1 activation, processing, and/or substrate specificity may contribute to the abnormal aggregation of elastic fiber components into characteristic PEX fibrils. PMID:18974306

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

Hughes, Michael John; McConnaughhay, Johnie Franklin

A combustor includes a tube bundle that extends radially across at least a portion of the combustor. The tube bundle includes an upstream surface axially separated from a downstream surface, and a plurality of tubes extend from the upstream surface through the downstream surface to provide fluid communication through the tube bundle. A barrier extends radially inside the tube bundle between the upstream and downstream surfaces, and a baffle extends axially inside the tube bundle between the upstream surface and the barrier.

Rivers and reciprocity: perceptions and policy on international watercourses

NASA Astrophysics Data System (ADS)

Tian, Fuqiang

2017-04-01

The paper analyses geopolitical dimensions of the 1997 United Nations Convention on the Law of the NonNavigational Uses of International Watercourses (UNWC) using quantitative data on transboundary flows and qualitative data on basin State location within a watercourse. The UNWC has had a long and difficult history. A tendency for downstream support for, and upstream ambivalence/opposition to, the UNWC is identified. It appears not widely recognized that adverse effects can be caused by any State on other States, regardless of their upstream or downstream location. Thus downstream States consider that their actions cannot harm upstream States, and upstream States consider that the UNWC provides them with greater obligations than downstream States. Clarification of the UNWC with the principle of reciprocal obligations on all States, both upstream and downstream, will remove any ambiguity, correct misperceptions, have clear policy implications for all States, promote UNWC engagement of upstream States, and contribute to long-term global water security.

Identification of the first PAR1 deletion encompassing upstream SHOX enhancers in a family with idiopathic short stature.

PubMed

Benito-Sanz, Sara; Aza-Carmona, Miriam; Rodríguez-Estevez, Amaya; Rica-Etxebarria, Ixaso; Gracia, Ricardo; Campos-Barros, Angel; Heath, Karen E

2012-01-01

Short stature homeobox-containing gene, MIM 312865 (SHOX) is located within the pseudoautosomal region 1 (PAR1) of the sex chromosomes. Mutations in SHOX or its downstream transcriptional regulatory elements represent the underlying molecular defect in ~60% of Léri-Weill dyschondrosteosis (LWD) and ~5-15% of idiopathic short stature (ISS) patients. Recently, three novel enhancer elements have been identified upstream of SHOX but to date, no PAR1 deletions upstream of SHOX have been observed that only encompass these enhancers in LWD or ISS patients. We set out to search for genetic alterations of the upstream SHOX regulatory elements in 63 LWD and 100 ISS patients with no known alteration in SHOX or the downstream enhancer regions using a specifically designed MLPA assay, which covers the PAR1 upstream of SHOX. An upstream SHOX deletion was identified in an ISS proband and her affected father. The deletion was confirmed and delimited by array-CGH, to extend ~286 kb. The deletion included two of the upstream SHOX enhancers without affecting SHOX. The 13.3-year-old proband had proportionate short stature with normal GH and IGF-I levels. In conclusion, we have identified the first PAR1 deletion encompassing only the upstream SHOX transcription regulatory elements in a family with ISS. The loss of these elements may result in SHOX haploinsufficiency because of decreased SHOX transcription. Therefore, this upstream region should be included in the routine analysis of PAR1 in patients with LWD, LMD and ISS.

Identification of the first PAR1 deletion encompassing upstream SHOX enhancers in a family with idiopathic short stature

PubMed Central

Benito-Sanz, Sara; Aza-Carmona, Miriam; Rodríguez-Estevez, Amaya; Rica-Etxebarria, Ixaso; Gracia, Ricardo; Campos-Barros, Ángel; Heath, Karen E

2012-01-01

Short stature homeobox-containing gene, MIM 312865 (SHOX) is located within the pseudoautosomal region 1 (PAR1) of the sex chromosomes. Mutations in SHOX or its downstream transcriptional regulatory elements represent the underlying molecular defect in ∼60% of Léri-Weill dyschondrosteosis (LWD) and ∼5–15% of idiopathic short stature (ISS) patients. Recently, three novel enhancer elements have been identified upstream of SHOX but to date, no PAR1 deletions upstream of SHOX have been observed that only encompass these enhancers in LWD or ISS patients. We set out to search for genetic alterations of the upstream SHOX regulatory elements in 63 LWD and 100 ISS patients with no known alteration in SHOX or the downstream enhancer regions using a specifically designed MLPA assay, which covers the PAR1 upstream of SHOX. An upstream SHOX deletion was identified in an ISS proband and her affected father. The deletion was confirmed and delimited by array-CGH, to extend ∼286 kb. The deletion included two of the upstream SHOX enhancers without affecting SHOX. The 13.3-year-old proband had proportionate short stature with normal GH and IGF-I levels. In conclusion, we have identified the first PAR1 deletion encompassing only the upstream SHOX transcription regulatory elements in a family with ISS. The loss of these elements may result in SHOX haploinsufficiency because of decreased SHOX transcription. Therefore, this upstream region should be included in the routine analysis of PAR1 in patients with LWD, LMD and ISS. PMID:22071895

Comparing Psychosocial Correlates of Condomless Anal Sex in HIV-Diagnosed and HIV-Nondiagnosed Men Who Have Sex with Men: A Series of Meta-Analyses of Studies from 1993-2013.

PubMed

Lacefield, Katharine; Negy, Charles; Schrader, Ronald M; Kuhlman, Christina

2015-09-01

Men who have sex with men (MSM) continue to be overrepresented in rates of incidence and prevalence of human immunodeficiency virus (HIV). Both HIV-diagnosed (HIV-D) and HIV-nondiagnosed (HIV-N) MSM report a variety of reasons for intentional and unintentional nonuse of condoms. Elucidating and comparing reasons for continued engagement in condomless anal sex specific to both HIV-D and HIV-N MSM likely is important to identifying effective prevention. This study employed meta-analytic methods to evaluate and compare correlates to condomless anal sex in both HIV-D and HIV-N MSM from primary studies from 1993 to February 2013. Of the 19 individual correlates assessed within the subgroup of HIV-D MSM, variables that achieved significant effect were alcohol, mind-altering substance use, sexual-enhancement medication, intentional condom nonuse, self-efficacy, attitudes toward condom use, social support, gay identity, compulsivity, trading sex, and number of sex partners. Those that were statistically non-significant were intention to use a condom, perceived risk, perceived norms, perceived responsibility, HIV medical management, treatment optimism, mental health, and setting. Of the 12 correlates assessed within the subgroup of HIV-N MSM, variables that achieved significant effect were alcohol, mind-altering substance use, intentional condom nonuse, attitudes toward condom use, perceived risk, and setting. Those observed as statistically non-significant were perceived norms, social support, gay identity, mental health, trading sex, and number of sex partners. Study results have clinical implications that may guide future prevention research and practice by highlighting risk variables shared between HIV-N and HIV-D MSM, as well as variables observed to be unique to each group that may warrant more tailored intervention. Further investigation is recommended to elucidate the relationships among these variables such that optimal intervention can be determined.

Optical power equalization for upstream traffic with injection-locked Fabry-Perot lasers in TDM-PON

NASA Astrophysics Data System (ADS)

Huang, Ting-Tsan; Sheu, Lih-Gen; Chi, Sien

2010-10-01

An optical power equalization of upstream traffic in time-division-multiplexed passive optical network (TDM-PON) based on injection-locked Fabry-Perot lasers has been experimentally investigated. The upstream transmitters with stable spectrum are achieved by using an external injection light source in the optical line terminal (OLT). The different upstream powers can be equalized by injection locking a Fabry-Perot laser diode (FP-LD) biased below threshold current in OLT. The dynamic upstream power range from - 8.5 to - 19.5 db m is reduced to a 1.6 dB maximal power variation, when the uplink signal is directly modulated at 1.25 Gb/s.

Noise generated by flow through large butterfly valves

NASA Technical Reports Server (NTRS)

Huff, Ronald G.

1987-01-01

A large butterfly valve (1.37 m diam) was acoustically tested to measure the noise generated and propagating in both the upstream and downstream directions. The experimental investigation used wall mounted pressure transducers to measure the fluctuating component of the pipe static pressure upstream and downstream of the valve. Microphones upstream of the pipe inlet and located in a plenum were used to measure the noise radiated from the valve in the upstream direction. Comparison of the wall pressure downstream of the valve to a prediction were made. Reasonable agreement was obtained with the valve operating at a choked condition. The noise upstream of the valve is 30 dB less than that measured downstream.

Energetic particle diffusion coefficients upstream of quasi-parallel interplanetary shocks

NASA Technical Reports Server (NTRS)

Tan, L. C.; Mason, G. M.; Gloeckler, G.; Ipavich, F. M.

1989-01-01

The properties of about 30 to 130-keV/e protons and alpha particles upstream of six quasi-parallel interplanetary shocks that passed by the ISEE 3 spacecraft during 1978-1979 were analyzed, and the values for the upstream energegic particle diffusion coefficient, kappa, in these six events were deduced for a number of energies and upstream positions. These observations were compared with predictions of Lee's (1983) theory of shock acceleration. It was found that the observations verified the prediction of the A/Q dependence (where A and Q are the particle atomic mass and ionization state, respectively) of kappa for alpha and proton particles upstream of the quasi-parallel shocks.

Overrepresented Minorities in Special Education in the United States and Romania: Comparison between African-American and Roma Populations in Disability Studies

ERIC Educational Resources Information Center

Walker, Gabriela

2008-01-01

This manuscript briefly examines minority participation within the school population that is eligible for special education services--namely, African Americans in the United States and the Roma population in Romania. A large percentage of students from both minorities come to school unprepared to learn and they remain behind because of the…

Basic Facts about Low-Income Children: Children 6 through 11 Years, 2015. Fact Sheet

ERIC Educational Resources Information Center

Jiang, Yang; Granja, Maribel R.; Koball, Heather

2017-01-01

Among all children under 18 years in the U.S., 43 percent live in low-income families and 21 percent--approximately one in five--lives in a poor family. This means that children are overrepresented among our nation's poor; they represent 23 percent of the population but comprise 33 percent of all people in poverty. Many more children live in…

Does HPA-Axis Dysregulation Account for the Effects of Income on Effortful Control and Adjustment in Preschool Children?

ERIC Educational Resources Information Center

Lengua, Liliana J.; Zalewski, Maureen; Fisher, Phil; Moran, Lyndsey

2013-01-01

The effects of low income on children's adjustment might be accounted for by disruptions to hypothalamic-pituitary-adrenal (HPA)-axis activity and to the development of effortful control. Using longitudinal data and a community sample of preschool-age children (N?=?306, 36-39?months) and their mothers, recruited to over-represent low-income…

Basic Facts about Low-Income Children: Children under 18 Years, 2015. Fact Sheet

ERIC Educational Resources Information Center

Jiang, Yang; Granja, Maribel R.; Koball, Heather

2017-01-01

Among all children under 18 years in the U.S., 43 percent live in low-income families and 21 percent--approximately one in five--lives in a poor family. This means that children are overrepresented among our nation's poor; they represent 23 percent of the population but comprise 33 percent of all people in poverty. Many more children live in…

Basic Facts about Low-Income Children: Children under 3 Years, 2015. Fact Sheet

ERIC Educational Resources Information Center

Jiang, Yang; Granja, Maribel R.; Koball, Heather

2017-01-01

Among all children under 18 years in the U.S., 43 percent live in low-income families and 21 percent--approximately one in five--lives in a poor family. This means that children are overrepresented among our nation's poor; they represent 23 percent of the population but comprise 33 percent of all people in poverty. Many more children live in…

Basic Facts about Low-Income Children: Children under 6 Years, 2015. Fact Sheet

ERIC Educational Resources Information Center

Jiang, Yang; Granja, Maribel R.; Koball, Heather

2017-01-01

Among all children under 18 years in the U.S., 43 percent live in low-income families and 21 percent--approximately one in five--lives in a poor family. This means that children are overrepresented among our nation's poor; they represent 23 percent of the population but comprise 33 percent of all people in poverty. Many more children live in…

Basic Facts about Low-Income Children: Children 12 through 17 Years, 2015. Fact Sheet

ERIC Educational Resources Information Center

Jiang, Yang; Granja, Maribel R.; Koball, Heather

2017-01-01

Among all children under 18 years in the U.S., 43 percent live in low-income families and 21 percent--approximately one in five--lives in a poor family. This means that children are overrepresented among our nation's poor; they represent 23 percent of the population but comprise 33 percent of all people in poverty. Many more children live in…

Men Managing, Not Teaching Foundation Phase: Teachers, Masculinity and the Early Years of Primary Schooling

ERIC Educational Resources Information Center

Moosa, Shaaista; Bhana, Deevia

2017-01-01

In this article we argue that eliminating the divisions of labour between men and women could work towards counteracting gender inequality within professions. Globally women are over-represented in the teaching of young children in the early years of primary school, or Foundation Phase (FP), as it is known in South Africa. We are concerned to go…

Improving Outcomes for Teenage Pregnancy and Early Parenthood for Young People in Out-of-Home Care: A Review of the Literature

ERIC Educational Resources Information Center

Mendes, Philip

2009-01-01

Young people leaving out-of-home care are overrepresented among teenage parents. This paper examines the research literature and identifies key factors that contribute to early pregnancy and parenthood for care leavers, the challenges of early parenting and the positive effects of early parenting. The implications for out-of-home care policy and…

Younger Children Experience Lower Levels of Language Competence and Academic Progress in the First Year of School: Evidence from a Population Study

ERIC Educational Resources Information Center

Norbury, Courtenay Frazier; Gooch, Debbie; Baird, Gillian; Charman, Tony; Simonoff, Emily; Pickles, Andrew

2016-01-01

Background: The youngest children in an academic year are reported to be educationally disadvantaged and overrepresented in referrals to clinical services. In this study we investigate for the first time whether these disadvantages are indicative of a mismatch between language competence at school entry and the academic demands of the classroom.…

LEAping to conclusions: a computational reanalysis of late embryogenesis abundant proteins and their possible roles.

PubMed

Wise, Michael J

2003-10-29

The late embryogenesis abundant (LEA) proteins cover a number of loosely related groups of proteins, originally found in plants but now being found in non-plant species. Their precise function is unknown, though considerable evidence suggests that LEA proteins are involved in desiccation resistance. Using a number of statistically-based bioinformatics tools the classification of a large set of LEA proteins, covering all Groups, is reexamined together with some previous findings. Searches based on peptide composition return proteins with similar composition to different LEA Groups; keyword clustering is then applied to reveal keywords and phrases suggestive of the Groups' properties. Previous research has suggested that glycine is characteristic of LEA proteins, but it is only highly over-represented in Groups 1 and 2, while alanine, thought characteristic of Group 2, is over-represented in Group 3, 4 and 6 but under-represented in Groups 1 and 2. However, for LEA Groups 1 2 and 3 it is shown that glutamine is very significantly over-represented, while cysteine, phenylalanine, isoleucine, leucine and tryptophan are significantly under-represented. There is also evidence that the Group 4 LEA proteins are more appropriately redistributed to Group 2 and Group 3. Similarly, Group 5 is better found among the Group 3 LEA proteins. There is evidence that Group 2 and Group 3 LEA proteins, though distinct, might be related. This relationship is also evident in the overlapping sets of keywords for the two Groups, emphasising alpha-helical structure and, at a larger scale, filaments, all of which fits well with experimental evidence that proteins from both Groups are natively unstructured, but become structured under stress conditions. The keywords support localisation of LEA proteins both in the nucleus and associated with the cytoskeleton, and a mode of action similar to chaperones, perhaps the cold shock chaperones, via a role in DNA-binding. In general, non-globular and low-complexity proteins, such as the LEA proteins, pose particular challenges in determining their functions and modes of action. Rather than masking off and ignoring low-complexity domains, novel tools and tool combinations are needed which are capable of analysing such proteins in their entirety.

Jet outflow and gamma-ray emission correlations in S5 0716+714

DOE PAGES

Rani, B.; Krichbaum, T. P.; Marscher, A. P.; ...

2014-11-06

Here, using millimeter very long baseline interferometry (VLBI) observations of the BL Lac object S5 0716+714 from August 2008 to September 2013, we investigate variations in the core flux density and orientation of the sub-parsec scale jet, i.e. position angle. The γ-ray data obtained by the Fermi Large Area Telescope are used to investigate the high-energy flux variations over the same time period. For the first time in any blazar, we report a significant correlation between the γ-ray flux variations and the position angle variations in the VLBI jet. The cross-correlation analysis also indicates a positive correlation such that themore » mm-VLBI core flux density variations are delayed with respect to the γ-ray flux by 82±32 days. This suggests that the high-energy emission is coming from a region located ≥(3.8±1.9) parsecs upstream of the mm-VLBI core (closer to the central black hole). Lastly, these results imply that the observed inner jet morphology has a strong connection with the observed γ-ray flares.« less

The large-scale ionospheric transient current system response to upstream solar wind IMF Bz north-south and south-north turnings as seen by the WIND satellite and the full SuperMAG network of ground based magnetometers

NASA Astrophysics Data System (ADS)

Dods, Joe; Chapman, Sandra; Gjerloev, Jesper

2017-04-01

We characterise the response of the quiet-time (no substorms or storms) large scale ionospheric convection system to north-south and south-north IMF turnings by using a dynamical network of ground-based magnetometers. Canonical correlation between all pairs of SuperMAG magnetometer stations in the northern hemisphere (MLat 50-82°) is used to establish the extent of near-simultaneous magnetic response between regions of MLT-MLat. Parameters and maps that describe spatial-temporal correlation are used to characterise the system and its response to the turnings aggregated over several hundred events. We find that regions that experience large increases in correlation post-turning coincide with typical locations of a two cell convection system and are influenced by the IMF By. The time between the turnings reaching the magnetopause and a network response is found to be ˜8-10 minutes and correlation in the dayside occurs 2-8 mins before that in the nightside.

Jet outflow and gamma-ray emission correlations in S5 0716+714

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

Rani, B.; Krichbaum, T. P.; Marscher, A. P.

Here, using millimeter very long baseline interferometry (VLBI) observations of the BL Lac object S5 0716+714 from August 2008 to September 2013, we investigate variations in the core flux density and orientation of the sub-parsec scale jet, i.e. position angle. The γ-ray data obtained by the Fermi Large Area Telescope are used to investigate the high-energy flux variations over the same time period. For the first time in any blazar, we report a significant correlation between the γ-ray flux variations and the position angle variations in the VLBI jet. The cross-correlation analysis also indicates a positive correlation such that themore » mm-VLBI core flux density variations are delayed with respect to the γ-ray flux by 82±32 days. This suggests that the high-energy emission is coming from a region located ≥(3.8±1.9) parsecs upstream of the mm-VLBI core (closer to the central black hole). Lastly, these results imply that the observed inner jet morphology has a strong connection with the observed γ-ray flares.« less

How downstream sub-basins depend on upstream inflows to avoid scarcity: typology and global analysis of transboundary rivers

NASA Astrophysics Data System (ADS)

Munia, Hafsa Ahmed; Guillaume, Joseph H. A.; Mirumachi, Naho; Wada, Yoshihide; Kummu, Matti

2018-05-01

Countries sharing river basins are often dependent upon water originating outside their boundaries; meaning that without that upstream water, water scarcity may occur with flow-on implications for water use and management. We develop a formalisation of this concept drawing on ideas about the transition between regimes from resilience literature, using water stress and water shortage as indicators of water scarcity. In our analytical framework, dependency occurs if water from upstream is needed to avoid scarcity. This can be diagnosed by comparing different types of water availability on which a sub-basin relies, in particular local runoff and upstream inflows. At the same time, possible upstream water withdrawals reduce available water downstream, influencing the latter water availability. By developing a framework of scarcity and dependency, we contribute to the understanding of transitions between system regimes. We apply our analytical framework to global transboundary river basins at the scale of sub-basin areas (SBAs). Our results show that 1175 million people live under water stress (42 % of the total transboundary population). Surprisingly, the majority (1150 million) of these currently suffer from stress only due to their own excessive water use and possible water from upstream does not have impact on the stress status - i.e. they are not yet dependent on upstream water to avoid stress - but could still impact on the intensity of the stress. At the same time, 386 million people (14 %) live in SBAs that can avoid stress owing to available water from upstream and have thus upstream dependency. In the case of water shortage, 306 million people (11 %) live in SBAs dependent on upstream water to avoid possible shortage. The identification of transitions between system regimes sheds light on how SBAs may be affected in the future, potentially contributing to further refined analysis of inter- and intrabasin hydro-political power relations and strategic planning of management practices in transboundary basins.

Recent dynamic changes on Fleming Glacier after the disintegration of Wordie Ice Shelf, Antarctic Peninsula

NASA Astrophysics Data System (ADS)

Friedl, Peter; Seehaus, Thorsten C.; Wendt, Anja; Braun, Matthias H.; Höppner, Kathrin

2018-04-01

The Antarctic Peninsula is one of the world's regions most affected by climate change. Several ice shelves have retreated, thinned or completely disintegrated during recent decades, leading to acceleration and increased calving of their tributary glaciers. Wordie Ice Shelf, located in Marguerite Bay at the south-western side of the Antarctic Peninsula, completely disintegrated in a series of events between the 1960s and the late 1990s. We investigate the long-term dynamics (1994-2016) of Fleming Glacier after the disintegration of Wordie Ice Shelf by analysing various multi-sensor remote sensing data sets. We present a dense time series of synthetic aperture radar (SAR) surface velocities that reveals a rapid acceleration of Fleming Glacier in 2008 and a phase of further gradual acceleration and upstream propagation of high velocities in 2010-2011.The timing in acceleration correlates with strong upwelling events of warm circumpolar deep water (CDW) into Wordie Bay, most likely leading to increased submarine melt. This, together with continuous dynamic thinning and a deep subglacial trough with a retrograde bed slope close to the terminus probably, has induced unpinning of the glacier tongue in 2008 and gradual grounding line retreat between 2010 and 2011. Our data suggest that the glacier's grounding line had retreated by ˜ 6-9 km between 1996 and 2011, which caused ˜ 56 km2 of the glacier tongue to go afloat. The resulting reduction in buttressing explains a median speedup of ˜ 1.3 m d-1 ( ˜ 27 %) between 2008 and 2011, which we observed along a centre line extending between the grounding line in 1996 and ˜ 16 km upstream. Current median ice thinning rates (2011-2014) along profiles in areas below 1000 m altitude range between ˜ 2.6 to 3.2 m a-1 and are ˜ 70 % higher than between 2004 and 2008. Our study shows that Fleming Glacier is far away from approaching a new equilibrium and that the glacier dynamics are not primarily controlled by the loss of the former ice shelf anymore. Currently, the tongue of Fleming Glacier is grounded in a zone of bedrock elevation between ˜ -400 and -500 m. However, about 3-4 km upstream modelled bedrock topography indicates a retrograde bed which transitions into a deep trough of up to ˜ -1100 m at ˜ 10 km upstream. Hence, this endangers upstream ice masses, which can significantly increase the contribution of Fleming Glacier to sea level rise in the future.

Study on Rainfall Forecasting by Using Weather Satellite Imagery in a Small Watershed Located at Mountainous Area of Central Taiwan

NASA Astrophysics Data System (ADS)

Wei, C.; Cheng, K. S.

Using meteorological radar and satellite imagery had become an efficient tool for rainfall forecasting However few studies were aimed to predict quantitative rainfall in small watersheds for flood forecasting by using remote sensing data Due to the terrain shelter and ground clutter effect of Central Mountain Ridges the application of meteorological radar data was limited in mountainous areas of central Taiwan This study devises a new scheme to predict rainfall of a small upstream watershed by combing GOES-9 geostationary weather satellite imagery and ground rainfall records which can be applied for local quantitative rainfall forecasting during periods of typhoon and heavy rainfall Imagery of two typhoon events in 2004 and five correspondent ground raingauges records of Chitou Forest Recreational Area which is located in upstream region of Bei-Shi river were analyzed in this study The watershed accounts for 12 7 square kilometers and altitudes ranging from 1000 m to 1800 m Basin-wide Average Rainfall BAR in study area were estimated by block kriging Cloud Top Temperature CTT from satellite imagery and ground hourly rainfall records were medium correlated The regression coefficient ranges from 0 5 to 0 7 and the value decreases as the altitude of the gauge site increases The regression coefficient of CCT and next 2 to 6 hour accumulated BAR decrease as the time scale increases The rainfall forecasting for BAR were analyzed by Kalman Filtering Technique The correlation coefficient and average hourly deviates between estimated and observed value of BAR for

Influence of rice field agrochemicals on the ecological status of a tropical stream.

PubMed

Rasmussen, Jes Jessen; Reiler, Emilie Marie; Carazo, Elizabeth; Matarrita, Jessie; Muñoz, Alejandro; Cedergreen, Nina

2016-01-15

Many tropical countries contain a high density of protected ecosystems, and these may often be bordered by intensive agricultural systems. We investigated the chemical and ecological status of a stream connecting an area with conventional rice production and a downstream protected nature reserve; Mata Redonda. Three sites were sampled: 1) an upstream control, 2) in the rice production area and 3) a downstream site in Mata Redonda. We sampled benthic macroinvertebrates and pesticides in water and sediments along with supporting physical and chemical data. Pesticide concentrations in water exceeded current safety thresholds at sites 2 and 3, especially during the rainy season, and sediment associated pesticide concentrations exceeded current safety thresholds in three of six samples. Importantly, the highest predicted pesticide toxicity in sediments was observed at site 3 in the Mata Redonda confirming that the nature reserve received critical levels of pesticide pollution from upstream sections. The currently used macroinvertebrate index in Costa Rica (BMWP-CR) and an adjusted version of the SPecies At Risk index (SPEAR) were not significantly correlated to any measure of anthropogenic stress, but the Average Score Per Taxon (ASPT) index was significantly correlated with the predicted pesticide toxicity (sumTUD.magna), oxygen concentrations and substrate composition. Our results suggest that pesticide pollution was likely involved in the impairment of the ecological status of the sampling sites, including site 3 in Mata Redonda. Based on our results, we give guidance to biomonitoring in Costa Rica and call for increased focus on pesticide transport from agricultural regions to protected areas. Copyright © 2015 Elsevier B.V. All rights reserved.

Geoeffectiveness (D (sub st) and K (sub p)) of Interplanetary Coronal Mass Ejections During 1995-2009 and Implications for Storm Forecasting

NASA Technical Reports Server (NTRS)

Richardson, I. G.; Cane, H. V.

2011-01-01

We summarize the geoeffectiveness (based on the Dst and Kp indices) of the more than 300 interplanetary coronal mass ejections (ICMEs) that passed the Earth during 1996-2009, encompassing solar cycle 23. We subsequently estimate the probability that an ICME will generate geomagnetic activity that exceeds certain thresholds of Dst or Kp, including the NOAA "G" storm scale, based on maximum values of the southward magnetic field component (Bs), the solar wind speed (V), and the y component (Ey) of the solar wind convective electric field E = -V x B, in the ICME or sheath ahead of the ICME. Consistent with previous studies, the geoeffectiveness of an ICME is correlated with Bs or Ey approx.= VBs in the ICME or sheath, indicating that observations from a solar wind monitor upstream of the Earth are likely to provide the most reliable forecasts of the activity associated with an approaching ICME. There is also a general increase in geoeffectiveness with ICME speed, though the overall event-to-event correlation is weaker than for Bs and Ey. Nevertheless, using these results, we suggest that the speed of an ICME approaching the Earth inferred, for example, from routine remote sensing by coronagraphs on spacecraft well separated from the Earth or by all-sky imagers, could be used to estimate the likely geoeffectiveness of the ICME (our "comprehensive" ICME database provides a proxy for ICMEs identified in this way) with a longer lead time than may be possible using an upstream monitor

Strategies to optimize monitoring schemes of recreational waters from Salta, Argentina: a multivariate approach

PubMed Central

Gutiérrez-Cacciabue, Dolores; Teich, Ingrid; Poma, Hugo Ramiro; Cruz, Mercedes Cecilia; Balzarini, Mónica; Rajal, Verónica Beatriz

2014-01-01

Several recreational surface waters in Salta, Argentina, were selected to assess their quality. Seventy percent of the measurements exceeded at least one of the limits established by international legislation becoming unsuitable for their use. To interpret results of complex data, multivariate techniques were applied. Arenales River, due to the variability observed in the data, was divided in two: upstream and downstream representing low and high pollution sites, respectively; and Cluster Analysis supported that differentiation. Arenales River downstream and Campo Alegre Reservoir were the most different environments and Vaqueros and La Caldera Rivers were the most similar. Canonical Correlation Analysis allowed exploration of correlations between physicochemical and microbiological variables except in both parts of Arenales River, and Principal Component Analysis allowed finding relationships among the 9 measured variables in all aquatic environments. Variable’s loadings showed that Arenales River downstream was impacted by industrial and domestic activities, Arenales River upstream was affected by agricultural activities, Campo Alegre Reservoir was disturbed by anthropogenic and ecological effects, and La Caldera and Vaqueros Rivers were influenced by recreational activities. Discriminant Analysis allowed identification of subgroup of variables responsible for seasonal and spatial variations. Enterococcus, dissolved oxygen, conductivity, E. coli, pH, and fecal coliforms are sufficient to spatially describe the quality of the aquatic environments. Regarding seasonal variations, dissolved oxygen, conductivity, fecal coliforms, and pH can be used to describe water quality during dry season, while dissolved oxygen, conductivity, total coliforms, E. coli, and Enterococcus during wet season. Thus, the use of multivariate techniques allowed optimizing monitoring tasks and minimizing costs involved. PMID:25190636

Performance Enhancement by Threshold Level Control of a Receiver in WDM-PON System with Manchester Coded Downstream and NRZ Upstream Re-Modulation

NASA Astrophysics Data System (ADS)

Kim, Bong Kyu; Chung, Hwan Seok; Chang, Sun Hyok; Park, Sangjo

We propose and demonstrate a scheme enhancing the performance of optical access networks with Manchester coded downstream and re-modulated NRZ coded upstream. It is achieved by threshold level control of a limiting amplifier at a receiver, and the minimum sensitivity of upstream is significantly improved for the re-modulation scheme with 5Gb/s Manchester coded downstream and 2.488Gb/s NRZ upstream data rates.

Genetic diversity among the Eurytemora affinis species complex in the Scheldt estuary and its tributaries using ISSR-PCR marker assay

NASA Astrophysics Data System (ADS)

Gasmi, S.; Ferval, M.; Pelissier, C.; D'Amico, F.; Maris, T.; Tackx, M.; Legal, L.

2014-05-01

As an estuary being restored, the Scheldt (Belgium/The Netherlands) offers an interesting setting to study the response of organisms and ecosystems to changing conditions. This study specifically deals with this with regard to the spatio-temporal distribution and possible genetic differentiation among the species complex Eurytemora affinis (copepoda, calanoida). Until the 1990s, E. affinis typically occurred downstream the Scheldt estuary (Belgium/The Netherlands). In parallel to water quality improvement, E.affinis has recently also occurred upstream the estuary and in some of the tributaries. This paper aims to assess the origin of the copepod sibling species complex E. affinis occurring upstream the Scheldt estuary through genetic characterization. Using the Inter Simple Sequence Repeat (ISSR) technique, we explored genetic pools of the E. affinis complex in three Scheldt localities (downstream, middle-estuary and upstream) and two of its tributaries. Four ISSR primers produced 75 polymorphic loci. Bayesian and hierarchical analysis revealed different but close genetic entities in both down and upstream localities. The middle-estuary individuals were genetically a composite mix of downstream and upstream populations (84% from downstream and 16% from upstream). A distinctive separation of the tributaries and the main Scheldt stream populations suggests that two fully independent genetic pools are present. It is of note that the tributaries showed a lack of genetic subdivision, that upstream and downstream E. affinis populations are closely related, and that the downstream population is most likely at the origin of the upstream one, which implies the necessity to guarantee sufficient oxygen concentration levels throughout the estuarine continuum to guarantee the presence of this species upstream. The results of the ISSR technique are discussed in comparison with genetic studies on E. affinis using COI barcoding.

Temporal factors in violence related injuries--An 11 year trend analysis of violence-related injuries from a Swiss Emergency Department.

PubMed

Clément, Nicolas; Businger, Adrian; Lindner, Gregor; Müller, Wolfgang P; Hüsler, J; Zimmermann, Heinz; Exadaktylos, Aristomenis K

2012-12-01

Injury from interpersonal violence is a major social and medical problem in the industrialized world. Little is known about the trends in prevalence and injury pattern or about the demographic characteristics of the patients involved. In this retrospective analysis, we screened the database of the Emergency Department of a large university hospital for all patients who were admitted for injuries due to interpersonal violence over an 11 year period. For all patients identified, we gathered data on age, country of origin, quality of injury, and hospitalization or outpatient management. A trend analysis was performed using Kendall's tau-b correlation coefficients for regression analysis. The overall number of patients admitted to our Emergency Department remained stable over the study period. Non-Swiss nationals were overrepresented in comparison to the demographics of the region where the study was conducted. There was a trend toward a more severe pattern of injury, such as an increase in the number of severe head injuries. Although the overall number of patients remained stable over the study period, there was an alarming trend toward a more severe pattern of injury, expressed by an increase in severe head traumas.

[Not enough help for themselves--the risk of physicians to commit suicide].

PubMed

Püschel, Klaus; Schalinski, Sarah

2006-01-01

Physicians seem unwilling to deal with their own suicidal problems professionally. Suicide is a repressed topic. According to international studies, medical students and physicians are clearly over-represented among suicide victims. Committing suicide stands in sharp contrast to the positive image physicians enjoy as competent, strong helpers transmitting positive energy. Various studies and meta-analyses show that physicians use knowledge specific to their profession and are therefore "more successful" than the general population in committing suicide. Moreover, the data reveal a number of risk factors specifically correlating with medical practice. This is confirmed by an increased number of suicides during medical training and professional life in comparison with the general population. Gender-specific analyses show an even higher suicide risk for female physicians. In this context it cannot be excluded that out of "professional respect" cardiovascular causes of death are sometimes falsely documented in death certificates instead of suicide. Despite their special education, physicians are not very good at diagnosing their own emotional disorders and asking colleagues for adequate professional help. They rather tend to camouflage their own psychological problems also because they are afraid of occupational and personal discrimination.

Intestinal bacterial signatures of white feces syndrome in shrimp.

PubMed

Hou, Dongwei; Huang, Zhijian; Zeng, Shenzheng; Liu, Jian; Wei, Dongdong; Deng, Xisha; Weng, Shaoping; Yan, Qingyun; He, Jianguo

2018-04-01

Increasing evidence suggests that the intestinal microbiota is closely correlated with the host's health status. Thus, a serious disturbance that disrupts the stability of the intestinal microecosystem could cause host disease. Shrimps are one of the most important products among fishery trading commodities. However, digestive system diseases, such as white feces syndrome (WFS), frequently occur in shrimp culture and have led to enormous economic losses across the world. The WFS occurrences are unclear. Here, we compared intestinal bacterial communities of WFS shrimp and healthy shrimp. Intestinal bacterial communities of WFS shrimp exhibited less diversity but were more heterogeneous than those of healthy shrimp. The intestinal bacterial communities were significantly different between WFS shrimp and healthy shrimp; compared with healthy shrimp, in WFS shrimp, Candidatus Bacilloplasma and Phascolarctobacterium were overrepresented, whereas Paracoccus and Lactococcus were underrepresented. PICRUSt functional predictions indicated that the relative abundances of genes involved in energy metabolism and genetic information processing were significantly greater in WFS shrimp. Collectively, we found that the composition and predicted functions of the intestinal bacterial community were markedly shifted by WFS. Significant increases in Candidatus Bacilloplasma and Phascolarctobacterium and decreases in Paracoccus and Lactococcus may contribute to WFS in shrimp.

Genome differentiation of Drosophila melanogaster from a microclimate contrast in Evolution Canyon, Israel

PubMed Central

Hübner, Sariel; Rashkovetsky, Eugenia; Kim, Young Bun; Oh, Jung Hun; Michalak, Katarzyna; Weiner, Dmitry; Korol, Abraham B.; Nevo, Eviatar; Michalak, Pawel

2013-01-01

The opposite slopes of “Evolution Canyon” in Israel have served as a natural model system of adaptation to a microclimate contrast. Long-term studies of Drosophila melanogaster populations inhabiting the canyon have exhibited significant interslope divergence in thermal and drought stress resistance, candidate genes, mobile elements, habitat choice, mating discrimination, and wing-shape variation, all despite close physical proximity of the contrasting habitats, as well as substantial interslope migration. To examine patterns of genetic differentiation at the genome-wide level, we used high coverage sequencing of the flies’ genomes. A total of 572 genes were significantly different in allele frequency between the slopes, 106 out of which were associated with 74 significantly overrepresented gene ontology (GO) terms, particularly so with response to stimulus and developmental and reproductive processes, thus corroborating previous observations of interslope divergence in stress response, life history, and mating functions. There were at least 37 chromosomal “islands” of interslope divergence and low sequence polymorphism, plausible signatures of selective sweeps, more abundant in flies derived from one (north-facing) of the slopes. Positive correlation between local recombination rate and the level of nucleotide polymorphism was also found. PMID:24324170

A VEGF-dependent gene signature enriched in mesenchymal ovarian cancer predicts patient prognosis.

PubMed

Yin, Xia; Wang, Xiaojie; Shen, Boqiang; Jing, Ying; Li, Qing; Cai, Mei-Chun; Gu, Zhuowei; Yang, Qi; Zhang, Zhenfeng; Liu, Jin; Li, Hongxia; Di, Wen; Zhuang, Guanglei

2016-08-08

We have previously reported surrogate biomarkers of VEGF pathway activities with the potential to provide predictive information for anti-VEGF therapies. The aim of this study was to systematically evaluate a new VEGF-dependent gene signature (VDGs) in relation to molecular subtypes of ovarian cancer and patient prognosis. Using microarray profiling and cross-species analysis, we identified 140-gene mouse VDGs and corresponding 139-gene human VDGs, which displayed enrichment of vasculature and basement membrane genes. In patients who received bevacizumab therapy and showed partial response, the expressions of VDGs (summarized to yield VDGs scores) were markedly decreased in post-treatment biopsies compared with pre-treatment baselines. In contrast, VDGs scores were not significantly altered following bevacizumab treatment in patients with stable or progressive disease. Analysis of VDGs in ovarian cancer showed that VDGs as a prognostic signature was able to predict patient outcome. Correlation estimation of VDGs scores and molecular features revealed that VDGs was overrepresented in mesenchymal subtype and BRCA mutation carriers. These findings highlighted the prognostic role of VEGF-mediated angiogenesis in ovarian cancer, and proposed a VEGF-dependent gene signature as a molecular basis for developing novel diagnostic strategies to aid patient selection for VEGF-targeted agents.

Rain Rate from IMERG as a Predictor for Salinity Stratification in the Upper Meter of the Ocean during SPURS-2 Rain Events

NASA Astrophysics Data System (ADS)

Thompson, E. J.; Asher, W.; Drushka, K.; Schanze, J. J.; Jessup, A. T.; Clark, D.

2016-12-01

Rain can produce a lens of fresher and generally colder, less dense water at the ocean surface. These stable surface layers concentrate heat, freshwater, and momentum into a thin layer and reduce the exchange of these properties between the surface layer and deeper water, which can impact regional freshwater storage and air-sea fluxes of heat and moisture. Although in situ observations have shown that fresh lenses are common in the presence of rain, attempts to correlate the magnitude and lifetime of the surface freshening with rain rate using field data have not produced a definitive relationship. The reasons for this are most likely that in situ rain rate measurements represent the freshwater flux to the ocean surface at a single point in space and time, whereas the fresh lens is the result of the integrated rainfall over time and space, convoluted with the evolution of the fresh lens. Therefore, it is possible that integrated, upstream rainfall estimates might provide a better correlate for the presence of fresh lenses than in situ measurements at a point. This hindcast study seeks to determine the utility of NASA GPM IMERG satellite measurements of rain relative to in situ collocated rain measurements in predicting the occurrence and duration of 0-1 m freshwater stabilization of the ocean. Vertical gradients of temperature, salinity, and density between the surface and at most a few meters were measured using towed profilers and underway sampling during the 2016 SPURS-2 experiment conducted in the tropical east Pacific Ocean. Local wind speed was also measured and taken into account. These measurements were used to determine whether local or integrated upstream precipitation metrics could better predict the occurrence of rain-generated lenses of fresher water at the ocean surface and whether the strength and duration of rain events was correlated with the observed lifetime of fresh lenses.

An intergenic non-coding rRNA correlated with expression of the rRNA and frequency of an rRNA single nucleotide polymorphism in lung cancer cells.

PubMed

Shiao, Yih-Horng; Lupascu, Sorin T; Gu, Yuhan D; Kasprzak, Wojciech; Hwang, Christopher J; Fields, Janet R; Leighty, Robert M; Quiñones, Octavio; Shapiro, Bruce A; Alvord, W Gregory; Anderson, Lucy M

2009-10-19

Ribosomal RNA (rRNA) is a central regulator of cell growth and may control cancer development. A cis noncoding rRNA (nc-rRNA) upstream from the 45S rRNA transcription start site has recently been implicated in control of rRNA transcription in mouse fibroblasts. We investigated whether a similar nc-rRNA might be expressed in human cancer epithelial cells, and related to any genomic characteristics. Using quantitative rRNA measurement, we demonstrated that a nc-rRNA is transcribed in human lung epithelial and lung cancer cells, starting from approximately -1000 nucleotides upstream of the rRNA transcription start site (+1) and extending at least to +203. This nc-rRNA was significantly more abundant in the majority of lung cancer cell lines, relative to a nontransformed lung epithelial cell line. Its abundance correlated negatively with total 45S rRNA in 12 of 13 cell lines (P = 0.014). During sequence analysis from -388 to +306, we observed diverse, frequent intercopy single nucleotide polymorphisms (SNPs) in rRNA, with a frequency greater than predicted by chance at 12 sites. A SNP at +139 (U/C) in the 5' leader sequence varied among the cell lines and correlated negatively with level of the nc-rRNA (P = 0.014). Modelling of the secondary structure of the rRNA 5'-leader sequence indicated a small increase in structural stability due to the +139 U/C SNP and a minor shift in local configuration occurrences. The results demonstrate occurrence of a sense nc-rRNA in human lung epithelial and cancer cells, and imply a role in regulation of the rRNA gene, which may be affected by a +139 SNP in the 5' leader sequence of the primary rRNA transcript.

Source Population and Acceleration Location of Suprathermal Heavy Ions in Corotating Interaction Regions

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

Filwett, R. J.; Desai, M. I.; Dayeh, M. A.

2017-03-20

We have analyzed the ∼20–320 keV nucleon{sup −1} suprathermal (ST) heavy ion abundances in 41 corotating interaction regions (CIRs) observed by the Wind spacecraft from 1995 January to 2008 December. Our results are: (1) the CIR Fe/CNO and NeS/CNO ratios vary with the sunspot number, with values being closer to average solar energetic particle event values during solar maxima and lower than nominal solar wind values during solar minima. The physical mechanism responsible for the depleted abundances during solar minimum remains an open question. (2) The Fe/CNO increases with energy in the 6 events that occurred during solar maximum, whilemore » no such trends are observed for the 35 events during solar minimum. (3) The Fe/CNO shows no correlation with the average solar wind speed. (4) The Fe/CNO is well correlated with the corresponding upstream ∼20–320 keV nucleon{sup −1} Fe/CNO and not with the solar wind Fe/O measured by ACE in 31 events. Using the correlations between the upstream ∼20–40 keV nucleon{sup −1} Fe/CNO and the ∼20–320 keV nucleon{sup −1} Fe/CNO in CIRs, we estimate that, on average, the ST particles traveled ∼2 au along the nominal Parker spiral field line, which corresponds to upper limits for the radial distance of the source or acceleration location of ∼1 au beyond Earth orbit. Our results are consistent with those obtained from recent surveys, and confirm that CIR ST heavy ions are accelerated more locally, and are at odds with the traditional viewpoint that CIR ions seen at 1 au are bulk solar wind ions accelerated between 3 and 5 au.« less

Probing the correlation of neuronal loss, neurofibrillary tangles, and cell death markers across the Alzheimer's disease Braak stages: a quantitative study in humans.

PubMed

Theofilas, Panos; Ehrenberg, Alexander J; Nguy, Austin; Thackrey, Julia M; Dunlop, Sara; Mejia, Maria B; Alho, Ana T; Paraizo Leite, Renata Elaine; Rodriguez, Roberta Diehl; Suemoto, Claudia K; Nascimento, Camila F; Chin, Marcus; Medina-Cleghorn, Daniel; Cuervo, Ana Maria; Arkin, Michelle; Seeley, William W; Miller, Bruce L; Nitrini, Ricardo; Pasqualucci, Carlos Augusto; Filho, Wilson Jacob; Rueb, Udo; Neuhaus, John; Heinsen, Helmut; Grinberg, Lea T

2018-01-01

Clarifying the mechanisms connecting neurofibrillary tangle (NFT) neurotoxicity to neuronal dysfunction in humans is likely to be pivotal for developing effective treatments for Alzheimer's disease (AD). To model the temporal progression of AD in humans, we used a collection of brains with controls and individuals from each Braak stage to quantitatively investigate the correlation between intraneuronal caspase activation or macroautophagy markers, NFT burden, and neuronal loss, in the dorsal raphe nucleus and locus coeruleus, the earliest vulnerable areas to NFT accumulation. We fit linear regressions with each count as outcomes, with Braak score and age as the predictors. In progressive Braak stages, intraneuronal active caspase-6 positivity increases both alone and overlapping with NFTs. Likewise, the proportion of NFT-bearing neurons showing autophagosomes increases. Overall, caspases may be involved in upstream cascades in AD and are associated with higher NFTs. Macroautophagy changes correlate with increasing NFT burden from early AD stages. Copyright © 2017 Elsevier Inc. All rights reserved.

Assessment of macroinvertebrate communities in adjacent urban stream basins, Kansas City, Missouri, metropolitan area, 2007 through 2011

USGS Publications Warehouse

Christensen, Eric D.; Krempa, Heather M.

2013-01-01

Wastewater-treatment plant discharges during base flow, which elevated specific conductance and nutrient concentrations, combined sewer overflows, and nonpoint sources likely contributed to water-quality impairment and lower aquatic-life status at the Blue River Basin sites. Releases from upstream reservoirs to the Little Blue River likely decreased specific conductance, suspended-sediment, and dissolved constituent concentrations and may have benefitted water quality and aquatic life of main-stem sites. Chloride concentrations in base-flow samples, attributable to winter road salt application, had the highest correlation with the SUII (Spearman’s ρ equals 0.87), were negatively correlated with the SCI (Spearman’s ρ equals -0.53) and several pollution sensitive Ephemeroptera plus Plecoptera plus Trichoptera abundance and percent richness metrics, and were positively correlated with pollution tolerant Oligochaeta abundance and percent richness metrics. Study results show that the easily calculated SUII and the selected modeled multimetric indices are effective for comparing urban basins and for evaluation of water quality in the Kansas City metropolitan area.

Effects of mining-derived metals on riffle-dwelling benthic fishes in Southeast Missouri, USA

USGS Publications Warehouse

Allert, A.L.; Fairchild, J.F.; Schmitt, C.J.; Besser, J.M.; Brumbaugh, W.G.; Olson, S.J.

2009-01-01

We studied the ecological effects of mining-derived metals on riffle-dwelling benthic fishes at 16 sites in the Viburnum Trend lead-zinc mining district of southeast Missouri. Fish community attributes were compared to watershed features and to physical and chemical variables including metal concentrations in sediment pore water and fish. Ozark sculpin (Cottus hypselurus), rainbow darter (Etheostoma caeruleum), Ozark madtom (Noturus albater), and banded sculpin (Cottus carolinae) were the most abundant fishes collected. Species richness and density of riffle-dwelling benthic fishes were negatively correlated with metal concentrations in pore water and in fish. Sculpin densities were also negatively correlated with metal concentrations in pore water and in fish, but positively correlated with distance from mines and upstream watershed area. These findings indicate that metals associated with active lead-zinc mining adversely affect riffle-dwelling benthic fishes downstream of mining areas in the Viburnum Trend. Sculpins may be useful as a sentinel species for assessing mining-related impacts on fish communities.

Team-Based Learning in a Community Health Nursing Course: Improving Academic Outcomes.

PubMed

Miles, Jane M; Larson, Kim L; Swanson, Melvin

2017-07-01

Population health concepts, such as upstream thinking, present challenging ideas to undergraduate nursing students grounded in an acute care orientation. The purpose of this study was to describe how team-based learning (TBL) influenced academic outcomes in a community health nursing course. A descriptive correlational design examined the relationship among student scores on individual readiness assurance tests (iRATs), team readiness assurance tests (tRATs), and the final examination. The sample included 221 nursing students who had completed the course. A large positive correlation was found between iRAT and final examination scores. For all students, the mean tRAT score was higher than the mean iRAT score. A moderate positive correlation existed between tRAT and final examination scores. The study contributes to understanding the effects of TBL pedagogy on student academic outcomes in nursing education. TBL is a valuable teaching method in a course requiring the application of challenging concepts. [J Nurs Educ. 2017;56(7):425-429.]. Copyright 2017, SLACK Incorporated.

Barriers impede upstream spawning migration of flathead chub

USGS Publications Warehouse

Walters, David M.; Zuellig, Robert E.; Crockett, Harry J.; Bruce, James F.; Lukacs, Paul M.; Fitzpatrick, Ryan M.

2014-01-01

Many native cyprinids are declining throughout the North American Great Plains. Some of these species require long reaches of contiguous, flowing riverine habitat for drifting eggs or larvae to develop, and their declining populations have been attributed to habitat fragmentation or barriers (e.g., dams, dewatered channels, and reservoirs) that restrict fish movement. Upstream dispersal is also needed to maintain populations of species with passively drifting eggs or larvae, and prior researchers have suggested that these fishes migrate upstream to spawn. To test this hypothesis, we conducted a mark–recapture study of Flathead Chub Platygobio gracilis within a 91-km reach of continuous riverine habitat in Fountain Creek, Colorado. We measured CPUE, spawning readiness (percent of Flathead Chub expressing milt), and fish movement relative to a channel-spanning dam. Multiple lines of evidence indicate that Flathead Chub migrate upstream to spawn during summer. The CPUE was much higher at the base of the dam than at downstream sites; the seasonal increases in CPUE at the dam closely tracked seasonal increases in spawning readiness, and marked fish moved upstream as far as 33 km during the spawning run. The upstream migration was effectively blocked by the dam. The CPUE of Flathead Chub was much lower upstream of the OHDD than at downstream sites, and <0.2% of fish marked at the dam were recaptured upstream. This study provides the first direct evidence of spawning migration for Flathead Chub and supports the general hypothesis that barriers limit adult dispersal of these and other plains fishes.

75 FR 23600 - Final Flood Elevation Determinations

Federal Register 2010, 2011, 2012, 2013, 2014

2010-05-04

... feet +571 upstream of the confluence with Millers Creek. Dale Hollow Lake (Wolf River) At the confluence with +663 Unincorporated Areas of the Wolf River. Clinton County. Approximately 1,800 feet +663 upstream of the confluence with Spring Creek. Lake Cumberland Just upstream of the Wolf +760 Unincorporated...

78 FR 6745 - Final Flood Elevation Determinations

Federal Register 2010, 2011, 2012, 2013, 2014

2013-01-31

...,250 feet +635 upstream of Spring Mountain Lane. Cranberry Creek at Paradise At the upstream side of +715 Township of Paradise. Browns Hill Road. Approximately 200 feet +1092 upstream of Snowbird Lane..., Schoonover Municipal Building, 25 Municipal Drive, East Stroudsburg, PA 18301. Township of Paradise Maps are...

78 FR 9831 - Final Flood Elevation Determinations

Federal Register 2010, 2011, 2012, 2013, 2014

2013-02-12

... Drive. Wake County. Approximately 850 feet +345 upstream of Keighley Forest Drive. Richland Creek Approximately 850 feet +301 Town of Wake Forest. upstream of the confluence with Richland Creek Tributary 2... Approximately 750 feet +301 Town of Wake Forest. upstream of the confluence with Richland Creek. Approximately 0...

Gaols or De Facto Mental Institutions? Why Individuals with a Mental Illness Are Over-Represented in the Criminal Justice System in New South Wales, Australia

ERIC Educational Resources Information Center

Henderson, Corinne

2007-01-01

The over-representation of people with mental illness in the criminal justice system highlights the need for legislative reform and the implementation of programs breaking the cycle of mental illness, poverty, unemployment and substance abuse across Australia. Whilst there is no inherent association between mental illness and crime, there is a…

Sociological Aspects of Self-Employment and Social Welfare among Chinese, Japanese, and Negroes in Northern, Urban Areas of the United States, 1900-1940.

ERIC Educational Resources Information Center

Light, Ivan Hubert

The study concerns three principal analytical questions: during the period from 1900-1940 (1) Why were the Chinese and Japanese over-represented and Negroes under-represented in small businesses? (2) Why were there many more Negroes than Chinese and Japanese on welfare rolls? (3) What, if any, was the connection between small businesses and social…

Increasing the Number of Minority Youth Ages Twelve through Fourteen Years Involved in the Crisis Intervention Program by Increasing the Number of Minority Adults Involved in the Provision of Services.

ERIC Educational Resources Information Center

Jennings, Susan

The racial composition of participants in a Florida crisis intervention agency's programs indicated that, among the population at risk, black youth were overrepresented in State delinquency and child welfare programs and underrepresented in the agency's intervention services. This practicum was designed to enhance the agency's ability to reach…

JP-8 Final Risk Assessment

DTIC Science & Technology

2001-08-01

History of diabetes 8. History of scoliosis 9. Major visual impairment 10. Clinical diagnosis of seizures 11. On medical profile 12. Pregnancy 13...genotype is over-represented in patients with certain types of cancer. It has also been reported that the GST MI-null genotype is more prevalent among...induced haemolytic anaemia with haemoglobinuria. Indian J.Pediatr. 40, 195-197, 1973. 8. Hauf L.M. The development of a method Suitable for the

Bi-Cultural Aotearoa/New Zealand: Provision of Psychological Services to the Maori Population of Rural New Zealand: Combining Best Practice with Cultural Considerations

ERIC Educational Resources Information Center

Little, Steven G.; Akin-Little, Angeleque; Johansen, Anita

2013-01-01

New Zealand is considered a bi-cultural country with both the majority European and the minority/indigenous Maori cultures are supposedly given equal weight within the psyche and policies of the country. In reality, however, individuals of Maori descent tend to be over-represented in negative socio-economic and educational dimensions. A higher…

Unpacking the Placement of American Indian and Alaska Native Students in Special Education Programs and Services in the Early Grades: School Readiness as a Predictive Variable

ERIC Educational Resources Information Center

Hibel, Jacob; Faircloth, Susan C.; Farkas, George

2008-01-01

In this article, Jacob Hibel, Susan Faircloth, and George Farkas investigate the persistent finding that American Indian and Alaska Native (AI/AN) students are overrepresented in special education. Using data from the kindergarten cohort of the Early Childhood Longitudinal Study, the authors compare the third-grade special education placement rate…

Gender and Military Contextual Risk Factors for Intimate Partner Aggression

DTIC Science & Technology

2011-01-01

personnel in their second year of service. We found some evidence that job stress was related to higher perpetration among men. Contrary to expectations...2003b; Stith & McMonigle, 2009) may be systematically overrepresented among personnel in higher- stress occupations. For example, some evidence shows...personnel in low- stress occupational specialties. METHOD Data for this study were from the Naval Health Research Center Survey of Navy Recruits (Merrill

A Role for the X Chromosome in Sex Differences in Variability in General Intelligence?

PubMed

Johnson, Wendy; Carothers, Andrew; Deary, Ian J

2009-11-01

There is substantial evidence that males are more variable than females in general intelligence. In recent years, researchers have presented this as a reason that, although there is little, if any, mean sex difference in general intelligence, males tend to be overrepresented at both ends of its overall distribution. Part of the explanation could be the presence of genes on the X chromosome related both to syndromal disorders involving mental retardation and to population variation in general intelligence occurring normally. Genes on the X chromosome appear overrepresented among genes with known involvement in mental retardation, which is consistent with a model we developed of the population distribution of general intelligence as a mixture of two normal distributions. Using this model, we explored the expected ratios of males to females at various points in the distribution and estimated the proportion of variance in general intelligence potentially due to genes on the X chromosome. These estimates provide clues to the extent to which biologically based sex differences could be manifested in the environment as sex differences in displayed intellectual abilities. We discuss these observations in the context of sex differences in specific cognitive abilities and evolutionary theories of sexual selection. © 2009 Association for Psychological Science.

Exploring the spatial wage penalty for women: Does it matter where you live?

PubMed

Smith, Kristin E; Glauber, Rebecca

2013-09-01

Inequality between men and women has decreased over the past four decades in the US, but wage inequality among groups of women has increased. As metropolitan women's earnings grew by 25% over the past four decades, nonmetropolitan women's earnings only grew by 15%. In the current study we draw on data from the Current Population Survey to analyze the spatial wage gap among women. We explore differences in the spatial wage gap by education, occupation, and industry. Regression models that control for marriage, motherhood, race, education, region, age, and work hours indicate that metropolitan women earn 17% more per hour than nonmetropolitan women. Nonmetropolitan women earn less than metropolitan women who live in central cities and outside central cities. The gap in metropolitan-nonmetropolitan wages is higher for more educated women than for less educated women. The wage gap is only 5% for women without a high school degree, but it is 15% for women with a college degree and 26% for women with an advanced degree. Nonmetropolitan college graduates are overrepresented in lower-paying occupations and industries. Metropolitan college graduates, however, are overrepresented in higher-paying occupations and industries, such as professional services and finance. Copyright © 2013 Elsevier Inc. All rights reserved.

Chorionic villous sampling: differences in patients' perspectives according to indication, ethnic group and religion.

PubMed

Dar, Hanna; Zuck, Chedva; Friedman, Svetlana; Merkshamer, Ruth; Gonen, Ron

2006-08-01

The decision to undergo prenatal testing may be influenced by ethnic or religious factors. To evaluate factors that might influence the decision of pregnant women to choose chorionic villous sampling for prenatal testing. The study group comprised 239 women referred for prenatal diagnosis who elected to undergo CVS. The data were analyzed according to indication, ethnic group and religion. Among women undergoing CVS because of advanced maternal age and anxiety, we noted a significantly high proportion of unbalanced families, i.e., with three or more children of the same gender and deviated gender ratio. We found a significant excess of males among the Jewish families and a significant excess of females among the non-Jewish families. Jews were over-represented in the monogenic group while Christian Arabs were over-represented in the maternal age/anxiety group. The proportion of women who chose CVS for prenatal diagnosis varied according to indication, ethnic group and religion. The data in this study indicate that CVS may have been utilized for balancing families with > or = 3 or more children of the same sex. Christian Arabs chose CVS more often than the other groups. Jewish women may have utilized CVS for family balancing of both sexes, while non-Jews may have utilized CVS for balancing families with > or = 3 daughters.

Warm-hearted businessmen, competitive housewives? Effects of gender-fair language on adolescents’ perceptions of occupations

PubMed Central

Vervecken, Dries; Gygax, Pascal M.; Gabriel, Ute; Guillod, Matthias; Hannover, Bettina

2015-01-01

Recent studies from countries with grammatical gender languages (e.g., French) found both children and adults to more frequently think of female jobholders and to consider women’s success in male dominated occupations more likely when the jobs were described in pair forms (i.e., by explicit reference to male and female jobholders, e.g., inventeuses et inventeurs; French feminine and masculine plural forms for inventors), rather than masculine only forms (e.g., inventors). To gain a better understanding of this phenomenon, we systematically varied the gender connotation of occupations (males overrepresented, females overrepresented, equal share of males and females) and measured additional dependent variables, predicting that gender fair language would reduce the impact of the gender connotation on participants’ perceptions. In a sample of 222 adolescents (aged 12–17) from French speaking Switzerland, we found that pair forms attenuated the difference in the ascription of success to male and female jobholders in gendered occupations and attenuated the differential ascription of warmth to prototypical jobholders in male vs. female dominated jobs. However, no effect of language form on the ascription of competence was found. These findings suggest that language policies are an effective tool to impact gendered perceptions, however, they also hint at competence-related gender stereotypes being in decline. PMID:26441805

The Living Planet Index: using species population time series to track trends in biodiversity

PubMed Central

Loh, Jonathan; Green, Rhys E; Ricketts, Taylor; Lamoreux, John; Jenkins, Martin; Kapos, Valerie; Randers, Jorgen

2005-01-01

The Living Planet Index was developed to measure the changing state of the world's biodiversity over time. It uses time-series data to calculate average rates of change in a large number of populations of terrestrial, freshwater and marine vertebrate species. The dataset contains about 3000 population time series for over 1100 species. Two methods of calculating the index are outlined: the chain method and a method based on linear modelling of log-transformed data. The dataset is analysed to compare the relative representation of biogeographic realms, ecoregional biomes, threat status and taxonomic groups among species contributing to the index. The two methods show very similar results: terrestrial species declined on average by 25% from 1970 to 2000. Birds and mammals are over-represented in comparison with other vertebrate classes, and temperate species are over-represented compared with tropical species, but there is little difference in representation between threatened and non-threatened species. Some of the problems arising from over-representation are reduced by the way in which the index is calculated. It may be possible to reduce this further by post-stratification and weighting, but new information would first need to be collected for data-poor classes, realms and biomes. PMID:15814346

Stereotype Threat? Male and Female Students in Advanced High School Courses

NASA Astrophysics Data System (ADS)

Corra, Mamadi

Propositions of stereotype threat theory imply that the social consequences of academic distinction in advanced quantitative areas (such as math and the physical sciences) for women may promote the under representation of female students in advanced quantitative academic courses. The hypothesis that female students will be underrepresented in advanced quantitative (honors and advanced placement math and physical science) courses is tested using academic performance and enrollment data for high school students in a "Student/Parent Informed Choice" (open registration) school district in North Carolina. Results show female students to be overrepresented in both advanced verbal/writing intensive (honors and advanced placement English, foreign language, and social science) and advanced quantitative (honors and advanced placement math and physical science) courses compared to their proportion of the student body. More surprisingly, results also indicate female students (compared to male students) to be overrepresented in advanced courses compared to their proportion of high-performing students. Furthermore, as with patterns observed at the district level, additional analysis of enrollment data for the entire state reveals similar results. Taken together, the findings call into question the prevailing presumption that female students continue to be underrepresented in math and physical science courses. Instead, the changing social context within which females and males experience schooling may provide an explanation for the findings.

Differentiating between child protection and family support in the Canadian child welfare system's response to intimate partner violence, corporal punishment, and child neglect.

PubMed

Trocmé, Nico; Fallon, Barbara; Sinha, Vandna; Van Wert, Melissa; Kozlowski, Anna; Maclaurin, Bruce

2013-01-01

Rates of reported child maltreatment nearly doubled in Canada over the period 1998-2003, an increase that reflects growing awareness of the harmful effects of an expanding array of parental behaviors, including corporal punishment, lack of supervision, and exposure to intimate partner violence (IPV). Some of these situations may benefit from voluntary family support programs outside of the child welfare system. Analyzing a sample of 11,807 investigations, this paper compares cases where the sole concern is exposure to IPV, or hitting a child, or neglect, or other forms of investigated maltreatment. Situations where exposure to IPV or potentially abusive hitting were the sole reason for investigation presented with fewer risk factors and were less likely to lead to ongoing child welfare interventions compared to other maltreatment investigations. While situations involving alleged neglect presented a higher risk profile and elicited a more intensive child welfare response than did exposure to IPV or hitting, opportunities for alternative services were nevertheless identified. The study also found that visible minority families were overrepresented in cases involving hitting and that Aboriginal families were overrepresented in cases involving neglect. Overall the findings support the development of alternative response programs in Canada.

Microgenomic analysis reveals cell type-specific gene expression patterns between ray and fusiform initials within the cambial meristem of Populus.

PubMed

Goué, Nadia; Lesage-Descauses, Marie-Claude; Mellerowicz, Ewa J; Magel, Elisabeth; Label, Philippe; Sundberg, Björn

2008-01-01

The vascular cambium is the meristem in trees that produce wood. This meristem consists of two types of neighbouring initials: fusiform cambial cells (FCCs), which give rise to the axial cell system (i.e. fibres and vessel elements), and ray cambial cells (RCCs), which give rise to rays. There is little molecular information on the mechanisms whereby the differing characteristics of these neighbouring cells are maintained. A microgenomic approach was adopted in which the transcriptomes of FCCs and RCCs dissected out from the cambial meristem of poplar (Populus trichocarpa x Populus deltoïdes var. Boelare) were analysed, and a transcriptional database for these two cell types established. Photosynthesis genes were overrepresented in RCCs, providing molecular support for the presence of photosynthetic systems in rays. Genes that putatively encode transporters (vesicle, lipid and metal ion transporters and aquaporins) in RCCs were also identified. In addition, many cell wall-related genes showed cell type-specific expression patterns. Notably, genes involved in pectin metabolism and xyloglucan metabolism were overrepresented in RCCs and FCCs, respectively. The results demonstrate the use of microgenomics to reveal differences in biological processes in neighbouring meristematic cells, and to identify key genes involved in these processes.

Allele-Skewed DNA Modification in the Brain: Relevance to a Schizophrenia GWAS

PubMed Central

Gagliano, Sarah A.; Ptak, Carolyn; Mak, Denise Y.F.; Shamsi, Mehrdad; Oh, Gabriel; Knight, Joanne; Boutros, Paul C.; Petronis, Arturas

2016-01-01

Numerous recent studies have suggested that phenotypic effects of DNA sequence variants can be mediated or modulated by their epigenetic marks, such as allele-skewed DNA modification (ASM). Using Affymetrix SNP microarrays, we performed a comprehensive search of ASM effects in human post-mortem brain and sperm samples (total n = 256) from individuals with major psychosis and control individuals. Depending on the phenotypic category of the brain samples, 1.4%–7.5% of interrogated SNPs exhibited ASM effects. Next, we investigated ASM in the context of genetic studies of schizophrenia and detected that brain ASM SNPs were significantly overrepresented among sub-threshold SNPs from a schizophrenia genome-wide association study (GWAS). Brain ASM SNPs showed a much stronger enrichment in a schizophrenia GWAS than in 17 large GWASs of non-psychiatric diseases and traits, arguing that ASM effects are at least partially tissue specific. Studies of germline and control brain ASM SNPs supported a causal association between ASM and schizophrenia. Finally, significantly higher proportions of ASM SNPs than of non-ASM SNPs were detected at loci exhibiting epigenetic signatures of enhancers and promoters, and they were overrepresented within transcription factor binding regions and DNase I hypersensitive sites. All of these findings collectively indicate that ASM SNPs should be prioritized in follow-up GWASs. PMID:27087318

Service system finance: implications for children with depression and manic depression.

PubMed

Glied, S; Neufeld, A

2001-06-15

An estimated 6.2% of children in the United States satisfy the criteria for a depression diagnosis, but approximately half of this group do not receive necessary treatment. Thus it is important to consider potential barriers to use through service system finance. This article reviews three major types of changes affecting access: parity legislation, managed care, and public contracting. How these developments will affect children with depression and manic depression (DMD) is unclear. To better understand the potential effects on children with DMD, this review uses new data from the Medical Expenditure Panel Survey to describe the service use patterns of this population. These children have higher levels of expenditures, higher rates of inpatient use, and higher rates of Medicaid payment than do other children with mental health diagnoses; they also are overrepresented among the costliest cases of mental illness in children. Children with DMD pay a relatively low out-of-pocket share, suggesting that parity efforts focusing only on copayments and deductibles will have little effect on the absolute out-of-pocket burden for these children. Because children with DMD are overrepresented among high utilizers of health services, health care rationing arrangements or techniques, such as utilization review and capitation, may place this population at particular risk.

Are two systemic fish assemblage sampling programmes on the upper Mississippi River telling us the same thing?

USGS Publications Warehouse

Dukerschein, J.T.; Bartels, A.D.; Ickes, B.S.; Pearson, M.S.

2013-01-01

We applied an Index of Biotic Integrity (IBI) used on Wisconsin/Minnesota waters of the upper Mississippi River (UMR) to compare data from two systemic sampling programmes. Ability to use data from multiple sampling programmes could extend spatial and temporal coverage of river assessment and monitoring efforts. We normalized for effort and tested fish community data collected by the Environmental Monitoring and Assessment Program-Great Rivers Ecosystems (EMAP-GRE) 2004–2006 and the Long Term Resource Monitoring Program (LTRMP) 1993–2006. Each programme used daytime electrofishing along main channel borders but with some methodological and design differences. EMAP-GRE, designed for baseline and, eventually, compliance monitoring, used a probabilistic, continuous design. LTRMP, designed primarily for baseline and trend monitoring, used a stratified random design in five discrete study reaches. Analysis of similarity indicated no significant difference between EMAP-GRE and LTRMP IBI scores (n=238; Global R= 0.052; significance level=0.972). Both datasets distinguished clear differences only between 'Fair' and 'Poor' condition categories, potentially supporting a 'pass–fail' assessment strategy. Thirteen years of LTRMP data demonstrated stable IBI scores through time in four of five reaches sampled. LTRMP and EMAPGRE IBI scores correlated along the UMR's upstream to downstream gradient (df [3, 25]; F=1.61; p=0.22). A decline in IBI scores from upstream to downstream was consistent with UMR fish community studies and a previous, empirically modelled human disturbance gradient. Comparability between EMAP-GRE (best upstream to downstream coverage) and LTRMP data (best coverage over time and across the floodplain) supports a next step of developing and testing a systemic, multi-metric fish index on the UMR that both approaches could inform.

A Role for MORE AXILLARY GROWTH1 (MAX1) in Evolutionary Diversity in Strigolactone Signaling Upstream of MAX21[C][W][OA

PubMed Central

Challis, Richard J.; Hepworth, Jo; Mouchel, Céline; Waites, Richard; Leyser, Ottoline

2013-01-01

Strigolactones (SLs) are carotenoid-derived phytohormones with diverse roles. They are secreted from roots as attractants for arbuscular mycorrhizal fungi and have a wide range of endogenous functions, such as regulation of root and shoot system architecture. To date, six genes associated with SL synthesis and signaling have been molecularly identified using the shoot-branching mutants more axillary growth (max) of Arabidopsis (Arabidopsis thaliana) and dwarf (d) of rice (Oryza sativa). Here, we present a phylogenetic analysis of the MAX/D genes to clarify the relationships of each gene with its wider family and to allow the correlation of events in the evolution of the genes with the evolution of SL function. Our analysis suggests that the notion of a distinct SL pathway is inappropriate. Instead, there may be a diversity of SL-like compounds, the response to which requires a D14/D14-like protein. This ancestral system could have been refined toward distinct ligand-specific pathways channeled through MAX2, the most downstream known component of SL signaling. MAX2 is tightly conserved among land plants and is more diverged from its nearest sister clade than any other SL-related gene, suggesting a pivotal role in the evolution of SL signaling. By contrast, the evidence suggests much greater flexibility upstream of MAX2. The MAX1 gene is a particularly strong candidate for contributing to diversification of inputs upstream of MAX2. Our functional analysis of the MAX1 family demonstrates the early origin of its catalytic function and both redundancy and functional diversification associated with its duplication in angiosperm lineages. PMID:23424248

Red-Green Color Vision Impairment in Duchenne Muscular Dystrophy

PubMed Central

Costa, Marcelo Fernandes ; Oliveira, Andre Gustavo Fernandes ; Feitosa-Santana, Claudia ; Zatz, Mayana ; Ventura, Dora Fix 

2007-01-01

The present study evaluated the color vision of 44 patients with Duchenne muscular dystrophy (DMD) (mean age 14.8 years; SD 4.9) who were submitted to a battery of four different color tests: Cambridge Colour Test (CCT), Neitz Anomaloscope, Ishihara, and American Optical Hardy-Rand-Rittler (AO H-R-R). Patients were divided into two groups according to the region of deletion in the dystrophin gene: upstream of exon 30 (n=12) and downstream of exon 30 (n=32). The control group was composed of 70 age-matched healthy male subjects with no ophthalmological complaints. Of the patients with DMD, 47% (21/44) had a red-green color vision defect in the CCT, confirmed by the Neitz Anomaloscope with statistical agreement (P<.001). The Ishihara and the AO H-R-R had a lower capacity to detect color defects—5% and 7%, respectively, with no statistical similarity between the results of these two tests nor between CCT and Anomaloscope results (P>.05). Of the patients with deletion downstream of exon 30, 66% had a red-green color defect. No color defect was found in the patients with deletion upstream of exon 30. A negative correlation between the color thresholds and age was found for the controls and patients with DMD, suggesting a nonprogressive color defect. The percentage (66%) of patients with a red-green defect was significantly higher than the expected <10% for the normal male population (P<.001). In contrast, patients with DMD with deletion upstream of exon 30 had normal color vision. This color defect might be partially explained by a retina impairment related to dystrophin isoform Dp260. PMID:17503325

Determining sources of dissolved organic carbon and disinfection byproduct precursors to the McKenzie River, Oregon

USGS Publications Warehouse

Kraus, Tamara E.C.; Anderson, Chauncey W.; Morgenstern, Karl; Downing, Bryan D.; Pellerin, Brian A.; Bergamaschi, Brian A.

2010-01-01

This study was conducted to determine the main sources of dissolved organic carbon (DOC) and disinfection byproduct (DBP) precursors to the McKenzie River, Oregon (USA). Water samples collected from the mainstem, tributaries, and reservoir outflows were analyzed for DOC concentration and DBP formation potentials (trihalomethanes [THMFPs] and haloacetic acids [HAAFPs]). In addition, optical properties (absorbance and fluorescence) of dissolved organic matter (DOM) were measured to provide insight into DOM composition and assess whether optical properties are useful proxies for DOC and DBP precursor concentrations. Optical properties indicative of composition suggest that DOM in the McKenzie River mainstem was primarily allochthonous - derived from soils and plant material in the upstream watershed. Downstream tributaries had higher DOC concentrations than mainstem sites (1.6 ?? 0.4 vs. 0.7 ?? 0.3 mg L-1) but comprised <5% of mainstem flows and had minimal effect on overall DBP precursor loads. Water exiting two large upstream reservoirs also had higher DOC concentrations than the mainstem site upstream of the reservoirs, but optical data did not support in situ algal production as a source of the added DOC during the study. Results suggest that the first major rain event in the fall contributes DOM with high DBP precursor content. Although there was interference in the absorbance spectra in downstream tributary samples, fluorescence data were strongly correlated to DOC concentration (R 2 = 0.98), THMFP (R2 = 0.98), and HAAFP (R2 = 0.96). These results highlight the value of using optical measurements for identifying the concentration and sources of DBP precursors in watersheds, which will help drinking water utilities improve source water monitoring and management programs. Copyright ?? 2010 by the American Society of Agronomy.

Organochlorine chemical residues in bluegills and common carp from the irrigated San Joaquin Valley floor, California

USGS Publications Warehouse

Saiki, Michael K.; Schmitt, Christopher J.

1986-01-01

Samples of bluegills (Lepomis macrochirus) and common carp (Cyprinus carpio) collected from the San Joaquin River and two tributaries (Merced River and Salt Slough) in California were analyzed for 21 organochlorine chemical residues by gas chromatography to determine if pesticide contamination was confined to downstream sites exposed to irrigated agriculture, or if nonirrigated upstream sites were also contaminated. Residues ofp,p′-DDE were detected in all samples of both species. Six other contaminants were also present in both species at one or more of the collection sites: chlordane (cis-chlordane +trans-nonachlor);p,p′-DDD;o,p′-DDT;p,p′-DDT; DCPA (dimethyl tetrachloroterephthalate); and dieldrin. Concentrations of most of these residues were generally higher in carp than in bluegills; residues of other compounds were found only in carp: α-BHC (α-benzenehexachloride), Aroclor® 1260, and toxaphene. Concentrations of most organochlorines in fish increased from upstream to downstream. Water quality variables that are influenced by irrigation return flows (e.g., conductivity, turbidity, and total alkalinity) also increased from upstream to downstream and were significantly correlated (P < 0.05) with organochlorine residue levels in the fish. In carp, concentrations of two residues-⌆DDT (p,p′-DDD +p,p′-DDE + +p,p′-DDT; 1.43 to 2.21 mg/kg wet weight) and toxaphene (3.12 mg/kg wet weight)-approached the highest levels reported by the National Pesticide Monitoring Program for fish from other intensively farmed watersheds of the United States in 1980 to 1981, and surpassed criteria for whole-body residue concentrations recomended by the National Academy of Sciences and National Academy of Engineers for the protection of piscivorous wildlife.

Formation of fluvial knickzones in Japanese mountainous areas: A spatial analysis using GIS and DEMs

NASA Astrophysics Data System (ADS)

Hayakawa, Y. S.; Oguchi, T.

2006-12-01

Fluvial knickzones are the elements of bedrock rivers that can enhance stream erosion into bedrock, and they can be key morphologies highlighting interactions among earth surface processes such as erosion, tectonics, and volcanism. This study examines the longitudinal profiles of Japanese mountain rivers to illustrate the distribution of knickzones and discusses their role in the landscape development. Using 50-m DEMs, knickzones were extracted based on a quantitative criterion, and 5,753 knickzones were identified in the rivers of ca. 65,000 km long. The location of the knickzones was then examined along with other GIS data including topography, geology and precipitation. Overall, topographical conditions have the strongest influences on knickzone abundance, and upstream steep reaches of the rivers are more favorable for knickzone existence. The knickzone abundance for each rock type is also controlled by stream gradients, and lighologic boundaries do not show significant correlations with the knickzone locations. The controls of lithologic substrate on the knickzone locations are therefore limited. The abundant knickzones in steep river reaches indicate a hydraulic origin of knickzones, where stream erosions have enough strength in shaping the bedrock. Moreover, the knickzones are frequently observed in reaches slightly upstream from the major confluences at which stream discharge abruptly increases, indicating that the hydraulic anomalies of water flows at the confluences can cause knickzones which may later migrate upstream. The other possible causes of knickzone initiation including volcanic, tectonic and climatic effects are also suggested. The abundant knickzones in Japanese mountain rivers, resulted from the interactions among surface processes, suggest that river morphology modeling needs to consider the initiation and development of knickzones. tokyo.ac.jp/~hayakawa/

Nutrient dynamics and budget with the surface water-groundwater interaction in the tidal river in Japan

NASA Astrophysics Data System (ADS)

Onodera, S.; Saito, M.; Maruyama, Y.; Jin, G.; Miyaoka, K.; Shimizu, Y.

2013-12-01

In coastal megacities, sever groundwater depression and water pollution occurred. These impacts affected to river environment change. Especially, the river mouth area has been deposited the polluted matters. These areas have characteristics of water level fluctuation which causes river water-groundwater interaction and the associated change in dynamics of nutrients. However, these effects on the nutrient transport in tidal reaches and nutrient load to the sea have not been fully evaluated in previous studies. Therefore, we aimed to clarify the characteristics of the nutrient transport with the river water-groundwater interaction in the tidal river of Osaka metropolitan city. We conducted the field survey from the river mouth to the 7km upstream area of Yamato River, which has a length of 68km and a watershed area of 1070 km2. Spatial variations in radon (222Rn) concentrations and the difference of hydraulic potential between river waters and the pore waters suggest that the groundwater discharges to the river channel in the upstream area. In contrast, the river water recharged into the groundwater near the river mouth area. It may be caused by the lowering of groundwater level associated with the excess abstraction of groundwater in the urban area. The result also implies the seawater intrusion would accelerate the salinization of groundwater. The spatial and temporal variations in nutrient concentrations indicate that nitrate-nitrogen (NO3-N) concentrations changed temporally and it negative correlated with dissolved organic nitrogen (DON) concentrations. Inorganic phosphorous (PO4-P) concentrations showed the increasing trend with the increase of the river water level. Based on the mass balance, nutrient reproduction from the river bed was suggested in tidal reach. That was estimated to be 10 % of total nitrogen and 3% of phosphorus loads from the upstream.

RELATIONSHIPs among Geomagnetic storms, interplanetary shocks, magnetic clouds, and SUNSPOT NUMBER during 1995-2012

NASA Astrophysics Data System (ADS)

Berdichevsky, D. B.; Lepping, R. P.; Wu, C. C.

2015-12-01

During 1995-2012 Wind recorded 168 magnetic clouds (MCs), 197 magnetic cloud-like structures (MCLs), and 358 interplanetary (IP) shocks. Ninety four MCs and 56 MCLs had upstream shock waves. The following features are found: (i) Averages of solar wind speed, interplanetary magnetic field (IMF), duration (<Δt>), strength of Bzmin, and intensity of the associated geomagnetic storm/activity (Dstmin) for MCs with upstream shock waves (MCSHOCK) are higher (or stronger) than those averages for the MCs without upstream shock waves (MCNO-SHOCK). (ii) The <Δt> of MCSHOCK events (≈19.6 hr) is 9% longer than that for MCNO-SHOCK events (≈17.9 hr). (iii) For the MCSHOCK events, the average duration of the sheath (<ΔtSHEATH>) is 12.1 hrs. These findings could be very useful for space weather predictions, i.e. IP shocks driven by MCs are expected to arrive at Wind (or at 1 AU) about ~12 hours ahead of the front of the MCs on average. (iv) The occurrence frequency of IP shocks is well associated with sunspot number (SSN). The average intensity of geomagnetic storms measured by for MCSHOCK and MCNOSHOCK events is -102 and -31 nT, respectively. The is -78, -70, and -35 nT for the 358 IP shocks, 168 MCs, and 197 MCLs, respectively. These results imply that IP shocks, when they occur with MCs/MCLs, must play an important role in the strength of geomagnetic storms. We speculate as to why this is so. Yearly occurrence frequencies of MCSHOCK and IP shocks are well correlated with solar activity (e.g., SSN). Choosing the right Dstmin estimating formula for predicting the intensity of MC-associated geomagnetic storms is crucial for space weather predictions.

78 FR 10072 - Final Flood Elevation Determinations

Federal Register 2010, 2011, 2012, 2013, 2014

2013-02-13

... feet +8 City of Jacksonville. downstream of Atlantic Boulevard. Approximately 1,500 feet +17 upstream... City of Atlantic Beach, Pablo Creek. City of Neptune Beach. Approximately 1,100 feet +7 upstream of... confluence with +41 City of Jacksonville. Mill Dam Branch at Lantana Lakes Drive. Just upstream of Forest +45...

77 FR 49373 - Final Flood Elevation Determinations

Federal Register 2010, 2011, 2012, 2013, 2014

2012-08-16

.... Macon Bayou Just upstream of Private +108 City of Eudora. Road. Just upstream of Verser +108 Road... Areas of Road. Logan County. Just downstream of Newton +563 Road. Just upstream of West 9th +621 Street... Road. * National Geodetic Vertical Datum. + North American Vertical Datum. Depth in feet above ground...

Increased upstream ionization due to formation of a double layer.

PubMed

Thakur, S Chakraborty; Harvey, Z; Biloiu, I A; Hansen, A; Hardin, R A; Przybysz, W S; Scime, E E

2009-01-23

We report observations that confirm a theoretical prediction that formation of a current-free double layer in a plasma expanding into a chamber of larger diameter is accompanied by an increase in ionization upstream of the double layer. The theoretical model argues that the increased ionization is needed to balance the difference in diffusive losses upstream and downstream of the expansion region. In our expanding helicon source experiments, we find that the upstream plasma density increases sharply at the same antenna frequency at which the double layer appears.

Upstream energetic ions under radial IMF - A critical test of the Fermi model

NASA Technical Reports Server (NTRS)

Sarris, E. T.; Krimigis, S. M.

1988-01-01

Eight years of interplanetary magnetic field (IMF) and energetic particle observations obtained by the IMP-8 spacecraft upstream from the bow shock have been surveyed, and 63 cases when the upstream IMF remained radial for extended periods of time (greater than 1 hour) have been accumulated. Of these, two cases have been selected during which measurable fluxes of ambient solar or corotating energetic particle events were absent. These conditions provide an excellent test to the theories of the origin of upstream energetic ions. It is shown that there are extended periods with radial IMF when no upstream energetic ions were detected. It is further shown that energetic ions in the range E of between 50 keV and 1 MeV, inclusive, are not continuously present but appear in bursts of intensities varying by more than an order of magnitude under persistently radial IMF. These measurements contradict a fundamental prediction of the Fermi mechanism for the origin of the upstream energetic ions, namely that such ions should always be present on radial IMF lines. The observations are consistent with the hypothesis that energetic (greater than about 50 keV) ions leak out from, and appear in the upstream medium sporadically, following the onset of magnetic activity within the magnetosphere.

Using Twitter to Measure Public Discussion of Diseases: A Case Study

PubMed Central

Schwartz, H Andrew; Hill, Shawndra; Merchant, Raina M; Arango, Catalina; Ungar, Lyle

2015-01-01

Background Twitter is increasingly used to estimate disease prevalence, but such measurements can be biased, due to both biased sampling and inherent ambiguity of natural language. Objective We characterized the extent of these biases and how they vary with disease. Methods We correlated self-reported prevalence rates for 22 diseases from Experian’s Simmons National Consumer Study (n=12,305) with the number of times these diseases were mentioned on Twitter during the same period (2012). We also identified and corrected for two types of bias present in Twitter data: (1) demographic variance between US Twitter users and the general US population; and (2) natural language ambiguity, which creates the possibility that mention of a disease name may not actually refer to the disease (eg, “heart attack” on Twitter often does not refer to myocardial infarction). We measured the correlation between disease prevalence and Twitter disease mentions both with and without bias correction. This allowed us to quantify each disease’s overrepresentation or underrepresentation on Twitter, relative to its prevalence. Results Our sample included 80,680,449 tweets. Adjusting disease prevalence to correct for Twitter demographics more than doubles the correlation between Twitter disease mentions and disease prevalence in the general population (from .113 to .258, P <.001). In addition, diseases varied widely in how often mentions of their names on Twitter actually referred to the diseases, from 14.89% (3827/25,704) of instances (for stroke) to 99.92% (5044/5048) of instances (for arthritis). Applying ambiguity correction to our Twitter corpus achieves a correlation between disease mentions and prevalence of .208 ( P <.001). Simultaneously applying correction for both demographics and ambiguity more than triples the baseline correlation to .366 ( P <.001). Compared with prevalence rates, cancer appeared most overrepresented in Twitter, whereas high cholesterol appeared most underrepresented. Conclusions Twitter is a potentially useful tool to measure public interest in and concerns about different diseases, but when comparing diseases, improvements can be made by adjusting for population demographics and word ambiguity. PMID:26925459

Quantifying the Consumptive Landscape in the Potomac Watershed Upstream From Washington DC

NASA Astrophysics Data System (ADS)

Kearns, M.; Zegre, N.; Fernandez, R.

2017-12-01

Some of the largest and fastest-growing eastern cities depend upon Appalachian headwaters for their fresh water. Today's relative abundance of water may be at risk: changes in climate and land use could alter the availability of surface water and human consumption could increase to meet the needs of a growing population and economy. Neither the supply of surface water nor the various withdrawals that support our population, irrigation, energy, and industry are distributed uniformly throughout our watersheds. This study correlates surface water withdrawals, consumptive use coefficients, and land-use/land-cover datasets to create a model for quantifying anthropogenic water consumption. The model suggests a method for downscaling and redistributing USGS county-level surface water withdrawals to 30 meter cells. Initially completed for the Potomac River watershed upstream from Washington DC's public supply intake, this approach could easily scale regionally or nationally. When combined with runoff estimates over the same landscape, the net-production or net-consumption of an area of interest may be calculated at high resolution. By better understanding the spatial relationship between hydrologic supply and demand, we can seek to improve the efficiency and security of our water resources.

The role of complement system in septic shock.

PubMed

Charchaflieh, Jean; Wei, Jiandong; Labaze, Georges; Hou, Yunfang Joan; Babarsh, Benjamin; Stutz, Helen; Lee, Haekyung; Worah, Samrat; Zhang, Ming

2012-01-01

Septic shock is a critical clinical condition with a high mortality rate. A better understanding of the underlying mechanisms is important to develop effective therapies. Basic and clinical studies suggest that activation of complements in the common cascade, for example, complement component 3 (C3) and C5, is involved in the development of septic shock. The involvement of three upstream complement pathways in septic shock is more complicated. Both the classical and alternative pathways appear to be activated in septic shock, but the alternative pathway may be activated earlier than the classical pathway. Activation of these two pathways is essential to clear endotoxin. Recent investigations have shed light on the role of lectin complement pathway in septic shock. Published reports suggest a protective role of mannose-binding lectin (MBL) against sepsis. Our preliminary study of MBL-associated serine protease-2 (MASP-2) in septic shock patients indicated that acute decrease of MASP-2 in the early phase of septic shock might correlate with in-hospital mortality. It is unknown whether excessive activation of these three upstream complement pathways may contribute to the detrimental effects in septic shock. This paper also discusses additional complement-related pathogenic mechanisms and intervention strategies for septic shock.

Transition Experiments on Large Bluntness Cones with Distributed Roughness in Hypersonic Flight

NASA Technical Reports Server (NTRS)

Reda, Daniel. C.; Wilder, Michael C.; Prabhu, Dinesh K.

2012-01-01

Large bluntness cones with smooth nosetips and roughened frusta were flown in the NASA Ames hypersonic ballistic range at a Mach number of 10 through quiescent air environments. Global surface intensity (temperature) distributions were optically measured and analyzed to determine transition onset and progression over the roughened surface. Real-gas Navier-Stokes calculations of model flowfields, including laminar boundary layer development in these flowfields, were conducted to predict values of key dimensionless parameters used to correlate transition on such configurations in hypersonic flow. For these large bluntness cases, predicted axial distributions of the roughness Reynolds number showed (for each specified freestream pressure) that this parameter was a maximum at the physical beginning of the roughened zone and decreased with increasing run length along the roughened surface. Roughness-induced transition occurred downstream of this maximum roughness Reynolds number location, and progressed upstream towards the beginning of the roughened zone as freestream pressure was systematically increased. Roughness elements encountered at the upstream edge of the roughened frusta thus acted like a finite-extent trip array, consistent with published results concerning the tripping effectiveness of roughness bands placed on otherwise smooth surfaces.

Gene expression regulation by upstream open reading frames and human disease.

PubMed

Barbosa, Cristina; Peixeiro, Isabel; Romão, Luísa

2013-01-01

Upstream open reading frames (uORFs) are major gene expression regulatory elements. In many eukaryotic mRNAs, one or more uORFs precede the initiation codon of the main coding region. Indeed, several studies have revealed that almost half of human transcripts present uORFs. Very interesting examples have shown that these uORFs can impact gene expression of the downstream main ORF by triggering mRNA decay or by regulating translation. Also, evidence from recent genetic and bioinformatic studies implicates disturbed uORF-mediated translational control in the etiology of many human diseases, including malignancies, metabolic or neurologic disorders, and inherited syndromes. In this review, we will briefly present the mechanisms through which uORFs regulate gene expression and how they can impact on the organism's response to different cell stress conditions. Then, we will emphasize the importance of these structures by illustrating, with specific examples, how disturbed uORF-mediated translational control can be involved in the etiology of human diseases, giving special importance to genotype-phenotype correlations. Identifying and studying more cases of uORF-altering mutations will help us to understand and establish genotype-phenotype associations, leading to advancements in diagnosis, prognosis, and treatment of many human disorders.

Gains and Losses of Transcription Factor Binding Sites in Saccharomyces cerevisiae and Saccharomyces paradoxus

PubMed Central

Schaefke, Bernhard; Wang, Tzi-Yuan; Wang, Chuen-Yi; Li, Wen-Hsiung

2015-01-01

Gene expression evolution occurs through changes in cis- or trans-regulatory elements or both. Interactions between transcription factors (TFs) and their binding sites (TFBSs) constitute one of the most important points where these two regulatory components intersect. In this study, we investigated the evolution of TFBSs in the promoter regions of different Saccharomyces strains and species. We divided the promoter of a gene into the proximal region and the distal region, which are defined, respectively, as the 200-bp region upstream of the transcription starting site and as the 200-bp region upstream of the proximal region. We found that the predicted TFBSs in the proximal promoter regions tend to be evolutionarily more conserved than those in the distal promoter regions. Additionally, Saccharomyces cerevisiae strains used in the fermentation of alcoholic drinks have experienced more TFBS losses than gains compared with strains from other environments (wild strains, laboratory strains, and clinical strains). We also showed that differences in TFBSs correlate with the cis component of gene expression evolution between species (comparing S. cerevisiae and its sister species Saccharomyces paradoxus) and within species (comparing two closely related S. cerevisiae strains). PMID:26220934

Towards the determination of an optimal scale for stormwater quality management: micropollutants in a small residential catchment.

PubMed

Bressy, A; Gromaire, M-C; Lorgeoux, C; Saad, M; Leroy, F; Chebbo, G

2012-12-15

Stormwater and atmospheric deposits were collected on a small residential urban catchment (0.8 ha) near Paris in order to determine the levels of certain micropollutants (using a preliminary scan of 69 contaminants, followed by a more detailed quantification of PAHs, PCBs, alkylphenols and metals). Atmospheric inputs accounted for only 10%-38% of the stormwater contamination (except for PCBs), thus indicating substantial release within the catchment. On this small upstream catchment however, stormwater contamination is significantly lower than that observed downstream in storm sewers on larger adjacent urban catchments with similar land uses. These results likely stem from cross-contamination activity during transfers inside the sewer system and underscore the advantages of runoff management strategies at the source for controlling stormwater pollutant loads. Moreover, it has been shown that both contamination levels and contaminant speciation evolve with the scale of the catchment, in correlation with a large fraction of dissolved contaminants in upstream runoff, which differs from what has been traditionally assumed for stormwater. Consequently, the choice of treatment device/protocol must be adapted to the management scale as well as to the targeted type of contaminant. Copyright © 2011 Elsevier Ltd. All rights reserved.

The use of an aeration system to prevent thermal stratification of a freshwater impoundment and its effect on downstream fish assemblages.

PubMed

Miles, N G; West, R J

2011-03-01

Warm-water riverine fish assemblages were investigated downstream of an impoundment before and after thermal stratification and the associated cold-water pollution was prevented using an aeration system. Temperatures below the dam significantly increased after installation of the aeration system and this correlated with an increased abundance and greater number of species downstream. Overall, aeration appeared to be beneficial for both the lake (upstream) and the downstream riverine environments. © 2011 The Authors. Journal of Fish Biology © 2011 The Fisheries Society of the British Isles.

Influence of initial conditions on the flow patterns of a shock-accelerated thin fluid layer

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

Budzinski, J.M.; Benjamin, R.F.; Jacobs, J.W.

1994-11-01

Previous observations of three flow patterns generated by shock acceleration of a thin perturbed, fluid layer are now correlated with asymmetries in the initial conditions. Using a different diagnostic (planar laser Rayleigh scattering) than the previous experiments, upstream mushrooms, downstream mushrooms, and sinuous patterns are still observed. For each experiment the initial perturbation amplitude on one side of the layer can either be larger, smaller, or the same as the amplitude on the other side, as observed with two images per experiment, and these differences lead to the formation of the different patterns.

The genetic basis of adaptive pigmentation variation in Drosophila melanogaster.

PubMed

Pool, John E; Aquadro, Charles F

2007-07-01

In a broad survey of Drosophila melanogaster population samples, levels of abdominal pigmentation were found to be highly variable and geographically differentiated. A strong positive correlation was found between dark pigmentation and high altitude, suggesting adaptation to specific environments. DNA sequence polymorphism at the candidate gene ebony revealed a clear association with the pigmentation of homozygous third chromosome lines. The darkest lines sequenced had nearly identical haplotypes spanning 14.5 kb upstream of the protein-coding exons of ebony. Thus, natural selection may have elevated the frequency of an allele that confers dark abdominal pigmentation by influencing the regulation of ebony.

ION ACCELERATION AT THE QUASI-PARALLEL BOW SHOCK: DECODING THE SIGNATURE OF INJECTION

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

Sundberg, Torbjörn; Haynes, Christopher T.; Burgess, D.

Collisionless shocks are efficient particle accelerators. At Earth, ions with energies exceeding 100 keV are seen upstream of the bow shock when the magnetic geometry is quasi-parallel, and large-scale supernova remnant shocks can accelerate ions into cosmic-ray energies. This energization is attributed to diffusive shock acceleration; however, for this process to become active, the ions must first be sufficiently energized. How and where this initial acceleration takes place has been one of the key unresolved issues in shock acceleration theory. Using Cluster spacecraft observations, we study the signatures of ion reflection events in the turbulent transition layer upstream of the terrestrial bowmore » shock, and with the support of a hybrid simulation of the shock, we show that these reflection signatures are characteristic of the first step in the ion injection process. These reflection events develop in particular in the region where the trailing edge of large-amplitude upstream waves intercept the local shock ramp and the upstream magnetic field changes from quasi-perpendicular to quasi-parallel. The dispersed ion velocity signature observed can be attributed to a rapid succession of ion reflections at this wave boundary. After the ions’ initial interaction with the shock, they flow upstream along the quasi-parallel magnetic field. Each subsequent wavefront in the upstream region will sweep the ions back toward the shock, where they gain energy with each transition between the upstream and the shock wave frames. Within three to five gyroperiods, some ions have gained enough parallel velocity to escape upstream, thus completing the injection process.« less

76 FR 39063 - Proposed Flood Elevation Determinations

Federal Register 2010, 2011, 2012, 2013, 2014

2011-07-05

...,000 None +6802 feet upstream of Rodeo Road. Arroyo De La Piedra Approximately 300 feet +7099 +7103... +7043 City of Santa Fe. upstream of the Arroyo De La Piedra confluence. Approximately 600 feet None.... Approximately 0.3 mile None +7780 upstream of La Entrada. East Arroyo De La Piedra At the Arroyo De La None...

75 FR 50955 - Proposed Flood Elevation Determinations

Federal Register 2010, 2011, 2012, 2013, 2014

2010-08-18

... the intersection of of Kennebunk, Town of Great Hill Road and Kennebunkport, Town of Sand Dollar Lane... Boston Road. Little Ossipee River Approximately 0.6 mile None +287 Town of Hollis. upstream of Sand Pond Road. Approximately 0.9 mile None +287 upstream of Sand Pond Road. Little River Just upstream of the...

The "WFD-effect" on upstream-downstream relations in international river basins - insights from the Rhine and the Elbe basins

NASA Astrophysics Data System (ADS)

Moellenkamp, S.

2007-06-01

The upstream-downstream relationship in international river basins is a traditional challenge in water management. Water use in upstream countries often has a negative impact on water use in downstream countries. This is most evident in the classical example of industrial pollution in upstream countries hindering drinking water production downstream. The European Water Framework Directive (WFD) gives new impetus to the river basin approach and to international co-operation in European catchments. It aims at transforming a mainly water quality oriented management into a more integrated approach of ecosystem management. After discussing the traditional upstream-downstream relationship, this article shows that the WFD has a balancing effect on upstream-downstream problems and that it enhances river basin solidarity in international basins. While it lifts the downstream countries to the same level as the upstream countries, it also leads to new duties for the downstream states. Following the ecosystem approach, measures taken by downstream countries become increasingly more important. For example, downstream countries need to take measures to allow for migrating fish species to reach upstream stretches of river systems. With the WFD, fish populations receive increased attention, as they are an important indicator for the ecological status. The European Commission acquires a new role of inspection and control in river basin management, which finally also leads to enhanced cooperation and solidarity among the states in a basin. In order to achieve better water quality and to mitigate upstream-downstream problems, also economic instruments can be applied and the WFD does not exclude the possibility of making use of financial compensations, if at the same time the polluter pays principle is taken into account. The results presented in this article originate from a broader study on integrated water resources management conducted at Bonn University and refer to the Rhine and Elbe basins (Moellenkamp, 2006).

Transgender Veterans' Satisfaction With Care and Unmet Health Needs.

PubMed

Lehavot, Keren; Katon, Jodie G; Simpson, Tracy L; Shipherd, Jillian C

2017-09-01

Transgender individuals are overrepresented among Veterans. However, little is known regarding their satisfaction with Veterans Administration (VA) care and unmet health needs. This study examined transgender Veterans' satisfaction with VA medical and mental health care, prevalence of delaying care, and correlates of these outcomes. We used data from transgender Veterans collected in 2014 through an online, national survey. In total, 298 transgender Veterans living in the United States. We assessed patient satisfaction with VA medical and mental health care and self-reported delays in seeking medical and mental health care in the past year. Potential correlates associated with these 4 outcomes included demographic, health, and health care variables. Over half of the sample used VA (56%) since their military discharge. Among transgender Veterans who had used VA, 79% were satisfied with medical care and 69% with mental health care. Lower income was associated with dissatisfaction with VA medical care, and being a transgender man was associated with dissatisfaction with VA mental health care. A substantial proportion reported delays in seeking medical (46%) or mental (38%) health care in the past year (not specific to VA). Screening positive for depression and/or posttraumatic stress disorder was associated with delays in seeking both types of care. Although the majority of transgender Veterans are satisfied with VA health care, certain subgroups are less likely to be satisfied with care. Further, many report delaying accessing care, particularly those with depression and/or posttraumatic stress disorder symptoms. Adapting health care settings to better engage these vulnerable Veterans may be necessary.

Characterization of the Truncated Androgen Receptor Generated by Calpain-Dependent Proteolysis in Prostate Cancer

DTIC Science & Technology

2009-08-31

hierarchical network of transcription factors governs androgen receptor-dependent prostate cancer growth. Mol Cell, 2007. 27(3): p. 380 -92. 26. Takayama, K...TSS_upstream * 69570641 69571326 0.02 UGT2B15 -5 TSS_upstream 71417985 71418195 0.05 UNQ689 -796 TSS_upstream 29 83631386 83632082 0.02 MASA 60948

Setting up psychiatric services: cross-cultural issues in planning and delivery.

PubMed

Bhugra, D

1997-01-01

There is convincing evidence that in the UK, various ethnic minorities are over-represented in psychiatric hospitals, prisons and special hospitals. Various explanations have been put forward for this picture. The expanding emphasis on community care means that models for looking after ethnic communities should be innovative and work from a bottom-up approach. Psychiatric emphasis on clinical diagnoses means that services are developed according to the diagnoses rather than needs.

Hydrological network and classification of lakes on the Third Pole

NASA Astrophysics Data System (ADS)

Gao, Yang; Wang, Weicai; Yao, Tandong; Lu, Ning; Lu, Anxin

2018-05-01

The intensity and form of changes in closed lakes, upstream lakes and outflow lakes on the Third Pole (TP) differ based on their drainage mode. Researchers' insufficient understanding of the hydrological networks associated with lakes hampers studies of the relationship between lakes and climate. In this study, we establish a comprehensive hydrological network for each lake (>1 km2) on the TP using 106 Landsat images, 236 Chinese topographic maps, and SRTM DEM. Three-hundred-ninety-seven closed lakes, 488 upstream lakes and 317 outflow lakes totaling 3,5498.49 km2, 7,378.82 km2, and 3,382.29 km2, respectively, were identified on the TP using 2010 data. Two-hundred-thirty-four closed lakes were found to not be linked to upstream lakes. The remaining 163 closed lakes were connected to and fed by the 488 upstream lakes. The object-oriented analyses within this study indicated that more rapid changes occurred in the surface extent of closed lakes than in upstream lakes or outflow lakes on the TP from 1970 s to 2010. Furthermore, the water volume of the examined closed lakes was almost nine times greater than that of the upstream lakes from 2003 to 2009. All the examined closed lakes exhibited an obvious water volume change compared to the corresponding upstream lakes in the same basin. Furthermore, two case studies illustrate that the annual and seasonal dynamics associated with the changes in closed lakes may reflect climate change patterns, while the upstream lake dynamics may be more controlled by the lakeshore terrain and drainage characteristics. The lake inventory and hydrological network catalogued in this study provide a basis for developing a better understanding of lake response to climate change on the TP.

Water Stress in Global Transboundary River Basins: Significance of Upstream Water Use on Downstream Stress

NASA Technical Reports Server (NTRS)

Munia, H.; Guillaume, J. H. A.; Mirumachi, N.; Porkka,M.; Wada, Yoshihide; Kummu, M.

2016-01-01

Growing population and water demand have increased pressure on water resources in various parts of the globe, including many transboundary river basins. While the impacts of upstream water use on downstream water availability have been analyzed in many of these international river basins, this has not been systematically done at the global scale using coherent and comparable datasets. In this study, we aim to assess the change in downstream water stress due to upstream water use in the world's transboundary river basins. Water stress was first calculated considering only local water use of each sub-basin based on country-basin mesh, then compared with the situation when upstream water use was subtracted from downstream water availability. Wefound that water stress was generally already high when considering only local water use, affecting 0.95-1.44 billion people or 33%-51% of the population in transboundary river basins. After accounting for upstream water use, stress level increased by at least 1 percentage-point for 30-65 sub-basins, affecting 0.29-1.13 billion people. Altogether 288 out of 298 middle-stream and downstream sub-basin areas experienced some change in stress level. Further, we assessed whether there is a link between increased water stress due to upstream water use and the number of conflictive and cooperative events in the transboundary river basins, as captured by two prominent databases. No direct relationship was found. This supports the argument that conflicts and cooperation events originate from a combination of different drivers, among which upstream-induced water stress may play a role. Our findings contribute to better understanding of upstream-downstream dynamics in water stress to help address water allocation problems.

Monolithic fuel injector and related manufacturing method

DOEpatents

Ziminsky, Willy Steve [Greenville, SC; Johnson, Thomas Edward [Greenville, SC; Lacy, Benjamin [Greenville, SC; York, William David [Greenville, SC; Stevenson, Christian Xavier [Greenville, SC

2012-05-22

A monolithic fuel injection head for a fuel nozzle includes a substantially hollow vesicle body formed with an upstream end face, a downstream end face and a peripheral wall extending therebetween, an internal baffle plate extending radially outwardly from a downstream end of the bore, terminating short of the peripheral wall, thereby defining upstream and downstream fuel plenums in the vesicle body, in fluid communication by way of a radial gap between the baffle plate and the peripheral wall. A plurality of integral pre-mix tubes extend axially through the upstream and downstream fuel plenums in the vesicle body and through the baffle plate, with at least one fuel injection hole extending between each of the pre-mix tubes and the upstream fuel plenum, thereby enabling fuel in the upstream plenum to be injected into the plurality of pre-mix tubes. The fuel injection head is formed by direct metal laser sintering.

Adaptive upstream optical power adjustment depending on required power budget in PON access

NASA Astrophysics Data System (ADS)

Yeh, C. H.; Chow, C. W.; Liu, Y. L.

2012-11-01

According to the present passive optical network (PON) standard, the fiber transmission lengths are from 500 m to 20 km between the optical line terminal (OLT) and different optical network units (ONUs). It will result in difference power losses (ΔPloss) from 4 to 5 dB. Hence, we propose to adjust adaptively the output optical power of the upstream laser diode (LD) depending on the different fiber lengths. With the different fiber transmission lengths, we can properly adjust the bias current and modulation index of upstream LD for energy-saving. We characterize and analyze experimentally the relationship of output optical power and modulation amplitude Vamp under different fiber transmissions in PON access. Moreover, due to the adaptive power control of upstream signal, the optical upstream equalization also can be retrieved with power variation of 1.1 dB in this experiment.

Gas flow meter and method for measuring gas flow rate

DOEpatents

Robertson, Eric P.

2006-08-01

A gas flow rate meter includes an upstream line and two chambers having substantially equal, fixed volumes. An adjustable valve may direct the gas flow through the upstream line to either of the two chambers. A pressure monitoring device may be configured to prompt valve adjustments, directing the gas flow to an alternate chamber each time a pre-set pressure in the upstream line is reached. A method of measuring the gas flow rate measures the time required for the pressure in the upstream line to reach the pre-set pressure. The volume of the chamber and upstream line are known and fixed, thus the time required for the increase in pressure may be used to determine the flow rate of the gas. Another method of measuring the gas flow rate uses two pressure measurements of a fixed volume, taken at different times, to determine the flow rate of the gas.

Staged electrostatic precipitator

DOEpatents

Miller, Stanley J.; Almlie, Jay C.; Zhuang, Ye

2016-03-01

A device includes a chamber having an air inlet and an air outlet. The device includes a plurality of stages including at least a first stage adjacent a second stage. The plurality of stages are disposed in the chamber and each stage has a plurality of discharge electrodes disposed in an interior region and is bounded by an upstream baffle on an end proximate the air inlet and bounded by a downstream baffle on an end proximate the air outlet. Each stage has at least one sidewall between the upstream baffle and the downstream baffle. The sidewall is configured as a collection electrode and has a plurality of apertures disposed along a length between the upstream baffle and the downstream baffle. The upstream baffle of the first stage is positioned in staggered alignment relative to the upstream baffle of the second stage and the downstream baffle of the first stage are positioned in staggered alignment relative to the downstream baffle of the second stage.

Internal baffling for fuel injector

DOEpatents

Johnson, Thomas Edward; Lacy, Benjamin; Stevenson, Christian

2014-08-05

A fuel injector includes a fuel delivery tube; a plurality of pre-mixing tubes, each pre-mixing tube comprising at least one fuel injection hole; an upstream tube support plate that supports upstream ends of the plurality of pre-mixing tubes; a downstream tube support plate that supports downstream ends of the plurality of pre-mixing tubes; an outer wall connecting the upstream tube support plate and the downstream tube support plate and defining a plenum therewith; and a baffle provided in the plenum. The baffle includes a radial portion. A fuel delivered in the upstream direction by the fuel delivery tube is directed radially outwardly in the plenum between the radial portion of the baffle and the downstream tube support plate, then in the downstream direction around an outer edge portion of the radial portion, and then radially inwardly between the radial portion and the upstream tube support plate.

Activation of the alpha-globin gene expression correlates with dramatic upregulation of nearby non-globin genes and changes in local and large-scale chromatin spatial structure.

PubMed

Ulianov, Sergey V; Galitsyna, Aleksandra A; Flyamer, Ilya M; Golov, Arkadiy K; Khrameeva, Ekaterina E; Imakaev, Maxim V; Abdennur, Nezar A; Gelfand, Mikhail S; Gavrilov, Alexey A; Razin, Sergey V

2017-07-11

In homeotherms, the alpha-globin gene clusters are located within permanently open genome regions enriched in housekeeping genes. Terminal erythroid differentiation results in dramatic upregulation of alpha-globin genes making their expression comparable to the rRNA transcriptional output. Little is known about the influence of the erythroid-specific alpha-globin gene transcription outburst on adjacent, widely expressed genes and large-scale chromatin organization. Here, we have analyzed the total transcription output, the overall chromatin contact profile, and CTCF binding within the 2.7 Mb segment of chicken chromosome 14 harboring the alpha-globin gene cluster in cultured lymphoid cells and cultured erythroid cells before and after induction of terminal erythroid differentiation. We found that, similarly to mammalian genome, the chicken genomes is organized in TADs and compartments. Full activation of the alpha-globin gene transcription in differentiated erythroid cells is correlated with upregulation of several adjacent housekeeping genes and the emergence of abundant intergenic transcription. An extended chromosome region encompassing the alpha-globin cluster becomes significantly decompacted in differentiated erythroid cells, and depleted in CTCF binding and CTCF-anchored chromatin loops, while the sub-TAD harboring alpha-globin gene cluster and the upstream major regulatory element (MRE) becomes highly enriched with chromatin interactions as compared to lymphoid and proliferating erythroid cells. The alpha-globin gene domain and the neighboring loci reside within the A-like chromatin compartment in both lymphoid and erythroid cells and become further segregated from the upstream gene desert upon terminal erythroid differentiation. Our findings demonstrate that the effects of tissue-specific transcription activation are not restricted to the host genomic locus but affect the overall chromatin structure and transcriptional output of the encompassing topologically associating domain.

Seismo-turbidite Sedimentology: Implications for Active Tectonic Margin Stratigraphy and Sediment Facies Patterns

NASA Astrophysics Data System (ADS)

Nelson, C. H.; Goldfinger, C.; Gutierrez Pastor, J.; Polonia, A.; Van Daele, M. E.

2014-12-01

Earthquakes generate mass transport deposits (MTDs); megaturbidites (MTD overlain by coeval turbidite); multi-pulsed, stacked, and mud homogenite seismo-turbidites; tsunamites; and seiche deposits. The strongest (Mw 9) earthquake shaking signatures appear to create multi-pulsed individual turbidites, where the number and character of multiple coarse-grained pulses for correlative turbidites generally remain constant both upstream and downstream in different channel systems. Multiple turbidite pulses, that correlate with multiple ruptures shown in seismograms of historic earthquakes (e.g. Chile 1960, Sumatra 2004 and Japan 2011), support this hypothesis. The weaker (Mw = or < 8) (e.g. northern California San Andreas) earthquakes generate dominantly upstream simple fining-up (uni-pulsed) turbidites in single tributary canyons and channels; however, downstream stacked turbidites result from synchronously triggered multiple turbidity currents that deposit in channels below confluences of the tributaries. Proven tsunamites, which result from tsunami waves sweeping onshore and shallow water debris into deeper water, are a fine-grained turbidite cap over other seismo-turbidites. In contrast, MTDs and seismo-turbidites result from slope failures. Multiple great earthquakes cause seismic strengthening of slope sediment, which results in minor MTDs in basin floor turbidite system deposits (e.g. maximum run-out distances of MTDs across basin floors along active margins are up to an order of magnitude less than on passive margins). In contrast, the MTDs and turbidites are equally intermixed in turbidite systems of passive margins (e.g. Gulf of Mexico). In confined basin settings, earthquake triggering results in a common facies pattern of coeval megaturbidites in proximal settings, thick stacked turbidites downstream, and ponded muddy homogenite turbidites in basin or sub-basin centers, sometimes with a cap of seiche deposits showing bi-directional flow patterns.

The influence of reservoirs, climate, land use and hydrologic conditions on loads and chemical quality of dissolved organic carbon in the Colorado River

USGS Publications Warehouse

Miller, Matthew P.

2012-01-01

Longitudinal patterns in dissolved organic carbon (DOC) loads and chemical quality were identified in the Colorado River from the headwaters in the Rocky Mountains to the United States-Mexico border from 1994 to 2011. Watershed- and reach-scale climate, land use, river discharge and hydrologic modification conditions that contribute to patterns in DOC were also identified. Principal components analysis (PCA) identified site-specific precipitation and reach-scale discharge as being correlated with sites in the upper basin, where there were increases in DOC load from the upstream to downstream direction. In the lower basin, where DOC load decreased from upstream to downstream, sites were correlated with site-specific temperature and reach-scale population, urban land use and hydrologic modification. In the reaches containing Lakes Powell and Mead, the two largest reservoirs in the United States, DOC quantity decreased, terrestrially derived aromatic DOC was degraded and/or autochthonous less aromatic DOC was produced. Taken together, these results suggest that longitudinal patterns in the relatively unregulated upper basin are influenced by watershed inputs of water and DOC, whereas DOC patterns in the lower basin are reflective of a balance between watershed contribution of water and DOC to the river and loss of water and DOC due to hydrologic modification and/or biogeochemical processes. These findings suggest that alteration of constituent fluxes in rivers that are highly regulated may overshadow watershed processes that would control fluxes in comparable unregulated rivers. Further, these results provide a foundation for detailed assessments of factors controlling the transport and chemical quality of DOC in the Colorado River.

Concomitant expression of far upstream element (FUSE) binding protein (FBP) interacting repressor (FIR) and its splice variants induce migration and invasion of non-small cell lung cancer (NSCLC) cells.

PubMed

Müller, Benedikt; Bovet, Michael; Yin, Yi; Stichel, Damian; Malz, Mona; González-Vallinas, Margarita; Middleton, Alistair; Ehemann, Volker; Schmitt, Jennifer; Muley, Thomas; Meister, Michael; Herpel, Esther; Singer, Stephan; Warth, Arne; Schirmacher, Peter; Drasdo, Dirk; Matthäus, Franziska; Breuhahn, Kai

2015-11-01

Transcription factors integrate a variety of oncogenic input information, facilitate tumour growth and cell dissemination, and therefore represent promising therapeutic target structures. Because over-expression of DNA-interacting far upstream element binding protein (FBP) supports non-small cell lung cancer (NSCLC) migration, we asked whether its repressor, FBP-interacting repressor (FIR) is functionally inactivated and how FIR might affect NSCLC cell biology. Different FIR splice variants were highly expressed in the majority of NSCLCs, with the highest levels in tumours carrying genomic gains of chromosome 8q24.3, which contained the FIR gene locus. Nuclear FIR expression was significantly enriched at the invasion front of primary NSCLCs, but this did not correlate with tumour cell proliferation. FIR accumulation was associated with worse patient survival and tumour recurrence; in addition, FIR over-expression significantly correlated with lymph node metastasis in squamous cell carcinomas (SCCs). In vitro, we applied newly developed methods and modelling approaches for the quantitative and time-resolved description of the pro-migratory and pro-invasive capacities of SCC cells. siRNA-mediated silencing of all FIR variants significantly reduced the speed and directional movement of tumour cells in all phases of migration. Furthermore, sprouting efficiency and single cell invasiveness were diminished following FIR inhibition. Interestingly, the silencing of FIR isoforms lacking exon 2 (FIR(Δexon2)) alone was sufficient to reduce lateral migration and invasion. In summary, by using scale-spanning data derived from primary human tissues, quantitative cellular analyses and mathematical modelling, we have demonstrated that concomitant over-expression of FIR and its splice variants drives NSCLC migration and dissemination. Copyright © 2015 Pathological Society of Great Britain and Ireland. Published by John Wiley & Sons, Ltd.

Mixing and NO(x) Emission Calculations of Confined Reacting Jet Flows in a Cylindrical Duct

NASA Technical Reports Server (NTRS)

Holdeman, James D. (Technical Monitor); Oechsle, Victor L.

2003-01-01

Rapid mixing of cold lateral jets with hot cross-stream flows in confined configurations is of practical interest in gas turbine combustors as it strongly affects combustor exit temperature quality, and gaseous emissions in for example rich-lean combustion. It is therefore important to further improve our fundamental understanding of the important processes of dilution jet mixing especially when the injected jet mass flow rate exceeds that of the cross-stream. The results reported in this report describe some of the main flow characteristics which develop in the mixing process in a cylindrical duct. A 3-dimensional tool has been used to predict the mixing flow field characteristics and NOx emission in a quench section of an RQL combustor, Eighteen configurations have been analyzed in a circular geometry in a fully reacting environment simulating the operating condition of an actual RQL gas turbine combustion liner. The evaluation matrix was constructed by varying three parameters: 1) jet-to-mainstream momentum-flux ratio (J), 2) orifice shape or orifice aspect ratio, and 3) slot slant angle. The results indicate that the mixing flow field significantly varies with the value of the jet penetration and subsequently, slanting elongated slots generally improve the mixing uniformity at high J conditions. Round orifices produce more uniform mixing and low NO(x) emissions at low J due to the strong and adequate jet penetration. No significant correlation was found between the NO(x) production rates and the mixing deviation parameters, however, strong correlation was found between NO(x) formation and jet penetration. In the computational results, most of the NO(x) formation occurred behind the orifice starting at the orifice wake region. Additional NO(x) is formed upstream of the orifice in certain configurations with high J conditions due to the upstream recirculation.

A novel long non-coding RNA, hypoxia-inducible factor-2α promoter upstream transcript, functions as an inhibitor of osteosarcoma stem cells in vitro.

PubMed

Wang, Yongcheng; Yao, Jie; Meng, Haoye; Yu, Zhiguo; Wang, Zhigang; Yuan, Xueling; Chen, Hong; Wang, Aiyuan

2015-04-01

Long non‑coding RNAs (lncRNAs) have recently been identified as novel modulators of malignant tumors. However, the function of lncRNAs in cancer stem cells (CSCs) remains to be elucidated. The present study aimed to investigate the regulating role of a novel lncRNA, hypoxia‑inducible factor‑2α (HIF‑2α) promoter upstream transcript (HIF2PUT), in osteosarcoma stem cells. The expression levels of HIF2PUT were assessed by quantitative polymerase chain reaction in 17 osteosarcoma tissue specimens, and the correlation between the expression of HIF2PUT and its host transcript‑HIF‑2α was determined. In functional experiments, HIF2PUT expression was knocked down by small interfering RNAs, or overexpressed by transfection with pcDNA‑HIF2PUT, in order to evaluate the effects of HIF2PUT on cell proliferation, migration, expression rate of osteosarcoma stem cell marker CD133, and stem sphere‑forming ability in MG63 cells. HIF2PUT expression levels were positively correlated with HIF‑2α in osteosarcoma tissues. Overexpression of HIF2PUT markedly inhibited cell proliferation and migration, decreased the percentage of CD133 expressing cells, and impaired the osteosarcoma stem sphere‑forming ability of the MG63 cells. Whereas, knockdown of HIF2PUT expression had the opposite effect. Furthermore, altering the expression of HIF2PUT resulted in a concomitant change to HIF‑2α mRNA expression. These results indicate that the lncRNA HIF2PUT may be a novel regulatory factor of osteosarcoma stem cells, which may exert its function partly by controlling HIF‑2α expression. Further studies regarding HIF2PUT may provide a novel therapeutic target of osteosarcoma in the future.

Urbanization is a major influence on microplastic ingestion by sunfish in the Brazos River Basin, Central Texas, USA.

PubMed

Peters, Colleen A; Bratton, Susan P

2016-03-01

Microplastics, degraded and weathered polymer-based particles, and manufactured products ranging between 50 and 5000 μm in size, are found within marine, freshwater, and estuarine environments. While numerous peer-reviewed papers have quantified the ingestion of microplastics by marine vertebrates, relatively few studies have focused on microplastic ingestion by freshwater organisms. This study documents microplastic and manufactured fiber ingestion by bluegill (Lepomis macrochirus) and longear (Lepomis megalotis) sunfish (Centrarchidae) from the Brazos River Basin, between Lake Whitney and Marlin, Texas, USA. Fourteen sample sites were studied and categorized into urban, downstream, and upstream areas. A total of 436 sunfish were collected, and 196 (45%) stomachs contained microplastics. Four percent (4%) of items sampled were debris on the macro size scale (i.e. >5 mm) and consisted of masses of plastic, metal, Styrofoam, or fishing material, while 96% of items sampled were in the form of microplastic threads. Fish length was statistically correlated to the number of microplastics detected (p = 0.019). Fish collected from urban sites displayed the highest mean number of microplastics ingested, followed by downstream and upstream sites. Microplastics were associated with the ingestion of other debris items (e.g. sand and wood) and correlated to the ingestion of fish eggs, earthworms, and mollusks, suggesting that sunfish incidentally ingest microplastics during their normal feeding methods. The high frequency of microplastic ingestion suggest that further research is needed to determine the residence time of microplastics within the stomach and gut, potential for food web transfer, and adverse effects on wildlife and ecosystemic health. Copyright © 2016 Elsevier Ltd. All rights reserved.

A correlation study regarding the AE index and ACE solar wind data for Alfvénic intervals using wavelet decomposition and reconstruction

NASA Astrophysics Data System (ADS)

Guarnieri, Fernando L.; Tsurutani, Bruce T.; Vieira, Luis E. A.; Hajra, Rajkumar; Echer, Ezequiel; Mannucci, Anthony J.; Gonzalez, Walter D.

2018-01-01

The purpose of this study is to present a wavelet interactive filtering and reconstruction technique and apply this to the solar wind magnetic field components detected at the L1 Lagrange point ˜ 0.01 AU upstream of the Earth. These filtered interplanetary magnetic field (IMF) data are fed into a model to calculate a time series which we call AE∗. This model was adjusted assuming that magnetic reconnection associated with southward-directed IMF Bz is the main mechanism transferring energy into the magnetosphere. The calculated AE∗ was compared to the observed AE (auroral electrojet) index using cross-correlation analysis. The results show correlations as high as 0.90. Empirical removal of the high-frequency, short-wavelength Alfvénic component in the IMF by wavelet decomposition is shown to dramatically improve the correlation between AE∗ and the observed AE index. It is envisioned that this AE∗ can be used as the main input for a model to forecast relativistic electrons in the Earth's outer radiation belts, which are delayed by ˜ 1 to 2 days from intense AE events.

Electron heating at interplanetary shocks

NASA Technical Reports Server (NTRS)

Feldman, W. C.; Asbridge, J. R.; Bame, S. J.; Gosling, J. T.; Zwickl, R. D.

1982-01-01

Data for 41 forward interplanetary shocks show that the ratio of downstream to upstream electron temperatures, T/sub e/(d/u) is variable in the range between 1.0 (isothermal) and 3.0. On average, (T/sub e/(d/u) = 1.5 with a standard deviation, sigma e = 0.5. This ratio is less than the average ratio of proton temperatures across the same shocks, (T/sub p/(d/u)) = 3.3 with sigma p = 2.5 as well as the average ratio of electron temperatures across the Earth's bow shock. Individual samples of T/sub e/(d/u) and T/sub p/(d/u) appear to be weakly correlated with the number density ratio. However the amounts of electron and proton heating are well correlated with each other as well as with the bulk velocity difference across each shock. The stronger shocks appear to heat the protons relatively more efficiently than they heat the electrons.

Conductometric Sensor for Soot Mass Flow Detection in Exhausts of Internal Combustion Engines

PubMed Central

Feulner, Markus; Hagen, Gunter; Müller, Andreas; Schott, Andreas; Zöllner, Christian; Brüggemann, Dieter; Moos, Ralf

2015-01-01

Soot sensors are required for on-board diagnostics (OBD) of automotive diesel particulate filters (DPF) to detect filter failures. Widely used for this purpose are conductometric sensors, measuring an electrical current or resistance between two electrodes. Soot particles deposit on the electrodes, which leads to an increase in current or decrease in resistance. If installed upstream of a DPF, the “engine-out” soot emissions can also be determined directly by soot sensors. Sensors were characterized in diesel engine real exhausts under varying operation conditions and with two different kinds of diesel fuel. The sensor signal was correlated to the actual soot mass and particle number, measured with an SMPS. Sensor data and soot analytics (SMPS) agreed very well, an impressing linear correlation in a double logarithmic representation was found. This behavior was even independent of the used engine settings or of the biodiesel content. PMID:26580621

Conductometric Sensor for Soot Mass Flow Detection in Exhausts of Internal Combustion Engines.

PubMed

Feulner, Markus; Hagen, Gunter; Müller, Andreas; Schott, Andreas; Zöllner, Christian; Brüggemann, Dieter; Moos, Ralf

2015-11-13

Soot sensors are required for on-board diagnostics (OBD) of automotive diesel particulate filters (DPF) to detect filter failures. Widely used for this purpose are conductometric sensors, measuring an electrical current or resistance between two electrodes. Soot particles deposit on the electrodes, which leads to an increase in current or decrease in resistance. If installed upstream of a DPF, the "engine-out" soot emissions can also be determined directly by soot sensors. Sensors were characterized in diesel engine real exhausts under varying operation conditions and with two different kinds of diesel fuel. The sensor signal was correlated to the actual soot mass and particle number, measured with an SMPS. Sensor data and soot analytics (SMPS) agreed very well, an impressing linear correlation in a double logarithmic representation was found. This behavior was even independent of the used engine settings or of the biodiesel content.

Floods, Habitat Hydraulics and Upstream Migration of Neritina virginea (Gastropoda: Neritidae) in Northeastern Puerto Rico.

Treesearch

JUAN F. BLANCO; FREDERICK N. SCATENA

2005-01-01

Massive upstream migrations of neritid snails (Neritidae: Gastropoda) occur in tropical and subtropical streams worldwide, but their seasonality and proximate causes are unknown. We monitored massive upstream migrations of Neritina virginea for 99 weeks, and conducted a detailed study of snail density, size, and hydraulic descriptors in lower Río Mameyes, northeastern...

Unmasking Upstream Gene Expression Regulators with miRNA-corrected mRNA Data

PubMed Central

Bollmann, Stephanie; Bu, Dengpan; Wang, Jiaqi; Bionaz, Massimo

2015-01-01

Expressed micro-RNA (miRNA) affects messenger RNA (mRNA) abundance, hindering the accuracy of upstream regulator analysis. Our objective was to provide an algorithm to correct such bias. Large mRNA and miRNA analyses were performed on RNA extracted from bovine liver and mammary tissue. Using four levels of target scores from TargetScan (all miRNA:mRNA target gene pairs or only the top 25%, 50%, or 75%). Using four levels of target scores from TargetScan (all miRNA:mRNA target gene pairs or only the top 25%, 50%, or 75%) and four levels of the magnitude of miRNA effect (ME) on mRNA expression (30%, 50%, 75%, and 83% mRNA reduction), we generated 17 different datasets (including the original dataset). For each dataset, we performed upstream regulator analysis using two bioinformatics tools. We detected an increased effect on the upstream regulator analysis with larger miRNA:mRNA pair bins and higher ME. The miRNA correction allowed identification of several upstream regulators not present in the analysis of the original dataset. Thus, the proposed algorithm improved the prediction of upstream regulators. PMID:27279737

Big Spring spinedace and associated fish populations and habitat conditions in Condor Canyon, Meadow Valley Wash, Nevada

USGS Publications Warehouse

Jezorek, Ian G.; Connolly, Patrick J.; Munz, Carrie S.; Dixon, Chris

2011-01-01

Executive Summary: This project was designed to document habitat conditions and populations of native and non-native fish within the 8-kilometer Condor Canyon section of Meadow Valley Wash, Nevada, with an emphasis on Big Spring spinedace (Lepidomeda mollispinis pratensis). Other native fish present were speckled dace (Rhinichthys osculus) and desert sucker (Catostomus clarki). Big Spring spinedace were known to exist only within this drainage and were known to have been extirpated from a portion of their former habitat located downstream of Condor Canyon. Because of this extirpation and the limited distribution of Big Spring spinedace, the U.S. Fish and Wildlife Service listed this species as threatened under the Endangered Species Act in 1985. Prior to our effort, little was known about Big Spring spinedace populations or life histories and habitat associations. In 2008, personnel from the U.S. Geological Survey's Columbia River Research Laboratory began surveys of Meadow Valley Wash in Condor Canyon. Habitat surveys characterized numerous variables within 13 reaches, thermologgers were deployed at 9 locations to record water temperatures, and fish populations were surveyed at 22 individual sites. Additionally, fish were tagged with Passive Integrated Transponder (PIT) tags, which allowed movement and growth information to be collected on individual fish. The movements of tagged fish were monitored with a combination of recapture events and stationary in-stream antennas, which detected tagged fish. Meadow Valley Wash within Condor Canyon was divided by a 12-meter (m) waterfall known as Delmue Falls. About 6,100 m of stream were surveyed downstream of the falls and about 2,200 m of stream were surveyed upstream of the falls. Although about three-quarters of the surveyed stream length was downstream of Delmue Falls, the highest densities and abundance of native fish were upstream of the falls. Big Spring spinedace and desert sucker populations were highest near the upper end of Condor Canyon, where a tributary known as Kill Wash, and several springs, contribute flow and moderate high and low water temperature. Kill Wash and the area around its confluence with Meadow Valley Wash appeared important for spawning of all three native species. Detections of PIT-tagged fish indicated that there were substantial movements to this area during the spring. Our surveys included about 700 m of Meadow Valley Wash upstream of Kill Wash. A small falls about 2 m high was about 560 m upstream of Kill Wash. This falls is likely a barrier to upstream fish movement at most flows. Populations of all three native species were found upstream of this small falls. Age-0 fish of all three species were present, indicating successful spawning. The maximum upstream extent of native fish within Meadow Valley Wash was not determined. Our surveys included about 700 m of Meadow Valley Wash upstream of Kill Wash. A small falls about 2 m high was about 560 m upstream of Kill Wash. This falls is likely a barrier to upstream fish movement at most flows. Populations of all three native species were found upstream of this small falls. Age-0 fish of all three species were present, indicating successful spawning. The maximum upstream extent of native fish within Meadow Valley Wash was not determined. A population of non-native rainbow trout (Oncorhynchus mykiss) was found within the 2,000 m of stream immediately downstream of Delmue Falls. Non-native crayfish were very common both upstream and downstream of Delmue Falls. We were not able to quantify crayfish populations, but they compose a significant portion of the biomass of aquatic species in Condor Canyon. There were some distinctive habitat features that may have favored native fish upstream of Delmue Falls. Upstream of the falls, water temperatures were moderated by inputs from springs, turbidity was lower, pool habitat was more prevalent, substrate heterogeneity was higher, and there was less fine sediment than

Upstream capacity upgrade in TDM-PON using RSOA based tunable fiber ring laser.

PubMed

Yi, Lilin; Li, Zhengxuan; Dong, Yi; Xiao, Shilin; Chen, Jian; Hu, Weisheng

2012-04-23

An upstream multi-wavelength shared (UMWS) time division multiplexing passive optical network (TDM-PON) is presented by using a reflective semiconductor amplifier (RSOA) and tunable optical filter (TOF) based directly modulated fiber ring laser as upstream laser source. The stable laser operation is easily achieved no matter what the bandwidth and shape of the TOF is and it can be directly modulated when the RSOA is driven at its saturation region. In this UMWS TDM-PON system, an individual wavelength can be assigned to the user who has a high bandwidth demand by tuning the central wavelength of the TOF in its upgraded optical network unit (ONU), while others maintain their traditional ONU structure and share the bandwidth via time slots, which greatly and dynamically upgrades the upstream capacity. We experimentally demonstrated the bidirectional transmission of downstream data at 10-Gb/s and upstream data at 1.25-Gb/s per wavelength over 25-km single mode fiber (SMF) with almost no power penalty at both ends. A stable performance is observed for the upstream wavelength tuned from 1530 nm to 1595 nm. Moreover, due to the high extinction ratio (ER) of the upstream signal, the burst-mode transmitting is successfully presented and a better time-division multiplexing performance can be obtained by turning off the unused lasers thanks to the rapid formation of the laser in the fiber ring. © 2012 Optical Society of America

3-D Hybrid Kinetic Modeling of the Interaction Between the Solar Wind and Lunar-like Exospheric Pickup Ions in Case of Oblique/ Quasi-Parallel/Parallel Upstream Magnetic Field

NASA Technical Reports Server (NTRS)

Lipatov, A. S.; Farrell, W. M.; Cooper, J. F.; Sittler, E. C., Jr.; Hartle, R. E.

2015-01-01

The interactions between the solar wind and Moon-sized objects are determined by a set of the solar wind parameters and plasma environment of the space objects. The orientation of upstream magnetic field is one of the key factors which determines the formation and structure of bow shock wave/Mach cone or Alfven wing near the obstacle. The study of effects of the direction of the upstream magnetic field on lunar-like plasma environment is the main subject of our investigation in this paper. Photoionization, electron-impact ionization and charge exchange are included in our hybrid model. The computational model includes the self-consistent dynamics of the light (hydrogen (+), helium (+)) and heavy (sodium (+)) pickup ions. The lunar interior is considered as a weakly conducting body. Our previous 2013 lunar work, as reported in this journal, found formation of a triple structure of the Mach cone near the Moon in the case of perpendicular upstream magnetic field. Further advances in modeling now reveal the presence of strong wave activity in the upstream solar wind and plasma wake in the cases of quasiparallel and parallel upstream magnetic fields. However, little wave activity is found for the opposite case with a perpendicular upstream magnetic field. The modeling does not show a formation of the Mach cone in the case of theta(Sub B,U) approximately equal to 0 degrees.

Genome analysis following a national increase in Scarlet Fever in England 2014.

PubMed

Chalker, Victoria; Jironkin, Aleksey; Coelho, Juliana; Al-Shahib, Ali; Platt, Steve; Kapatai, Georgia; Daniel, Roger; Dhami, Chenchal; Laranjeira, Marisa; Chambers, Timothy; Guy, Rebecca; Lamagni, Theresa; Harrison, Timothy; Chand, Meera; Johnson, Alan P; Underwood, Anthony

2017-03-10

During a substantial elevation in scarlet fever (SF) notifications in 2014 a national genomic study was undertaken of Streptococcus pyogenes (Group A Streptococci, GAS) isolates from patients with SF with comparison to isolates from patients with invasive disease (iGAS) to test the hypotheses that the increase in SF was due to either the introduction of one or more new/emerging strains in the population in England or the transmission of a known genetic element through the population of GAS by horizontal gene transfer (HGT) resulting in infections with an increased likelihood of causing SF. Isolates were collected to provide geographical representation, for approximately 5% SF isolates from each region from 1 st April 2014 to 18 th June 2014. Contemporaneous iGAS isolates for which genomic data were available were included for comparison. Data were analysed in order to determine emm gene sequence type, phylogenetic lineage and genomic clade representation, the presence of known prophage elements and the presence of genes known to confer pathogenicity and resistance to antibiotics. 555 isolates were analysed, 303 from patients with SF and 252 from patients with iGAS. Isolates from patients with SF were of multiple distinct emm sequence types and phylogenetic lineages. Prior to data normalisation, emm3 was the predominant type (accounting for 42.9% of SF isolates, 130/303 95%CI 37.5-48.5; 14.7% higher than the percentage of emm3 isolates found in the iGAS isolates). Post-normalisation emm types, 4 and 12, were found to be over-represented in patients with SF versus iGAS (p < 0.001). A single gene, ssa, was over-represented in isolates from patients with SF. No single phage was found to be over represented in SF vs iGAS. However, a "meta-ssa" phage defined by the presence of :315.2, SPsP6, MGAS10750.3 or HK360ssa, was found to be over represented. The HKU360.vir phage was not detected yet the HKU360.ssa phage was present in 43/63 emm12 isolates but not found to be over-represented in isolates from patients with SF. There is no evidence that the increased number of SF cases was a strain-specific or known mobile element specific phenomenon, as the increase in SF cases was associated with multiple lineages of GAS.

Genetic polymorphisms and expression of minisatellite mutations in a 3-generation population around the Semipalatinsk nuclear explosion test-site, Kazakhstan.

PubMed

Bolegenova, N K; Bekmanov, B O; Djansugurova, L B; Bersimbaev, R I; Salama, S A; Au, W W

2009-11-01

We have reported previously that a population near the Semipalatinsk nuclear explosion test site had significantly increased minisatellite mutations (MM), suggesting increased germ-line mutation rates from the exposure in 3 generations. We hypothesize that the MM can be used as a surrogate biomarker for functional genetic alterations, e.g. gene mutations and chromosome aberrations. Therefore, we have investigated the influence of polymorphisms in genes on the expression of MM in the same two populations (247 and 172 individuals, for exposed and control, respectively, in 3 generations), and their relationships with radiation exposure. We have chosen the analyses of three polymorphic DNA - repair genes (XRCC1, XRCC1 and XRCC3) and two xenobiotic detoxification genes (GSTT1 and GSTM1). Among the exposed and in comparison with the wild-type gene, the functionally active XRCC1 Arg194Trp was significantly associated with low MM and over-represented in the exposed compared with the control populations. In a similar analysis, the functionally deficient XRCC1 Arg399Glu and XRCC3 Trp241Met were associated with increased and significantly reduced MM, respectively, but these variant genes were under-represented in the exposed population. Both GSTT1 and GSTM1 nulls were significantly associated with increased MM. The former was under-represented but the latter was significantly over-represented in the exposed compared with the control populations. In summary, the data indicate that the expected enzymatic functions of the polymorphic genes are consistent with the MM expression, except the XRCC1 Arg399Glu variant gene. In addition, the variant genes were retained in the three generations in association with their useful function, except for the GSTM1 null. However, the MM frequencies in the exposed were not consistently and significantly higher than those in the control populations, radiation exposure may therefore not have been the only cause for the high MM frequency among the exposed individuals. Since we studied three generations of citizens, the over- and under-representations of variant genes in the exposed population indicate their persistence and elimination, respectively, from the exposed individuals, suggesting their functional influence on survivability. The latter observation also indicates the complexity of gene and environmental interactions, e.g. the GSTM1 null was significantly over-represented in the exposed population.

Correlation between vortices and wall shear stress in a curved artery model under pulsatile flow conditions

NASA Astrophysics Data System (ADS)

Cox, Christopher; Plesniak, Michael W.

2017-11-01

One of the most physiologically relevant factors within the cardiovascular system is the wall shear stress. The wall shear stress affects endothelial cells via mechanotransduction and atherosclerotic regions are strongly correlated with curvature and branching in the human vasculature, where the shear stress is both oscillatory and multidirectional. Also, the combined effect of curvature and pulsatility in cardiovascular flows produces unsteady vortices. In this work, our goal is to assess the correlation between multiple vortex pairs and wall shear stress. To accomplish this, we use an in-house high-order flux reconstruction Navier-Stokes solver to simulate pulsatile flow of a Newtonian blood-analog fluid through a rigid 180° curved artery model. We use a physiologically relevant flow rate and generate results using both fully developed and uniform entrance conditions, the latter motivated by the fact that flow upstream to a curved artery may not be fully developed. Under these two inflow conditions, we characterize the evolution of various vortex pairs and their subsequent effect on several wall shear stress metrics. Supported by GW Center for Biomimetics and Bioinspired Engineering.

Void fraction development in gas-liquid flow after a U-bend in a vertically upwards serpentine-configuration large-diameter pipe

NASA Astrophysics Data System (ADS)

Almabrok, Almabrok A.; Aliyu, Aliyu M.; Baba, Yahaya D.; Lao, Liyun; Yeung, Hoi

2018-01-01

We investigate the effect of a return U-bend on flow behaviour in the vertical upward section of a large-diameter pipe. A wire mesh sensor was employed to study the void fraction distributions at axial distances of 5, 28 and 47 pipe diameters after the upstream bottom bend. The study found that, the bottom bend has considerable impacts on up-flow behaviour. In all conditions, centrifugal action causes appreciable misdistribution in the adjacent straight section. Plots from WMS measurements show that flow asymmetry significantly reduces along the axis at L/D = 47. Regime maps generated from three axial locations showed that, in addition to bubbly, intermittent and annular flows, oscillatory flow occurred particularly when gas and liquid flow rates were relatively low. At this position, mean void fractions were in agreement with those from other large-pipe studies, and comparisons were made with existing void fraction correlations. Among the correlations surveyed, drift flux-type correlations were found to give the best predictive results.

An Assessment of the Extent to Which Subject Variation between the Arts and Sciences in Relation to the Award of a First Class Degree Can Explain the "Gender Gap" in UK Universities

ERIC Educational Resources Information Center

Woodfield, Ruth; Earl-Novell, Sarah

2006-01-01

There is a widely recognised national trend for girls to outperform boys at all levels of compulsory schooling. With few exceptions, however, most recent research has reported that, in relation to academic performance at university, men are proportionately over-represented at the First Class level. A number of general hypotheses have been put…

Socioeconomic Status and Performance in the US Army and US Marine Corps

DTIC Science & Technology

1998-03-01

education levels, recruits’ parents are slightly under- represented as homeowners in the highest category and overrepresented among those who pay neither... DIFFERENCES IN SES REPRESENTATION 82 1. Race/Ethnicity 82 2. Region 85 3. Gender 87 4. Omission of Officers 89 5. Reasons for Joining the Military 90...his or her performance in the military. For example, differences in SES may help to explain the high rates of attrition among first-term enlisted

VOLUNTEERS FOR A HIGH RISK SPORT.

DTIC Science & Technology

Press reportage emphasizes the spectacular and exhibitionistic aspects of parachuting rather than its competitive sport aspects. Newspapers see the activity as exhibiting fun and ’guts’ and as dangerous. (Author)... Sport parachutists tend to be over-represented in the Western region of the United States. They are, by and large, relatively young males who look...upon the sport as a masculine expression. The sport is objectively dangerous, as measured by the accident rate, and is subjectively perceived as such

Within-genome evolution of REPINs: a new family of miniature mobile DNA in bacteria.

PubMed

Bertels, Frederic; Rainey, Paul B

2011-06-01

Repetitive sequences are a conserved feature of many bacterial genomes. While first reported almost thirty years ago, and frequently exploited for genotyping purposes, little is known about their origin, maintenance, or processes affecting the dynamics of within-genome evolution. Here, beginning with analysis of the diversity and abundance of short oligonucleotide sequences in the genome of Pseudomonas fluorescens SBW25, we show that over-represented short sequences define three distinct groups (GI, GII, and GIII) of repetitive extragenic palindromic (REP) sequences. Patterns of REP distribution suggest that closely linked REP sequences form a functional replicative unit: REP doublets are over-represented, randomly distributed in extragenic space, and more highly conserved than singlets. In addition, doublets are organized as inverted repeats, which together with intervening spacer sequences are predicted to form hairpin structures in ssDNA or mRNA. We refer to these newly defined entities as REPINs (REP doublets forming hairpins) and identify short reads from population sequencing that reveal putative transposition intermediates. The proximal relationship between GI, GII, and GIII REPINs and specific REP-associated tyrosine transposases (RAYTs), combined with features of the putative transposition intermediate, suggests a mechanism for within-genome dissemination. Analysis of the distribution of REPs in a range of RAYT-containing bacterial genomes, including Escherichia coli K-12 and Nostoc punctiforme, show that REPINs are a widely distributed, but hitherto unrecognized, family of miniature non-autonomous mobile DNA.

Alteration of the gut microbiota in Chinese population with chronic kidney disease.

PubMed

Jiang, Shuanghong; Xie, Shan; Lv, Dan; Wang, Pu; He, Hanchang; Zhang, Ting; Zhou, Youlian; Lin, Qianyun; Zhou, Hongwei; Jiang, Jianping; Nie, Jing; Hou, Fanfan; Chen, Ye

2017-06-06

We evaluated differences in the compositions of faecal microbiota between 52 end stage renal disease (ESRD) patients and 60 healthy controls in southern China using quantitative real-time polymerase chain reaction (qPCR) and high-throughput sequencing (16S ribosomal RNA V4-6 region) methods. The absolute quantification of total bacteria was significantly reduced in ESRD patients (p < 0.01). In three enterotypes, Prevotella was enriched in the healthy group whereas Bacteroides were prevalent in the ESRD group (LDA score > 4.5). 11 bacterial taxa were significantly overrepresented in samples from ESRD and 22 bacterial taxa were overrepresented in samples from healthy controls. The butyrate producing bacteria, Roseburia, Faecalibacterium, Clostridium, Coprococcus and Prevotella were reduced in the ESRD group (LDA values > 2.0). Canonical correspondence analysis (CCA) indicated that Cystatin C (CysC), creatinine and eGFR appeared to be the most important environmental parameters to influence the overall microbial communities. In qPCR analysis, The butyrate producing species Roseburia spp., Faecalibacterium prausnitzii, Prevotella and Universal bacteria, were negatively related to CRP and CysC. Total bacteria in faeces were reduced in patients with ESRD compared to that in healthy individuals. The enterotypes change from Prevotella to Bacteroides in ESRD patients. The gut microbiota was associated with the inflammatory state and renal function of chronic kidney disease.

Molecular detection assay of five Salmonella serotypes of public interest: Typhimurium, Enteritidis, Newport, Heidelberg, and Hadar.

PubMed

Bugarel, M; Tudor, A; Loneragan, G H; Nightingale, K K

2017-03-01

Foodborne illnesses due to Salmonella represent an important public-health concern worldwide. In the United States, a majority of Salmonella infections are associated with a small number of serotypes. Furthermore, some serotypes that are overrepresented among human disease are also associated with multi-drug resistance phenotypes. Rapid detection of serotypes of public-health concern might help reduce the burden of salmonellosis cases and limit exposure to multi-drug resistant Salmonella. We developed a two-step real-time PCR-based rapid method for the identification and detection of five Salmonella serotypes that are either overrepresented in human disease or frequently associated with multi-drug resistance, including serotypes Enteritidis, Typhimurium, Newport, Hadar, and Heidelberg. Two sets of four markers were developed to detect and differentiate the five serotypes. The first set of markers was developed as a screening step to detect the five serotypes; whereas, the second set was used to further distinguish serotypes Heidelberg, Newport and Hadar. The utilization of these markers on a two-step investigation strategy provides a diagnostic specificity of 97% for the detection of Typhimurium, Enteritidis, Heidelberg, Infantis, Newport and Hadar. The diagnostic sensitivity of the detection makers is >96%. The availability of this two-step rapid method will facilitate specific detection of Salmonella serotypes that contribute to a significant proportion of human disease and carry antimicrobial resistance. Published by Elsevier B.V.

Contaminants in ospreys from the Pacific Northwest: I. Trends and Patterns in polychlorinated dibenzo-p-dioxins and -dibenzofurans in eggs and plasma

USGS Publications Warehouse

Elliott, J.E.; Machmer, M.M.; Henny, Charles J.; Wilson, L.K.; Norstrom, R.J.

1998-01-01

Osprey (Pandion haliaetus) eggs were collected from 1991 to 1997 at nests (na??=a??121) upstream and downstream of bleached kraft pulp mills and at reference sites in the Fraser and Columbia River drainage systems of British Columbia, Washington, and Oregon. Blood samples were collected from nestling ospreys during the 1992 breeding season on the Thompson River. Samples were analyzed for polychlorinated dibenzo-p-dioxins (PCDDs) and -dibenzofurans (PCDFs). Mean concentrations of 2,3,7,8-TCDD were significantly higher in eggs collected in 1991 at downstream compared to upstream nests near pulp mills at Kamloops and Castlegar, British Columbia. There were no significant temporal trends in 2,3,7,8-TCDD, -TCDF or other measured compounds at a sample of nests monitored between 1991 and 1994 downstream of the Castlegar pulp mill, despite changes in bleaching technology (CIO2 substitution). However, by 1997 concentrations of 2,3,7,8-TCDD and -TCDF were significantly lower than previous years in nests sampled downstream at both Castlegar and Kamloops. An unusual pattern of higher chlorinated PCDDs and PCDFs was found in many of the osprey eggs collected in this study, and considerable individual variation in the pattern existed among eggs from the same site. For example, eggs from four different nests at one study area (Quesnel) on the Fraser River had concentrations of 1,2,3,4,6,7,8-HpCDD ranging from <1 to 1,100 ng/kg and OCDD from <1 to 7,000 ng/kg wet weight. Higher mean concentrations of HpCDD and OCDD were found in eggs from the Thompson River, a tributary of the Fraser, compared to the Columbia River, and concentrations were generally higher at nests upstream of pulp mills. In plasma samples, 1,2,3,4,6,7,8-HpCDD and OCDD were the main compounds detected, with no significant differences measured between samples upstream versus downstream or earlier versus later in the breeding season. Use of chlorophenolic wood preservatives by lumber processors was considered the main source of higher chlorinated PCDD/Fs throughout the systems, based on patterns of trace PCDFs in eggs and significant correlations between egg concentrations of pentachlorophenol and both HpCDD (ra??=a??0.891, pa??

New Observation of Wave Excitation and Inverse Cascade in the Foreshock Region

NASA Astrophysics Data System (ADS)

He, Jiansen; Duan, Die; Yan, Limei; Huang, Shiyong; Tu, Chuanyi; Marsch, Eckart; Wang, Linghua; Tian, Hui

2016-04-01

Foreshock with nascent plasma turbulence is regarded as a fascinating region to understand the basic plasma physical processes, e.g., wave-particle interactions as well as wave-wave couplings. Although there have been a bunch of intensive studies on this topic, some key clues about the chain of the physical processes still lacks from observations, e.g., the co-existence of upstream energetic particles as the free energy source, excited pump waves as the wave seed, inverse cascaded daughter waves, and scattered energetic particles as the end of nonlinear processes. A relatively comprehensive case study with some new observations is presented in this work. In our case, upstream energetic protons drifting at tens of Alfvén speed with respect to the background plasma protons is observed from 3DP/PESA-High onboard the WIND spacecraft. When looking at the wave magnetic activities, we are surprised to find the co-existence of high-frequency (0.1-0.5 Hz) large-amplitude right-hand polarized (RHP) waves and low-frequency (0.02-0.1 Hz) small-amplitude left-hand polarized (LHP) waves in the spacecraft (SC) frame. The anti-correlation between magnetic and velocity fluctuations along with the sunward magnetic field direction indicates the low-frequency LHP waves in the SC frame is in fact the sunward upstream RHP waves in the solar wind frame. This new observation lays solid foundation for the applicability of plasma non-resonance instability theory and inverse cascade theory to the foreshock region, in which the downstream high-frequency RHP pump waves are excited by the upstream reflected energetic protons through non-resonance instability and low-frequency RHP daughter waves are generated by the pump waves due to nonlinear parametric decay. The weak signal of alpha particle flux in the foreshock region concerned is also favorable to the occurrence of nonlinear decay process. Furthermore, enhanced downstream energetic proton fluxes are found and inferred to be scattered by the nascent turbulent fluctuations. Therefore, some key clues about the newborn turbulence in the foreshock are supplemented in this work. Nevertheless, the more complete scenario about the fundamental plasma physical processes in the foreshock is left for the newly launched MMS project and the proposed THOR mission.

Contaminants in ospreys from the Pacific Northwest: I. Trends and patterns in polychlorinated dibenzo-p-dioxins and -dibenzofurans in eggs and plasma.

PubMed

Elliott, J E; Machmer, M M; Henny, C J; Wilson, L K; Norstrom, R J

1998-11-01

Osprey (Pandion haliaetus) eggs were collected from 1991 to 1997 at nests (n = 121) upstream and downstream of bleached kraft pulp mills and at reference sites in the Fraser and Columbia River drainage systems of British Columbia, Washington, and Oregon. Blood samples were collected from nestling ospreys during the 1992 breeding season on the Thompson River. Samples were analyzed for polychlorinated dibenzo-p-dioxins (PCDDs) and -dibenzofurans (PCDFs). Mean concentrations of 2,3,7,8-TCDD were significantly higher in eggs collected in 1991 at downstream compared to upstream nests near pulp mills at Kamloops and Castlegar, British Columbia. There were no significant temporal trends in 2,3,7,8-TCDD, -TCDF or other measured compounds at a sample of nests monitored between 1991 and 1994 downstream of the Castlegar pulp mill, despite changes in bleaching technology (CIO2 substitution). However, by 1997 concentrations of 2, 3,7,8-TCDD and -TCDF were significantly lower than previous years in nests sampled downstream at both Castlegar and Kamloops. An unusual pattern of higher chlorinated PCDDs and PCDFs was found in many of the osprey eggs collected in this study, and considerable individual variation in the pattern existed among eggs from the same site. For example, eggs from four different nests at one study area (Quesnel) on the Fraser River had concentrations of 1,2,3,4,6,7,8-HpCDD ranging from <1 to 1,100 ng/kg and OCDD from <1 to 7,000 ng/kg wet weight. Higher mean concentrations of HpCDD and OCDD were found in eggs from the Thompson River, a tributary of the Fraser, compared to the Columbia River, and concentrations were generally higher at nests upstream of pulp mills. In plasma samples, 1,2,3,4,6,7,8-HpCDD and OCDD were the main compounds detected, with no significant differences measured between samples upstream versus downstream or earlier versus later in the breeding season. Use of chlorophenolic wood preservatives by lumber processors was considered the main source of higher chlorinated PCDD/Fs throughout the systems, based on patterns of trace PCDFs in eggs and significant correlations between egg concentrations of pentachlorophenol and both HpCDD (r = 0.891, p < 0.01) and OCDD (r = 0.870, p < 0.01).

Unsteady features of the flow on a bump in transonic environment

NASA Astrophysics Data System (ADS)

Budovsky, A. D.; Sidorenko, A. A.; Polivanov, P. A.; Vishnyakov, O. I.; Maslov, A. A.

2016-10-01

The study deals with experimental investigation of unsteady features of separated flow on a profiled bump in transonic environment. The experiments were conducted in T-325 wind tunnel of ITAM for the following flow conditions: P0 = 1 bar, T0 = 291 K. The base flow around the model was studied by schlieren visualization, steady and unsteady wall pressure measurements and PIV. The experimentally data obtained using PIV are analyzed by Proper Orthogonal Decomposition (POD) technique to investigate the underlying unsteady flow organization, as revealed by the POD eigenmodes. The data obtained show that flow pulsations revealed upstream and downstream of shock wave are correlated and interconnected.

The genetic basis of adaptive pigmentation variation in Drosophila melanogaster

PubMed Central

Pool, John E.; Aquadro, Charles F.

2009-01-01

In a broad survey of Drosophila melanogaster population samples, levels of abdominal pigmentation were found to be highly variable and geographically differentiated. A strong positive correlation was found between dark pigmentation and high altitude, suggesting adaptation to specific environments. DNA sequence polymorphism at the candidate gene ebony revealed a clear association with the pigmentation of homozygous third chromosome lines. The darkest lines sequenced had nearly identical haplotypes spanning 14.5 kilobases upstream of the protein-coding exons of ebony. Thus, natural selection may have elevated the frequency of an allele that confers dark abdominal pigmentation by influencing the regulation of ebony. PMID:17614900

C7 vertebra homeotic transformation in domestic dogs - are Pug dogs breaking mammalian evolutionary constraints?

PubMed

Brocal, J; De Decker, S; José-López, R; Manzanilla, E G; Penderis, J; Stalin, C; Bertram, S; Schoenebeck, J J; Rusbridge, C; Fitzpatrick, N; Gutierrez-Quintana, R

2018-05-14

The number of cervical vertebrae in mammals is almost constant at seven, regardless of their neck length, implying that there is selection against variation in this number. Homebox (Hox) genes are involved in this evolutionary mammalian conservation, and homeotic transformation of cervical into thoracic vertebrae (cervical ribs) is a common phenotypic abnormality when Hox gene expression is altered. This relatively benign phenotypic change can be associated with fatal traits in humans. Mutations in genes upstream of Hox, inbreeding and stressors during organogenesis can also cause cervical ribs. The aim of this study was to describe the prevalence of cervical ribs in a large group of domestic dogs of different breeds, and explore a possible relation with other congenital vertebral malformations (CVMs) in the breed with the highest prevalence of cervical ribs. By phenotyping we hoped to give clues as to the underlying genetic causes. Twenty computed tomography studies from at least two breeds belonging to each of the nine groups recognized by the Federation Cynologique Internationale, including all the brachycephalic 'screw-tailed' breeds that are known to be overrepresented for CVMs, were reviewed. The Pug dog was more affected by cervical ribs than any other breed (46%; P < 0.001), and was selected for further analysis. No association was found between the presence of cervical ribs and vertebral body formation defect, bifid spinous process, caudal articular process hypoplasia/aplasia and an abnormal sacrum, which may infer they have a different aetiopathogenesis. However, Pug dogs with cervical ribs were more likely to have a transitional thoraco-lumbar vertebra (P = 0.041) and a pre-sacral vertebral count of 26 (P < 0.001). Higher C7/T1 dorsal spinous processes ratios were associated with the presence of cervical ribs (P < 0.001), supporting this is a true homeotic transformation. Relaxation of the stabilizing selection has likely occurred, and the Pug dog appears to be a good naturally occurring model to further investigate the aetiology of cervical ribs, other congenital vertebral anomalies and numerical alterations. © 2018 Anatomical Society.

Evidence for specularly reflected ions upstream from the quasi-parallel bow shock

NASA Technical Reports Server (NTRS)

Gosling, J. T.; Thomsen, M. F.; Bame, S. J.; Feldman, W. C.; Paschmann, G.; Sckopke, N.

1982-01-01

Ion velocity distributions in the form of bunches of gyrating particles traveling along helical paths have been observed moving sunward immediately upstream from quasi-parallel parts of the earth's bow shock using Los Alamos/Garching instruments on ISEE-1 and -2. These distributions have characteristics which indicate that they are produced by the nearly specular reflection at the shock of a portion of the incident solar wind ions. In particular, the guiding center motion and the gyrospeeds of the gyrating ions are quantitatively consistent with simple geometrical considerations for specular reflection. These considerations reveal that specularly reflected ions can escape upstream when the angle between the upstream magnetic field and the local shock normal is less than 45 deg but not when the angle is greater than 45 deg. These upstream gyrating ions are an important signature of one of the processes by which solar wind streaming energy is dissipated into other forms of energy at the shock.

An integrated -omics analysis of the epigenetic landscape of gene expression in human blood cells.

PubMed

Kennedy, Elizabeth M; Goehring, George N; Nichols, Michael H; Robins, Chloe; Mehta, Divya; Klengel, Torsten; Eskin, Eleazar; Smith, Alicia K; Conneely, Karen N

2018-06-19

Gene expression can be influenced by DNA methylation 1) distally, at regulatory elements such as enhancers, as well as 2) proximally, at promoters. Our current understanding of the influence of distal DNA methylation changes on gene expression patterns is incomplete. Here, we characterize genome-wide methylation and expression patterns for ~ 13 k genes to explore how DNA methylation interacts with gene expression, throughout the genome. We used a linear mixed model framework to assess the correlation of DNA methylation at ~ 400 k CpGs with gene expression changes at ~ 13 k transcripts in two independent datasets from human blood cells. Among CpGs at which methylation significantly associates with transcription (eCpGs), > 50% are distal (> 50 kb) or trans (different chromosome) to the correlated gene. Many eCpG-transcript pairs are consistent between studies and ~ 90% of neighboring eCpGs associate with the same gene, within studies. We find that enhancers (P < 5e-18) and microRNA genes (P = 9e-3) are overrepresented among trans eCpGs, and insulators and long intergenic non-coding RNAs are enriched among cis and distal eCpGs. Intragenic-eCpG-transcript correlations are negative in 60-70% of occurrences and are enriched for annotated gene promoters and enhancers (P < 0.002), highlighting the importance of intragenic regulation. Gene Ontology analysis indicates that trans eCpGs are enriched for transcription factor genes and chromatin modifiers, suggesting that some trans eCpGs represent the influence of gene networks and higher-order transcriptional control. This work sheds new light on the interplay between epigenetic changes and gene expression, and provides useful data for mining biologically-relevant results from epigenome-wide association studies.

Dynamical systems characterization of inertial effects of fluid flow in a curved artery model under pulsatile flow forcing

NASA Astrophysics Data System (ADS)

Leggiero, Michael; Bulusu, Kartik V.; Plesniak, Michael W.

2013-11-01

The main objective of this study was to examine inertial effects in a 180-degree model of curved arteries under pulsatile inflow conditions. Two-component, two-dimensional particle image velocimetery (2C-2D PIV) data were acquired upstream of and at several cross-sectional locations in the curved artery model. A blood-analog fluid comprised of 71% saturated sodium iodide solution, 28% glycerol and 1% distilled water (by volume) was subjected to multi-harmonic pulsatile inflow functions. First, signal time-lag was quantified by cross-correlating the input (voltage-time) supplied to a programmable pump and the output PIV (flow rate-time) measurements. The experiment was then treated as a linear, time-invariant system, and frequency response was estimated for phase shifts across a certain spectrum. Input-output signal dissimilarities were attributable to intrinsic inertial effects of flow. By coupling pressure-time and upstream flow rate-time measurements, the experiment was modeled using system identification methods. Results elucidate the role of inertial effects in fluid flow velocity measurements and the effect of these delays on secondary flow structure detection in a curved artery model. Supported by the NSF Grant No. CBET- 0828903 and GW Center for Biomimetics and Bioinspired Engineering.

Gains and Losses of Transcription Factor Binding Sites in Saccharomyces cerevisiae and Saccharomyces paradoxus.

PubMed

Schaefke, Bernhard; Wang, Tzi-Yuan; Wang, Chuen-Yi; Li, Wen-Hsiung

2015-07-27

Gene expression evolution occurs through changes in cis- or trans-regulatory elements or both. Interactions between transcription factors (TFs) and their binding sites (TFBSs) constitute one of the most important points where these two regulatory components intersect. In this study, we investigated the evolution of TFBSs in the promoter regions of different Saccharomyces strains and species. We divided the promoter of a gene into the proximal region and the distal region, which are defined, respectively, as the 200-bp region upstream of the transcription starting site and as the 200-bp region upstream of the proximal region. We found that the predicted TFBSs in the proximal promoter regions tend to be evolutionarily more conserved than those in the distal promoter regions. Additionally, Saccharomyces cerevisiae strains used in the fermentation of alcoholic drinks have experienced more TFBS losses than gains compared with strains from other environments (wild strains, laboratory strains, and clinical strains). We also showed that differences in TFBSs correlate with the cis component of gene expression evolution between species (comparing S. cerevisiae and its sister species Saccharomyces paradoxus) and within species (comparing two closely related S. cerevisiae strains). © The Author(s) 2015. Published by Oxford University Press on behalf of the Society for Molecular Biology and Evolution.

Modeling hydraulic and sediment transport processes in white sturgeon spawning habitat on the Kootenai River, Idaho

USGS Publications Warehouse

McDonald, Richard R.; Nelson, Jonathan M.; Vaughn Paragamian,; Barton, Gary J.

2017-01-01

The Kootenai River white sturgeon currently spawn (2005) in an 18-kilometer reach of the Kootenai River, Idaho. Since completion of Libby Dam upstream from the spawning reach, there has been only one successful year of recruitment of juvenile fish. Where successful in other rivers, white sturgeon spawn over clean coarse material of gravel size or larger. The channel substrate in the current spawning reach is composed primarily of sand and some buried gravel; within a few kilometers upstream there is clean gravel. We used a 2-dimensional flow and sediment-transport model and the measured locations of sturgeon spawning from 1994-2002 to gain insight into the paradox between the current spawning location and the absence of suitable substrate. Spatial correlations between spawning locations and the model simulations of velocity and depth indicate the white sturgeon tend to select regions of highest velocity and depth within any river cross-section to spawn. These regions of high velocity and depth are independent of pre- or post-dam flow conditions. A simple sediment-transport simulation suggests that high discharge and relatively long duration flow associated with pre-dam flow events might be sufficient to scour the sandy substrate and expose existing lenses of gravel and cobble as lag deposits in the current spawning reach.

Number of children and upstream intergenerational financial transfers: evidence from Hong Kong.

PubMed

Chou, Kee-Lee

2010-03-01

This study examined financial transfers from adult children to elderly parents in Hong Kong and tested three hypotheses about the motives for such transfers. We address previous research, suggesting that family financial support for retirees will decline in the coming decades as a consequence of the reduction in the fertility rate; we also examine whether financial transfers are a function of the number of adult children in the family. We used multiple regression models based on data from a representative sample of parents aged 60 years and older to identify the correlates of the amount of transfers from adult children to their elderly parents. We found evidence for the hypothesis that upstream transfers to elderly parents are their way of withdrawing savings from a "support bank" in which they made contribution for their children's education earlier in life and that transfers are altruistic in nature, but our results provide only moderate support to the old age security hypothesis that perceives family as a source of capital. The number of children has a ceiling effect on transfers, which calls into question common assumptions about the extent to which the decline in fertility will pose a severe threat to the extent of familial support of older persons over the coming decades.

Designing synthetic RNAs to determine the relevance of structural motifs in picornavirus IRES elements

NASA Astrophysics Data System (ADS)

Fernandez-Chamorro, Javier; Lozano, Gloria; Garcia-Martin, Juan Antonio; Ramajo, Jorge; Dotu, Ivan; Clote, Peter; Martinez-Salas, Encarnacion

2016-04-01

The function of Internal Ribosome Entry Site (IRES) elements is intimately linked to their RNA structure. Viral IRES elements are organized in modular domains consisting of one or more stem-loops that harbor conserved RNA motifs critical for internal initiation of translation. A conserved motif is the pyrimidine-tract located upstream of the functional initiation codon in type I and II picornavirus IRES. By computationally designing synthetic RNAs to fold into a structure that sequesters the polypyrimidine tract in a hairpin, we establish a correlation between predicted inaccessibility of the pyrimidine tract and IRES activity, as determined in both in vitro and in vivo systems. Our data supports the hypothesis that structural sequestration of the pyrimidine-tract within a stable hairpin inactivates IRES activity, since the stronger the stability of the hairpin the higher the inhibition of protein synthesis. Destabilization of the stem-loop immediately upstream of the pyrimidine-tract also decreases IRES activity. Our work introduces a hybrid computational/experimental method to determine the importance of structural motifs for biological function. Specifically, we show the feasibility of using the software RNAiFold to design synthetic RNAs with particular sequence and structural motifs that permit subsequent experimental determination of the importance of such motifs for biological function.

6. Oblique view of upstream side of Bridge Number 310.58, ...

Library of Congress Historic Buildings Survey, Historic Engineering Record, Historic Landscapes Survey

6. Oblique view of upstream side of Bridge Number 310.58, 135mm lens. Note ashlar stone masonry abutment built in 1886, Tunnel 15 at left. Heavy vegetation cover, steep banks, and lack of streamside footing precluded full elevation views of the upstream and downstream sides of this bridge. - Southern Pacific Railroad Shasta Route, Bridge No. 310.58, Milepost 310.58, Sims, Shasta County, CA

Investigation of flow turning phenomenon - Effect of upstream and downstream propagation

NASA Astrophysics Data System (ADS)

Baum, Joseph D.

1988-01-01

Upstream acoustic-wave propagation in flow injected laterally through the boundary layer of a tube (simulating the flow in a solid-rocket motor) is investigated analytically. A noniterative linearized-block implicit scheme is used to solve the time-dependent compressible Navier-Stokes equations, and the results are presented in extensive graphs and characterized. Acoustic streaming interaction is shown to be significantly greater for upstream than for downstream propagation.

Clustering in large networks does not promote upstream reciprocity.

PubMed

Masuda, Naoki

2011-01-01

Upstream reciprocity (also called generalized reciprocity) is a putative mechanism for cooperation in social dilemma situations with which players help others when they are helped by somebody else. It is a type of indirect reciprocity. Although upstream reciprocity is often observed in experiments, most theories suggest that it is operative only when players form short cycles such as triangles, implying a small population size, or when it is combined with other mechanisms that promote cooperation on their own. An expectation is that real social networks, which are known to be full of triangles and other short cycles, may accommodate upstream reciprocity. In this study, I extend the upstream reciprocity game proposed for a directed cycle by Boyd and Richerson to the case of general networks. The model is not evolutionary and concerns the conditions under which the unanimity of cooperative players is a Nash equilibrium. I show that an abundance of triangles or other short cycles in a network does little to promote upstream reciprocity. Cooperation is less likely for a larger population size even if triangles are abundant in the network. In addition, in contrast to the results for evolutionary social dilemma games on networks, scale-free networks lead to less cooperation than networks with a homogeneous degree distribution.

Clustering in Large Networks Does Not Promote Upstream Reciprocity

PubMed Central

Masuda, Naoki

2011-01-01

Upstream reciprocity (also called generalized reciprocity) is a putative mechanism for cooperation in social dilemma situations with which players help others when they are helped by somebody else. It is a type of indirect reciprocity. Although upstream reciprocity is often observed in experiments, most theories suggest that it is operative only when players form short cycles such as triangles, implying a small population size, or when it is combined with other mechanisms that promote cooperation on their own. An expectation is that real social networks, which are known to be full of triangles and other short cycles, may accommodate upstream reciprocity. In this study, I extend the upstream reciprocity game proposed for a directed cycle by Boyd and Richerson to the case of general networks. The model is not evolutionary and concerns the conditions under which the unanimity of cooperative players is a Nash equilibrium. I show that an abundance of triangles or other short cycles in a network does little to promote upstream reciprocity. Cooperation is less likely for a larger population size even if triangles are abundant in the network. In addition, in contrast to the results for evolutionary social dilemma games on networks, scale-free networks lead to less cooperation than networks with a homogeneous degree distribution. PMID:21998641

Upstream dispersal of an invasive crayfish aided by a fish passage facility

USGS Publications Warehouse

Welsh, Stuart A.; Loughman, Zachary J.

2015-01-01

Fish passage facilities for reservoir dams have been used to restore habitat connectivity within riverine networks by allowing upstream passage for native species. These facilities may also support the spread of invasive species, an unintended consequence and potential downside of upstream passage structures. We documented dam passage of the invasive virile crayfish, Orconectes virilis (Hagen, 1870), at fish ladders designed for upstream passage of American eels, Anguilla rostrata (Lesueur, 1817), in the Shenandoah River drainage, USA. Ladder use and upstream passage of 11 virile crayfish occurred from 2007–2014 during periods of low river discharge (<30 m3s–1) and within a wide range of water temperatures from 9.0–28.6 °C. Virile crayfish that used the eel ladders were large adults with a mean carapace length and width of 48.0 mm and 24.1 mm, respectively. Our data demonstrated the use of species-specific fish ladders by a non-target non-native species, which has conservation and management implications for the spread of aquatic invasive species and upstream passage facilities. Specifically, managers should consider implementing long-term monitoring of fish passage facilities with emphasis on detection of invasive species, as well as methods to reduce or eliminate passage of invasive species. 

Valuating Indonesian upstream oil management scenario through system dynamics modelling

NASA Astrophysics Data System (ADS)

Ketut Gunarta, I.; Putri, F. A.

2018-04-01

Under the existing regulation in Constitution Number 22 Year 2001 (UU No 22 Tahun 2001), Production Sharing Contract (PSC) continues to be the scenario in conducting oil and gas upstream mining activities as the previous regulation (UU No. 8 Tahun 1971). Because of the high costs and risks in upstream mining activities, the contractors are dominated by foreign companies, meanwhile National Oil Company (NOC) doesn’t act much. The domination of foreign contractor companies also warned Indonesia in several issues addressing to energy independence and energy security. Therefore, to achieve the goals of energy which is independence and security, there need to be a revision in upstream oil activities regulating scenario. The scenarios will be comparing the current scenario, which is PSC, with the “full concession” scenario for National Oil Company (NOC) in managing oil upstream mining activities. Both scenario will be modelled using System Dynamics methodology and assessed furthermore using financial valuation method of income approach. Under the 2 scenarios, the author will compare which scenario is better for upstream oil management in reaching the goals mentioned before and more profitable in financial aspect. From the simulation, it is gathered that concession scenario offers better option than PSC in reaching energy independence and energy security.

Activation of HIV-1 pre-mRNA 3' processing in vitro requires both an upstream element and TAR.

PubMed Central

Gilmartin, G M; Fleming, E S; Oetjen, J

1992-01-01

The architecture of the human immunodeficiency virus type 1 (HIV-1) genome presents an intriguing dilemma for the 3' processing of viral transcripts--to disregard a canonical 'core' poly(A) site processing signal present at the 5' end of the transcript and yet to utilize efficiently an identical signal that resides at the 3' end of the message. The choice of processing sites in HIV-1 appears to be influenced by two factors: (i) proximity to the cap site, and (ii) sequences upstream of the core poly(A) site. We now demonstrate that an in vivo-defined upstream element that resides within the U3 region, 76 nucleotides upstream of the AAUAAA hexamer, acts specifically to enhance 3' processing at the HIV-1 core poly(A) site in vitro. We furthermore show that efficient in vitro 3' processing requires the RNA stem-loop structure of TAR, which serves to juxtapose spatially the upstream element and the core poly(A) site. An analysis of the stability of 3' processing complexes formed at the HIV-1 poly(A) site in vitro suggests that the upstream element may function by increasing processing complex stability at the core poly(A) site. Images PMID:1425577

A test of Lee's quasi-linear theory of ion acceleration by interplanetary traveling shocks

NASA Technical Reports Server (NTRS)

Kennel, C. F.; Coroniti, F. V.; Scarf, F. L.; Livesey, W. A.; Russell, C. T.; Smith, E. J.

1986-01-01

Lee's (1983) quasi-linear theory of ion acceleration is tested using ISEE-3 measurements of the November 12, 1978 quasi-parallel interplanetary shock. His theory accounts with varying degrees of precision for the energetic proton spatial profiles; the dependence of the spectral index of the power law proton velocity distribution upon the shock compression ratio; the power law dependence of the upstream proton scalelength upon energy; the absolute magnitude of the upstream proton scale length; the behavior of the energetic proton anisotropy upstream and downstream of the shock; the behavior of the alpha-particle proton ratio upstream; the equality of the spatial scale lengths at the shock of the upstream waves and of the protons that resonate with them; and the dependence of the integrated wave energy density upon the proton energy density at the shock. However, the trace magnetic field frequency spectra disagree with his theory in two ways. The part of the spectrum that can resonate with the observed protons via first-order cyclotron resonance is flat, whereas Lee's theory predicts an f exp - 7/4 frequency dependence for the November 12 shock. Higher frequency waves, which could not resonate with the observed upstream protons, increased in amplitude as the shock approached, suggesting that they too were generated by the shock.

Abscisic acid deficiency increases defence responses against Myzus persicae in Arabidopsis.

PubMed

Hillwig, Melissa S; Chiozza, Mariana; Casteel, Clare L; Lau, Siau Ting; Hohenstein, Jessica; Hernández, Enrique; Jander, Georg; MacIntosh, Gustavo C

2016-02-01

Comparison of Arabidopsis thaliana (Arabidopsis) gene expression induced by Myzus persicae (green peach aphid) feeding, aphid saliva infiltration and abscisic acid (ABA) treatment showed a significant positive correlation. In particular, ABA-regulated genes are over-represented among genes that are induced by M. persicae saliva infiltration into Arabidopsis leaves. This suggests that the induction of ABA-related gene expression could be an important component of the Arabidopsis-aphid interaction. Consistent with this hypothesis, M. persicae populations induced ABA production in wild-type plants. Furthermore, aphid populations were smaller on Arabidopsis aba1-1 mutants, which cannot synthesize ABA, and showed a significant preference for wild-type plants compared with the mutant. Total free amino acids, which play an important role in aphid nutrition, were not altered in the aba1-1 mutant line, but the levels of isoleucine (Ile) and tryptophan (Trp) were differentially affected by aphids in wild-type and mutant plants. Recently, indole glucosinolates have been shown to promote aphid resistance in Arabidopsis. In this study, 4-methoxyindol-3-ylmethylglucosinolate was more abundant in the aba1-1 mutant than in wild-type Arabidopsis, suggesting that the induction of ABA signals that decrease the accumulation of defence compounds may be beneficial for aphids. © 2015 BSPP AND JOHN WILEY & SONS LTD.

Risky driving among young Australian drivers: trends, precursors and correlates.

PubMed

Vassallo, Suzanne; Smart, Diana; Sanson, Ann; Harrison, Warren; Harris, Anne; Cockfield, Samantha; McIntyre, Allison

2007-05-01

Young drivers are significantly over-represented among those injured or killed in road traffic accidents. Young adults' greater tendency to engage in risky driving behaviours has been implicated in their high crash involvement rate. While considerable research has examined the driving patterns of young adults and situational factors associated with their involvement in crashes, less is known about the characteristics or circumstances in young drivers' earlier lives that may have contributed to their current driving behaviour. This issue was explored using data from the Australian Temperament Project (ATP), a large longitudinal community-based study, which commenced in 1983 with 2443 families and has followed children's psychosocial development from infancy to early adulthood. During the most recent survey wave when participants were aged 19-20 years, information was collected from young adults about their driving experiences and behaviour. A series of analyses indicated that it was possible to distinguish a group of young adults who engaged in high risky driving behaviour (high group) from a group who engaged in low levels of risky driving behaviour (low group) from mid childhood. Young drivers with a tendency towards risky driving differed from others on aspects of temperament style, behaviour problems, social competence, school adjustment and interpersonal relationships. The implications of these findings for initiatives to reduce risky driving behaviour are discussed.

The microbiota continuum along the female reproductive tract and its relation to uterine-related diseases.

PubMed

Chen, Chen; Song, Xiaolei; Wei, Weixia; Zhong, Huanzi; Dai, Juanjuan; Lan, Zhou; Li, Fei; Yu, Xinlei; Feng, Qiang; Wang, Zirong; Xie, Hailiang; Chen, Xiaomin; Zeng, Chunwei; Wen, Bo; Zeng, Liping; Du, Hui; Tang, Huiru; Xu, Changlu; Xia, Yan; Xia, Huihua; Yang, Huanming; Wang, Jian; Wang, Jun; Madsen, Lise; Brix, Susanne; Kristiansen, Karsten; Xu, Xun; Li, Junhua; Wu, Ruifang; Jia, Huijue

2017-10-17

Reports on bacteria detected in maternal fluids during pregnancy are typically associated with adverse consequences, and whether the female reproductive tract harbours distinct microbial communities beyond the vagina has been a matter of debate. Here we systematically sample the microbiota within the female reproductive tract in 110 women of reproductive age, and examine the nature of colonisation by 16S rRNA gene amplicon sequencing and cultivation. We find distinct microbial communities in cervical canal, uterus, fallopian tubes and peritoneal fluid, differing from that of the vagina. The results reflect a microbiota continuum along the female reproductive tract, indicative of a non-sterile environment. We also identify microbial taxa and potential functions that correlate with the menstrual cycle or are over-represented in subjects with adenomyosis or infertility due to endometriosis. The study provides insight into the nature of the vagino-uterine microbiome, and suggests that surveying the vaginal or cervical microbiota might be useful for detection of common diseases in the upper reproductive tract.Whether the female reproductive tract harbours distinct microbiomes beyond the vagina has been a matter of debate. Here, the authors show a subject-specific continuity in microbial communities at six sites along the female reproductive tract, indicative of a non-sterile environment.

Spatiotemporal dynamics of the Atlantic salmon (Salmo salar) Greenland fishery inferred from mixed-stock analysis

USGS Publications Warehouse

Gauthier-Ouellet, M.; Dionne, M.; Caron, F.; King, T.L.; Bernatchez, L.

2009-01-01

Mixed-stock fisheries refer to the exploitation of admixed fish stocks coming from different origins. We identified the North American origin of 2835 Atlantic salmon (Salmo salar) in the Greenland mixed-stock fishery during 11 years (1995-2006) at three localities using 13 microsatellites. The study included 52 baseline populations representing nine genetically distinct regional groups. The contribution of each group ranged from <1% (Maine) to 40% (Southern Qu??bec). Decreasing temporal contributions were observed for Southern Qu??bec (-22.0%) and New Brunswick (-17.4%), whereas an increasing contribution for Labrador (+14.9%) was observed during the time course of the study. The estimated regional contribution to the Greenland fishery was significantly correlated to the number of multi-sea-winter salmon regionally produced in 2002 (r = 0.79) and 2004 (r = 0.92). No difference in contribution was found between the three Greenland sampling localities. Ungava and Southern Qu??bec regions showed the highest mortality estimates caused by the fishery, ranging from 12.10% to 18.08%, for both years tested. No regional group was overrepresented in landings compared with their respective productivity. Yet, management precautions should still be taken as the fishery strongly selects large females, which could have evolutionary impacts on populations over the long term.

Nicotine and oxidative stress induced exomic variations are concordant and overrepresented in cancer-associated genes

PubMed Central

Bavarva, Jasmin H.; Tae, Hongseok; McIver, Lauren; Garner, Harold R.

2014-01-01

Although the connection between cancer and cigarette smoke is well established, nicotine is not characterized as a carcinogen. Here, we used exome sequencing to identify nicotine and oxidative stress-induced somatic mutations in normal human epithelial cells and its correlation with cancer. We identified over 6,400 SNVs, indels and microsatellites in each of the stress exposed cells relative to the control, of which, 2,159 were consistently observed at all nicotine doses. These included 429 nsSNVs including 158 novel and 79 cancer-associated. Over 80% of consistently nicotine induced variants overlap with variations detected in oxidative stressed cells, indicating that nicotine induced genomic alterations could be mediated through oxidative stress. Nicotine induced mutations were distributed across 1,585 genes, of which 49% were associated with cancer. MUC family genes were among the top mutated genes. Analysis of 591 lung carcinoma tumor exomes from The Cancer Genome Atlas (TCGA) revealed that 20% of non-small-cell lung cancer tumors in smokers have mutations in at least one of the MUC4, MUC6 or MUC12 genes in contrast to only 6% in non-smokers. These results indicate that nicotine induces genomic variations, promotes instability potentially mediated by oxidative stress, implicating nicotine in carcinogenesis, and establishes MUC genes as potential targets. PMID:24947164

A comparison of risk factors for various forms of trauma in the lives of lesbian, gay, bisexual and heterosexual homeless youth.

PubMed

Tyler, Kimberly A; Schmitz, Rachel M

2018-01-01

Numerous homeless youth experience trauma prior to leaving home and while on the street. Bullying and trading sex (i.e. exchanging sexual favors for survival items such as food) are additional forms of trauma experienced by many homeless youth. Although lesbian, gay, and bisexual (LGB) homeless youth experience higher rates of child abuse compared to their heterosexual counterparts, there is a paucity of research comparing these two groups. As such, we compare whether difficulties finding items of necessity (e.g. food) and different forms of trauma including child sexual abuse, being bullied, trading sex, and street sexual victimization significantly differ for LGB and heterosexual homeless youth. Bivariate results reveal that LGB youth have more trouble finding shelter and are more likely to trade sex compared to heterosexual youth. Logistic regression results show that trading sex is correlated with street sexual victimization. In the second model, we find that being female, experiencing more child sexual abuse, and ever having traded sex are all positively linked with street sexual victimization. LGB youth are over-represented among homeless youth populations and are also more likely to trade sex; therefore, these young people need services that are widely accessible and specific to their needs.

Are Anxiety Disorders Associated with Accelerated Aging? A Focus on Neuroprogression

PubMed Central

Perna, Giampaolo; Iannone, Giuseppe; Alciati, Alessandra; Caldirola, Daniela

2016-01-01

Anxiety disorders (AnxDs) are highly prevalent throughout the lifespan, with detrimental effects on daily-life functioning, somatic health, and quality of life. An emerging perspective suggested that AnxDs may be associated with accelerated aging. In this paper, we explored the association between AnxDs and hallmarks of accelerated aging, with a specific focus on neuroprogression. We reviewed animal and human findings that suggest an overlap between processes of impaired neurogenesis, neurodegeneration, structural, functional, molecular, and cellular modifications in AnxDs, and aging. Although this research is at an early stage, our review suggests a link between anxiety and accelerated aging across multiple processes involved in neuroprogression. Brain structural and functional changes that accompany normal aging were more pronounced in subjects with AnxDs than in coevals without AnxDs, including reduced grey matter density, white matter alterations, impaired functional connectivity of large-scale brain networks, and poorer cognitive performance. Similarly, molecular correlates of brain aging, including telomere shortening, Aβ accumulation, and immune-inflammatory and oxidative/nitrosative stress, were overrepresented in anxious subjects. No conclusions about causality or directionality between anxiety and accelerated aging can be drawn. Potential mechanisms of this association, limitations of the current research, and implications for treatments and future studies are discussed. PMID:26881136

A Diversity of Conserved and Novel Ovarian MicroRNAs in the Speckled Wood (Pararge aegeria)

PubMed Central

Quah, Shan; Breuker, Casper J.; Holland, Peter W. H.

2015-01-01

microRNAs (miRNAs) are important regulators of animal development and other processes, and impart robustness to living systems through post-transcriptional regulation of specific mRNA transcripts. It is postulated that newly emergent miRNAs are generally expressed at low levels and with spatiotemporally restricted expression domains, thus minimising effects of spurious targeting on animal transcriptomes. Here we present ovarian miRNA transcriptome data for two geographically distinct populations of the Speckled Wood butterfly (Pararge aegeria). A total of 74 miRNAs were identified, including 11 newly discovered and evolutionarily-young miRNAs, bringing the total of miRNA genes known from P. aegeria up to 150. We find a positive correlation between miRNA age and expression level. A common set of 55 miRNAs are expressed in both populations. From this set, we identify seven that are consistently either ovary-specific or highly upregulated in ovaries relative to other tissues. This ‘ovary set’ includes miRNAs with known contributions to ovarian function in other insect species with similar ovaries and mode of oogenesis, including miR-989 and miR-2763, plus new candidates for ovarian function. We also note that conserved miRNAs are overrepresented in the ovary relative to the whole body. PMID:26556800

Ano-rectal complaints in general practitioner visits: consumer point of view.

PubMed

Pigot, François; Siproudhis, Laurent; Bigard, Marc-André; Staumont, Ghislain

2006-12-01

The perception patients consulting for primary care have of anorectal disorders has never been evaluated. Our aim was to analyze proctological complaints among outpatients consulting general practitioners. Among 1484 physicians who responded to a nationwide mailing in France, 161 enrolled 437 females and 358 males consulting between October 2004 and December 2005. Females were younger than males (46 +/- 15 vs 51 +/- 13 years) (p<0.0001). Intermediate and upper social-occupational categories were overrepresented as compared with the general population. Symptoms were pain (48%), bleeding (37%), swelling (26%) and pruritus (24%). For 76%, these symptoms persisted for less than one month and 58% mentioned earlier visits or prior treatment. The first manifestation was correlated with a pregnancy in 31% of women. Present symptoms were secondary to acute constipation (52%), stress (33%), ingestion of spices (29%) or alcohol (20%), and diarrhea (8%). Symptoms were considered important in 61% or a cause of anxiety in 33% of patients. Treatment was prescribed for all patients: ointments (90%), phlebotonics (66%) or suppositories (51%), in combination for 75% of prescriptions. Patients preferred oral medicines (41%), ointments (30%) and suppositories (7%). Proctological complaints are a reason for repeated visits to the general practitioner and lead to repeated prescriptions. Patients appreciate anti-hemorrhoidal treatments variably.

Selection, periodicity and potential function for Highly Iterative Palindrome-1 (HIP1) in cyanobacterial genomes.

PubMed

Xu, Minli; Lawrence, Jeffrey G; Durand, Dannie

2018-03-16

Highly Iterated Palindrome 1 (HIP1, GCGATCGC) is hyper-abundant in most cyanobacterial genomes. In some cyanobacteria, average HIP1 abundance exceeds one motif per gene. Such high abundance suggests a significant role in cyanobacterial biology. However, 20 years of study have not revealed whether HIP1 has a function, much less what that function might be. We show that HIP1 is 15- to 300-fold over-represented in genomes analyzed. More importantly, HIP1 sites are conserved both within and between open reading frames, suggesting that their overabundance is maintained by selection rather than by continual replenishment by neutral processes, such as biased DNA repair. This evidence for selection suggests a functional role for HIP1. No evidence was found to support a functional role as a peptide or RNA motif or a role in the regulation of gene expression. Rather, we demonstrate that the distribution of HIP1 along cyanobacterial chromosomes is significantly periodic, with periods ranging from 10 to 90 kb, consistent in scale with periodicities reported for co-regulated, co-expressed and evolutionarily correlated genes. The periodicity we observe is also comparable in scale to chromosomal interaction domains previously described in other bacteria. In this context, our findings imply HIP1 functions associated with chromosome and nucleoid structure.

Selection, periodicity and potential function for Highly Iterative Palindrome-1 (HIP1) in cyanobacterial genomes

PubMed Central

Xu, Minli; Lawrence, Jeffrey G; Durand, Dannie

2018-01-01

Abstract Highly Iterated Palindrome 1 (HIP1, GCGATCGC) is hyper-abundant in most cyanobacterial genomes. In some cyanobacteria, average HIP1 abundance exceeds one motif per gene. Such high abundance suggests a significant role in cyanobacterial biology. However, 20 years of study have not revealed whether HIP1 has a function, much less what that function might be. We show that HIP1 is 15- to 300-fold over-represented in genomes analyzed. More importantly, HIP1 sites are conserved both within and between open reading frames, suggesting that their overabundance is maintained by selection rather than by continual replenishment by neutral processes, such as biased DNA repair. This evidence for selection suggests a functional role for HIP1. No evidence was found to support a functional role as a peptide or RNA motif or a role in the regulation of gene expression. Rather, we demonstrate that the distribution of HIP1 along cyanobacterial chromosomes is significantly periodic, with periods ranging from 10 to 90 kb, consistent in scale with periodicities reported for co-regulated, co-expressed and evolutionarily correlated genes. The periodicity we observe is also comparable in scale to chromosomal interaction domains previously described in other bacteria. In this context, our findings imply HIP1 functions associated with chromosome and nucleoid structure. PMID:29432573

Experimental testing of axial induction based control strategies for wake control and wind farm optimization

NASA Astrophysics Data System (ADS)

Bartl, J.; Sætran, L.

2016-09-01

In state-of-the-art wind farms each turbine is controlled individually aiming for optimum turbine power not considering wake effects on downstream turbines. Wind farm control concepts aim for optimizing the overall power output of the farm taking wake interactions between the individual turbines into account. This experimental wind tunnel study investigates axial induction based control concepts. It is examined how the total array efficiency of two in-line model turbines is affected when the upstream turbine's tip speed ratio (λcontrol) or blade pitch angle (β-control) is modified. The focus is particularly directed on how the wake flow behind the upstream rotor is affected when its axial induction is reduced in order to leave more kinetic energy in the wake to be recovered by a downstream turbine. It is shown that the radial distribution of kinetic energy in the wake area can be controlled by modifying the upstream turbine's tip speed ratio. By pitching out the upstream turbine's blades, however, the available kinetic energy in the wake is increased at an equal rate over the entire blade span. Furthermore, the total array efficiency of the two turbine setup is mapped depending on the upstream turbines tip speed ratio and pitch angle. For a small turbine separation distance of x/D=3 the downstream turbine is able to recover the major part of the power lost on the upstream turbine. However, no significant increase in the two-turbine array efficiency is achieved by altering the upstream turbine's operation point away from its optimum.

Human Resource Local Content in Ghana's Upstream Petroleum Industry

NASA Astrophysics Data System (ADS)

Benin, Papa

Enactment of Ghana's Petroleum (Local Content and Local Participation) Regulations, 2013 (L.I. 2204) was intended to regulate the percentage of local products, personnel, financing, and goods and services rendered within Ghana's upstream petroleum industry value chain. Five years after the inception of Ghana's upstream oil and gas industry, a gap is evident between the requirements of L.I. 2204 and professional practice. Drawing on Lewin's change theory, a cross-sectional study was conducted to examine the extent of differences between the prevailing human resource local content and the requirements of L.I. 2204 in Ghana's upstream petroleum industry. The extent to which training acquired by indigenous Ghanaians seeking jobs in Ghana's oil fields affects the prevalent local content in its upstream petroleum industry was also examined. Survey data were collected from 97 management, technical, and other staff in 2 multinational petroleum companies whose oil and gas development plans have been approved by the Petroleum Commission of Ghana. To answer the research questions and test their hypotheses, one-way ANOVA was performed with staff category (management, technical, and other) as the independent variable and prevalent local content as the dependent variable. Results indicated that prevailing local content in Ghana's upstream petroleum industry meets the requirements of L.I. 2204. Further, training acquired by indigenous Ghanaians seeking jobs in Ghana's oil fields affects the prevalent local content in its offshore petroleum industry. Findings may encourage leaders within multinational oil companies and the Petroleum Commission of Ghana to organize educational seminars that equip indigenous Ghanaians with specialized skills for working in Ghana's upstream petroleum industry.

Influence of Forced Flow on the Dendritic Growth of Fe-C Alloy: 3D vs 2D Simulation

NASA Astrophysics Data System (ADS)

Wang, Weiling; Wang, Zhaohui; Luo, Sen; Ji, Cheng; Zhu, Miaoyong

2017-12-01

A 3D parallel cellular automaton-finite volume method (CA-FVM) model was used to simulate the equiaxed dendritic growth of an Fe-0.82 wt pct C alloy with xy- in- out and xyz- in- out type forced flows and the columnar dendritic growth with y- in- out type forced flow. In addition, the similarities and differences between the results of the 3D and 2D models are discussed and summarized in detail. The capabilities of the 3D and 2D CA-FVM models to predict the dendritic growth of the alloy with forced flow are validated through comparison with the boundary layer correction and Oseen-Ivanstov models, respectively. Because the forced flow can pass around perpendicular arms of the dendrites, the secondary arms at the sides upstream from the perpendicular arms are more developed than those on the upstream side of the upstream arms, especially at higher inlet velocities. In addition, compared to the xy- in- out case, the growth of the downstream arms is less inhibited and the secondary arms are more developed in the xyz- in- out case because of the greater lateral flow around their tips. Compared to the 3D case, the 2D equiaxed dendrites are more asymmetrical and lack secondary arms because of the thicker solute envelope. In the 3D case, the columnar dendrites on the upstream side (left one) are promoted, while the middle and downstream dendrites are inhibited in sequence. However, the sequential inhibition starts on the upstream side in the 2D case. This is mainly because the melt can pass around the upstream branch in 3D space. However, it can only climb over the upstream tip in 2D space. Additionally, the secondary arms show upstream development, which is more significant with increasing inlet velocity. The level of development of the secondary arms is also affected by the decay of the forced flow in the flow direction.

Suspended-sediment loads, reservoir sediment trap efficiency, and upstream and downstream channel stability for Kanopolis and Tuttle Creek Lakes, Kansas, 2008-10

USGS Publications Warehouse

Juracek, Kyle E.

2011-01-01

Continuous streamflow and turbidity data collected from October 1, 2008, to September 30, 2010, at streamgage sites upstream and downstream from Kanopolis and Tuttle Creek Lakes, Kansas, were used to compute the total suspended-sediment load delivered to and released from each reservoir as well as the sediment trap efficiency for each reservoir. Ongoing sedimentation is decreasing the ability of the reservoirs to serve several purposes including flood control, water supply, and recreation. River channel stability upstream and downstream from the reservoirs was assessed using historical streamgage information. For Kanopolis Lake, the total 2-year inflow suspended-sediment load was computed to be 600 million pounds. Most of the suspended-sediment load was delivered during short-term, high-discharge periods. The total 2-year outflow suspended-sediment load was computed to be 31 million pounds. Sediment trap efficiency for the reservoir was estimated to be 95 percent. The mean annual suspended-sediment yield from the upstream basin was estimated to be 129,000 pounds per square mile per year. No pronounced changes in channel width were evident at five streamgage sites located upstream from the reservoir. At the Ellsworth streamgage site, located upstream from the reservoir, long-term channel-bed aggradation was followed by a period of stability. Current (2010) conditions at five streamgages located upstream from the reservoir were typified by channel-bed stability. At the Langley streamgage site, located immediately downstream from the reservoir, the channel bed degraded 6.15 feet from 1948 to 2010. For Tuttle Creek Lake, the total 2-year inflow suspended-sediment load was computed to be 13.3 billion pounds. Most of the suspended-sediment load was delivered during short-term, high-discharge periods. The total 2-year outflow suspended-sediment load was computed to be 327 million pounds. Sediment trap efficiency for the reservoir was estimated to be 98 percent. The mean annual suspended-sediment yield from the upstream basin was estimated to be 691,000 pounds per square mile per year. In general, no pronounced changes in channel width were evident at six streamgage sites located upstream from the reservoir. At the Barnes and Marysville streamgage sites, located upstream from the reservoir, long-term channel-bed degradation followed by stability was indicated. At the Frankfort streamgage site, located upstream from the reservoir, channel-bed aggradation of 1.65 feet from 1969 to 1989 followed by channel-bed degradation of 2.4 feet from 1989 to 2010 was indicated and may represent the passage of a sediment pulse caused by historical disturbances (for example, channelization) in the upstream basin. With the exception of the Frankfort streamgage site, current (2010) conditions at four streamgages located upstream from the reservoir were typified by channel-bed stability. At the Manhattan streamgage site, located downstream from the reservoir, high-flow releases associated with the 1993 flood widened the channel about 60 feet (30 percent). The channel bed at this site degraded 4.2 feet from 1960 to 1998 and since has been relatively stable. For the purpose of computing suspended-sediment concentration and load, the use of turbidity data in a regression model can provide more reliable and reproducible estimates than a regression model that uses discharge as the sole independent variable. Moreover, the use of discharge only to compute suspended-sediment concentration and load may result in overprediction. Stream channel banks, compared to channel beds, likely are a more important source of sediment to Kanopolis and Tuttle Creek Lakes from the upstream basins. Other sediment sources include surface-soil erosion in the basins and shoreline erosion in the reservoirs.

Spatiotemporal variations of hydrogeochemistry and its controlling factors in the Gandaki River Basin, Central Himalaya Nepal.

PubMed

Pant, Ramesh Raj; Zhang, Fan; Rehman, Faizan Ur; Wang, Guanxing; Ye, Ming; Zeng, Chen; Tang, Handuo

2018-05-01

The characterization and assessment of water quality in the head water region of Himalaya is necessary, given the immense importance of this region in sustaining livelihoods of people and maintaining ecological balance. A total of 165 water samples were collected from 55 sites during pre-monsoon, monsoon and post-monsoon seasons in 2016 from the Gandaki River Basin of the Central Himalaya, Nepal. The pH, EC values and TDS concentrations were measured in-situ and the concentrations of major ions (Ca 2+ , Mg 2+ , K + , Na + , Cl - , SO 4 2- , NO 3 - ) and Si were analyzed in laboratory. Correlation matrices, paired t-test, cluster analysis, principal component analysis (PCA), the Piper, Gibbs, and Mixing plots, and saturation index were applied to the measurements for evaluating spatiotemporal variation of the major ions. The results reveal mildly alkaline pH values and the following pattern of average ionic dominance: Ca 2+ >Mg 2+ >Na + >K + for cations and HCO 3 - >SO 4 2 - >Cl - >NO 3 - for anions. The results of PCA, Gibbs plot and the ionic relationships displayed the predominance of geogenic weathering processes in areas with carbonate dominant lithology. This conclusion is supported by geochemically different water facies identified in the Piper plot as Ca-HCO 3 (83.03%), mixed Ca-Mg-Cl (12.73.0%) and Ca-Cl (4.24%). Pronounced spatiotemporal heterogeneity demonstrates the influence of climatic, geogenic and anthropogenic conditions. For instance, the Ca 2+ -SO 4 2- , Mg 2+ -SO 4 2- and Na + -Cl - pairs exhibit strong positive correlation with each other in the upstream region, whereas relatively weak correlation in the downstream region, likely indicating the influence of evapo-crystallization processes in the upstream region. Analyses of the suitability of the water supply for drinking and irrigation reveal that the river has mostly retained its natural water quality but poses safety concern at a few locations. Knowledge obtained through this study can contribute to the sustainable management of water quality in the climatically and lithologically distinct segments of the Himalayan river basins. Copyright © 2017 Elsevier B.V. All rights reserved.

Spatial Analysis of Large Woody Debris Arrangement in a Midwestern U.S. River System: Geomorphic Implications and Influences

NASA Astrophysics Data System (ADS)

Martin, D. J.

2013-12-01

Large woody debris (LWD) is universally recognized as a key component of the geomorphological and ecological function of fluvial systems and has been increasingly incorporated into stream restoration and watershed management projects. However, 'natural' processes of recruitment and the subsequent arrangement of LWD within the river network are poorly understood and are thus, rarely a management consideration. Additionally, LWD research tends to be regionally biased toward mountainous regions, and scale biased toward the micro-scale. In many locations, the lack of understanding has led to the failure of restoration/rehabilitation projects that involved the use of LWD. This research uses geographic information systems and spatial analysis techniques to investigate longitudinal arrangement patterns of LWD in a low-gradient, Midwestern river. A large-scale GPS inventory of LWD was performed on the Big River, located in the eastern Missouri Ozarks resulting in over 5,000 logged positions of LWD along seven river segments covering nearly 100 km of the 237 km river system. A time series analysis framework was used to statistically identify longitudinal spatial patterns of LWD arrangement along the main stem of the river, and correlation analyses were performed to help identify physical controls of those patterns. Results indicate that upstream segments have slightly lower densities than downstream segments, with the exception of the farthest upstream segment. Results also show lack of an overall longitudinal trend in LWD density; however, periodogram analysis revealed an inherent periodicity in LWD arrangement. Periodicities were most evident in the downstream segments with frequencies ranging from 3 km to 7 km. Additionally, Pearson correlation analysis, performed within the segment displaying the strongest periodic behavior, show that LWD densities are correlated with channel sinuosity (r=0.25). Ongoing research is investigating further relationships between arrangement patterns and geomorphic and riparian variables. Understanding these spatial patterns and relationships will provide valuable insight into the application of LWD-related stream and watershed management practices, and fill a necessary regional knowledge gap in our understanding of LWD's role in fluvial processes.

“Gate-keeper” Residues and Active-Site Rearrangements in DNA Polymerase μ Help Discriminate Non-cognate Nucleotides

PubMed Central

Li, Yunlang; Schlick, Tamar

2013-01-01

Incorporating the cognate instead of non-cognate substrates is crucial for DNA polymerase function. Here we analyze molecular dynamics simulations of DNA polymerase μ (pol μ) bound to different non-cognate incoming nucleotides including A:dCTP, A:dGTP, A(syn):dGTP, A:dATP, A(syn):dATP, T:dCTP, and T:dGTP to study the structure-function relationships involved with aberrant base pairs in the conformational pathway; while a pol μ complex with the A:dTTP base pair is available, no solved non-cognate structures are available. We observe distinct differences of the non-cognate systems compared to the cognate system. Specifically, the motions of active-site residue His329 and Asp330 distort the active site, and Trp436, Gln440, Glu443 and Arg444 tend to tighten the nucleotide-binding pocket when non-cognate nucleotides are bound; the latter effect may further lead to an altered electrostatic potential within the active site. That most of these “gate-keeper” residues are located farther apart from the upstream primer in pol μ, compared to other X family members, also suggests an interesting relation to pol μ's ability to incorporate nucleotides when the upstream primer is not paired. By examining the correlated motions within pol μ complexes, we also observe different patterns of correlations between non-cognate systems and the cognate system, especially decreased interactions between the incoming nucleotides and the nucleotide-binding pocket. Altered correlated motions in non-cognate systems agree with our recently proposed hybrid conformational selection/induced-fit models. Taken together, our studies propose the following order for difficulty of non-cognate system insertions by pol μ: T:dGTP

(LBA-and-WRM)-based DBA scheme for multi-wavelength upstream transmission supporting 10 Gbps and 1 Gbps in MAN

NASA Astrophysics Data System (ADS)

Zhang, Yuchao; Gan, Chaoqin; Gou, Kaiyu; Xu, Anni; Ma, Jiamin

2018-01-01

DBA scheme based on Load balance algorithm (LBA) and wavelength recycle mechanism (WRM) for multi-wavelength upstream transmission is proposed in this paper. According to 1 Gbps and 10 Gbps line rates, ONUs are grouped into different VPONs. To facilitate wavelength management, resource pool is proposed to record wavelength state. To realize quantitative analysis, a mathematical model describing metro-access network (MAN) environment is presented. To 10G-EPON upstream, load balance algorithm is designed to ensure load distribution fairness for 10G-OLTs. To 1G-EPON upstream, wavelength recycle mechanism is designed to share remained wavelengths. Finally, the effectiveness of the proposed scheme is demonstrated by simulation and analysis.

Interplanetary fast shock diagnosis with the radio receiver on Ulysses

NASA Technical Reports Server (NTRS)

Hoang, S.; Pantellini, F.; Harvey, C. C.; Lacombe, C.; Mangeney, A.; Meuer-Vernet, N.; Perche, C.; Steinberg, J.-L.; Lengyel-Frey, D.; Macdowall, R. J.

1992-01-01

The radio receiver on Ulysses records the quasi-thermal noise which allows a determination of the density and temperature of the cold (core) electrons of the solar wind. Seven interplanetary fast forward or reverse shocks are identified from the density and temperature profiles, together with the magnetic field profile from the Magnetometer experiment. Upstream of the three strongest shocks, bursts of nonthermal waves are observed at the electron plasma frequency f(peu). The more perpendicular the shock, the longer the time interval during which these upstream bursts are observed. For one of the strongest shocks we also observe two kinds of upstream electromagnetic radiation: radiation at 2 f(peu), and radiation at the downstream electron plasma frequency, which propagates into the less dense upstream regions.

Variations in the correlation between teleconnections and Taiwan's streamflow

NASA Astrophysics Data System (ADS)

Chen, Chia-Jeng; Lee, Tsung-Yu

2017-07-01

Interannual variations in catchment streamflow represent an integrated response to anomalies in regional moisture transport and atmospheric circulations and are ultimately linked to large-scale climate oscillations. This study conducts correlation analysis to calculate how summertime (July-September, JAS) streamflow data derived at 28 upstream and 13 downstream gauges in Taiwan correlate with 14 teleconnection indices in the current or preceding seasons. We find that the western Pacific (WP) and Pacific-Japan (PJ) patterns, both of which play a critical role in determining cyclonic activity in the western North Pacific basin, exhibit the highest concurrent correlations (most significant r = 0. 50) with the JAS flows in Taiwan. Alternatively, the Quasi-Biennial Oscillation (QBO) averaged over the period from the previous October to June of the current year is significantly correlated with the JAS flows (most significant r = -0. 66), indicating some forecasting utility. By further examining the correlation results using a 20-year moving window, peculiar temporal variations and possible climate regime shifts (CRSs) can be revealed. A CRS test is employed to identify suspicious and abrupt changes in the correlation. The late 1970s and 1990s are identified as two significant change points. During the intermediate period, Taiwan's streamflow and the PJ index exhibit a marked in-phase relationship (r > 0. 8). It is verified that the two shifts are in concordance with the alteration of large-scale circulations in the Pacific basin by investigating the changes in pattern correlation and composite maps before and after the change point. Our results suggest that empirical forecasting techniques should take into account the effect of CRSs on predictor screening.

Psychopharmacotherapy of Attention Deficit-Hyperactivity Disorder in Children with Comorbid Conditions.

PubMed

Naguy, Ahmed

2018-05-01

One or more comorbidities occur in up to 80% of children with attention deficit-hyperactivity disorder. Attention deficit-hyperactivity disorder is also over-represented in several special populations. Pharmacotherapy can be challenging in these individuals with other conditions due to a suboptimal therapeutic response and an increased likelihood of adverse reactions. This article reviews the evidence supporting the psychopharmacologic management attention deficit-hyperactivity disorder when it occurs in individuals with common comorbidities. Copyright © 2017 Elsevier Inc. All rights reserved.

Conscription in the Afghan Army. Compulsory Service Versus an All Volunteer Force

DTIC Science & Technology

2011-04-01

of the Pakistani army. Since the 1990s, the level of the once over-represented Punjabis has declined to mirror the national average, while there are...advantages as, for example, an urban Punjabi recruit with access to better health care and nutrition may have had. The army also conducts mobile recruitment...1992, p. 131. 19 levels of Punjabis are still higher than their roughly 2% proportion of the population, it appears as if the quota system has

African American teens and the neo-juvenile justice system.

PubMed

Rozie-Battle, Judith L

2002-01-01

African American youth continue to be overrepresented in the juvenile justice system. As a result of the current political environment and the perceived increase in crime among young people, the nation has moved away from rehabilitation and toward harsher treatment of delinquents. The African American community must encourage policy makers and community leaders to continue to address the disproportionate representation of African American youth in the system. Current policing and prosecutorial policies must also be examined and challenged to end the perception of an unjust system.

Spawning chronology, nest site selection and nest success of smallmouth bass during benign streamflow conditions

USGS Publications Warehouse

Dauwalter, D.C.; Fisher, W.L.

2007-01-01

We documented the nesting chronology, nest site selection and nest success of smallmouth bass Micropterus dolomieu in an upstream (4th order) and downstream (5th order) reach of Baron Fork Creek, Oklahoma. Males started nesting in mid-Apr. when water temperatures increased to 16.9 C upstream, and in late-Apr. when temperatures increased to 16.2 C downstream. Streamflows were low (77% upstream to 82% downstream of mean Apr. streamflow, and 12 and 18% of meanjun. streamflow; 47 and 55 y of record), and decreased throughout the spawning period. Larger males nested first upstream, as has been observed in other populations, but not downstream. Upstream, progeny in 62 of 153 nests developed to swim-up stage. Downstream, progeny in 31 of 73 nests developed to swim-up. Nesting densities upstream (147/km) and downstream (100/km) were both higher than any densities previously reported. Males selected nest sites with intermediate water depths, low water velocity and near cover, behavior that is typical of smallmouth bass. Documented nest failures resulted from human disturbance, angling, and longear sunfish predation. Logistic exposure models showed that water velocity at the nest was negatively related and length of the guarding male was positively related to nest success upstream. Male length and number of degree days were both positively related to nest success downstream. Our results, and those of other studies, suggest that biological factors account for most nest failures during benign (stable, low flow) streamflow conditions, whereas nest failures attributed to substrate mobility or nest abandonment dominate when harsh streamflow conditions (spring floods) coincide with the spawning season.

Fish-community composition in Canacadea Creek, in the vicinity of Almond Lake, Allegany and Steuben counties, New York, 2000

USGS Publications Warehouse

Brightbill, R.A.; Bilger, Michael D.

2001-01-01

The U.S. Army Corps of Engineers, Baltimore District, has been conducting biological surveys of the inflow and outflow streams of Almond Lake since the early 1980's. These surveys are made to identify possible detrimental effects as well as benefits of the reservoir and to better understand the aquatic communities in the vicinity of the lake at the present and over time. The U.S. Army Corps of Engineers and the U.S. Geological Survey jointly conducted a survey of the fish communities upstream and downstream of the lake in Canacadea Creek in September 2000. The fish communities upstream and downstream were compared and any differences or similarities seen in the communities were noted.This study found the fish communities to be in fair condition upstream and good condition downstream of Almond Lake, with Index of Biotic Integrity (IBI) scores of 3.5 and 5.0, respectively. The habitat conditions of both reaches were of suboptimal quality, with a score of 14 upstream and 15 downstream as determined by use of the U.S. Environmental Protection Agency's (USEPA) Rapid Bioassessment Protocols, and are capable of supporting fish communities. The Shannon Index indicates species richness and evenness and was 1.87 upstream and 3.22 downstream of the lake, indicating the upstream reach is severely impacted and the downstream reach appears to be not impacted. The Jaccards Coefficient and the Index of Similarity statistically show these communities are similar with scores of 0.55 and 0.71, respectively. Of the 12 species captured upstream, 11 of those also were captured downstream along with 8 other species for a total of 19 species downstream.

Potential Novel Mechanism for Axenfeld-Rieger Syndrome: Deletion of a Distant Region Containing Regulatory Elements of PITX2

PubMed Central

Volkmann, Bethany A.; Zinkevich, Natalya S.; Mustonen, Aki; Schilter, Kala F.; Bosenko, Dmitry V.; Reis, Linda M.; Broeckel, Ulrich; Link, Brian A.

2011-01-01

Purpose. Mutations in PITX2 are associated with Axenfeld-Rieger syndrome (ARS), which involves ocular, dental, and umbilical abnormalities. Identification of cis-regulatory elements of PITX2 is important to better understand the mechanisms of disease. Methods. Conserved noncoding elements surrounding PITX2/pitx2 were identified and examined through transgenic analysis in zebrafish; expression pattern was studied by in situ hybridization. Patient samples were screened for deletion/duplication of the PITX2 upstream region using arrays and probes. Results. Zebrafish pitx2 demonstrates conserved expression during ocular and craniofacial development. Thirteen conserved noncoding sequences positioned within a gene desert as far as 1.1 Mb upstream of the human PITX2 gene were identified; 11 have enhancer activities consistent with pitx2 expression. Ten elements mediated expression in the developing brain, four regions were active during eye formation, and two sequences were associated with craniofacial expression. One region, CE4, located approximately 111 kb upstream of PITX2, directed a complex pattern including expression in the developing eye and craniofacial region, the classic sites affected in ARS. Screening of ARS patients identified an approximately 7600-kb deletion that began 106 to 108 kb upstream of the PITX2 gene, leaving PITX2 intact while removing regulatory elements CE4 to CE13. Conclusions. These data suggest the presence of a complex distant regulatory matrix within the gene desert located upstream of PITX2 with an essential role in its activity and provides a possible mechanism for the previous reports of ARS in patients with balanced translocations involving the 4q25 region upstream of PITX2 and the current patient with an upstream deletion. PMID:20881290

Hormone-induced modifications of the chromatin structure surrounding upstream regulatory regions conserved between the mouse and rabbit whey acidic protein genes.

PubMed Central

Millot, Benjamin; Montoliu, Lluís; Fontaine, Marie-Louise; Mata, Teresa; Devinoy, Eve

2003-01-01

The upstream regulatory regions of the mouse and rabbit whey acidic protein (WAP) genes have been used extensively to target the efficient expression of foreign genes into the mammary gland of transgenic animals. Therefore both regions have been studied to elucidate fully the mechanisms controlling WAP gene expression. Three DNase I-hypersensitive sites (HSS0, HSS1 and HSS2) have been described upstream of the rabbit WAP gene in the lactating mammary gland and correspond to important regulatory regions. These sites are surrounded by variable chromatin structures during mammary-gland development. In the present study, we describe the upstream sequence of the mouse WAP gene. Analysis of genomic sequences shows that the mouse WAP gene is situated between two widely expressed genes (Cpr2 and Ramp3). We show that the hypersensitive sites found upstream of the rabbit WAP gene are also detected in the mouse WAP gene. Further, they encompass functional signal transducer and activator of transcription 5-binding sites, as has been observed in the rabbit. A new hypersensitive site (HSS3), not specific to the mammary gland, was mapped 8 kb upstream of the rabbit WAP gene. Unlike the three HSSs described above, HSS3 is also detected in the liver, but similar to HSS1, it does not depend on lactogenic hormone treatments during cell culture. The region surrounding HSS3 encompasses a potential matrix attachment region, which is also conserved upstream of the mouse WAP gene and contains a functional transcription factor Ets-1 (E26 transformation-specific-1)-binding site. Finally, we demonstrate for the first time that variations in the chromatin structure are dependent on prolactin alone. PMID:12580766

Characterizing the spatiotemporal variability of groundwater levels of alluvial aquifers in different settings using drought indices

NASA Astrophysics Data System (ADS)

Haas, Johannes Christoph; Birk, Steffen

2017-05-01

To improve the understanding of how aquifers in different alluvial settings respond to extreme events in a changing environment, we analyze standardized time series of groundwater levels (Standardized Groundwater level Index - SGI), precipitation (Standardized Precipitation Index - SPI), and river stages of three subregions within the catchment of the river Mur (Austria). Using correlation matrices, differences and similarities between the subregions, ranging from the Alpine upstream part of the catchment to its shallow foreland basin, are identified and visualized. Generally, river stages exhibit the highest correlations with groundwater levels, frequently affecting not only the wells closest to the river, but also more distant parts of the alluvial aquifer. As a result, human impacts on the river are transferred to the aquifer, thus affecting the behavior of groundwater levels. Hence, to avoid misinterpretation of groundwater levels in this type of setting, it is important to account for the river and human impacts on it. While the river is a controlling factor in all of the subregions, an influence of precipitation is evident too. Except for deep wells found in an upstream Alpine basin, groundwater levels show the highest correlation with a precipitation accumulation period of 6 months (SPI6). The correlation in the foreland is generally higher than that in the Alpine subregions, thus corresponding to a trend from deeper wells in the Alpine parts of the catchment towards more shallow wells in the foreland. Extreme events are found to affect the aquifer in different ways. As shown with the well-known European 2003 drought and the local 2009 floods, correlations are reduced under flood conditions, but increased under drought. Thus, precipitation, groundwater levels and river stages tend to exhibit uniform behavior under drought conditions, whereas they may show irregular behavior during floods. Similarly, correlations are found to be weaker in years with little snow as compared with those with much snow. This is in agreement with typical aquifer response times over 1 month, suggesting that short events such as floods will not affect much of the aquifer, whereas a long-term event such as a drought or snow-rich winter will. Splitting the time series into periods of 12 years reveals a tendency towards higher correlations in the most recent time period from 1999 to 2010. This time period also shows the highest number of events with SPI values below -2. The SGI values behave in a similar way only in the foreland aquifer, whereas the investigated Alpine aquifers exhibit a contrasting behavior with the highest number of low SGI events in the time before 1986. This is a result of overlying trends and suggests that the groundwater levels within these subregions are more strongly influenced by direct human impacts, e.g., on the river, than by changes in precipitation. Thus, direct human impacts must not be ignored when assessing climate change impacts on alluvial aquifers situated in populated valleys.

Performance of Pylons Upstream of a Cavity-Based Flameholder in Non-Reacting Supersonic Flow (POSTPRINT)

DTIC Science & Technology

2006-07-01

inches. Measurements are performed using a pitot , cone-static probe and total temperature probe with similar test meshes. All probes are...transverse direction (y/d = 0.0) is the upstream lip of the cavity. In each figure, the bow shock originates just upstream of the injection port and tends...to be the strongest shock feature. In the baseline configurations, the bow shock initially penetrates perpendicular to the main flow due to the

Participation costs can suppress the evolution of upstream reciprocity.

PubMed

Peña, Jorge; Pestelacci, Enea; Berchtold, André; Tomassini, Marco

2011-03-21

Indirect reciprocity, one of the many mechanisms proposed to explain the evolution of cooperation, is the idea that altruistic actions can be rewarded by third parties. Upstream or generalized reciprocity is one type of indirect reciprocity in which individuals help someone if they have been helped by somebody else in the past. Although empirically found to be at work in humans, the evolution of upstream reciprocity is difficult to explain from a theoretical point of view. A recent model of upstream reciprocity, first proposed by Nowak and Roch (2007) and further analyzed by Iwagami and Masuda (2010), shows that while upstream reciprocity alone does not lead to the evolution of cooperation, it can act in tandem with mechanisms such as network reciprocity and increase the total level of cooperativity in the population. We argue, however, that Nowak and Roch's model systematically leads to non-uniform interaction rates, where more cooperative individuals take part in more games than less cooperative ones. As a result, the critical benefit-to-cost ratios derived under this model in previous studies are not invariant with respect to the addition of participation costs. We show that accounting for these costs can hinder and even suppress the evolution of upstream reciprocity, both for populations with non-random encounters and graph-structured populations. Copyright © 2011 Elsevier Ltd. All rights reserved.

Routine versus aggressive upstream rhythm control for prevention of early atrial fibrillation in heart failure: background, aims and design of the RACE 3 study.

PubMed

Alings, M; Smit, M D; Moes, M L; Crijns, H J G M; Tijssen, J G P; Brügemann, J; Hillege, H L; Lane, D A; Lip, G Y H; Smeets, J R L M; Tieleman, R G; Tukkie, R; Willems, F F; Vermond, R A; Van Veldhuisen, D J; Van Gelder, I C

2013-07-01

Rhythm control for atrial fibrillation (AF) is cumbersome because of its progressive nature caused by structural remodelling. Upstream therapy refers to therapeutic interventions aiming to modify the atrial substrate, leading to prevention of AF. The Routine versus Aggressive upstream rhythm Control for prevention of Early AF in heart failure (RACE 3) study hypothesises that aggressive upstream rhythm control increases persistence of sinus rhythm compared with conventional rhythm control in patients with early AF and mild-to-moderate early systolic or diastolic heart failure undergoing electrical cardioversion. RACE 3 is a prospective, randomised, open, multinational, multicenter trial. Upstream rhythm control consists of angiotensin converting enzyme inhibitors and/or angiotensin receptor blockers, mineralocorticoid receptor antagonists, statins, cardiac rehabilitation therapy, and intensive counselling on dietary restrictions, exercise maintenance, and drug adherence. Conventional rhythm control consists of routine rhythm control therapy without cardiac rehabilitation therapy and intensive counselling. In both arms, every effort is made to keep patients in the rhythm control strategy, and ion channel antiarrhythmic drugs or pulmonary vein ablation may be instituted if AF relapses. Total inclusion will be 250 patients. If upstream therapy proves to be effective in improving maintenance of sinus rhythm, it could become a new approach to rhythm control supporting conventional pharmacological and non-pharmacological rhythm control.

New approaches for moving upstream: how state and local health departments can transform practice to reduce health inequalities.

PubMed

Freudenberg, Nicholas; Franzosa, Emily; Chisholm, Janice; Libman, Kimberly

2015-04-01

Growing evidence shows that unequal distribution of wealth and power across race, class, and gender produces the differences in living conditions that are "upstream" drivers of health inequalities. Health educators and other public health professionals, however, still develop interventions that focus mainly on "downstream" behavioral risks. Three factors explain the difficulty in translating this knowledge into practice. First, in their allegiance to the status quo, powerful elites often resist upstream policies and programs that redistribute wealth and power. Second, public health practice is often grounded in dominant biomedical and behavioral paradigms, and health departments also face legal and political limits on expanding their scope of activities. Finally, the evidence for the impact of upstream interventions is limited, in part because methodologies for evaluating upstream interventions are less developed. To illustrate strategies to overcome these obstacles, we profile recent campaigns in the United States to enact living wages, prevent mortgage foreclosures, and reduce exposure to air pollution. We then examine how health educators working in state and local health departments can transform their practice to contribute to campaigns that reallocate the wealth and power that shape the living conditions that determine health and health inequalities. We also consider health educators' role in producing the evidence that can guide transformative expansion of upstream interventions to reduce health inequalities. © 2015 Society for Public Health Education.

Blade-to-Blade Variations in Shocks Upstream of Both a Forward-Swept and an Aft-Swept Fan

NASA Technical Reports Server (NTRS)

Podboy, Gary G.; Krupar, Martin J.

2006-01-01

Detailed laser Doppler velocimeter (LDV) flow field measurements were made upstream of two fans, one forward-swept and one aft-swept, in order to learn more about the shocks which propagate upstream of these rotors when they are operated at supersonic tip speeds. The blade-to-blade variations in the flows associated with these shocks are thought to be responsible for generating Multiple Pure Tone (MPT) noise. The measured blade-to-blade variations are documented in this report through a series of slideshows which show relative Mach number contours computed from the velocity measurements. Data are presented for the forward-swept fan operating at three speeds (corresponding to tip relative Mach numbers of 0.817, 1.074, and 1.189), and for the aft-swept fan operating at two (tip relative Mach numbers of 1.074 and 1.189). These LDV data illustrate how the perturbations in the upstream flow field created by the rotating blades vary with axial position, radial position and rotor speed. As expected, at the highest tested speed the forward-swept fan swallowed the shocks which occur in the tip region, whereas the aftswept fan did not. This resulted in a much smaller flow disturbance just upstream of the tip of the forward-swept fan. Nevertheless, further upstream the two fan flows were much more similar.

Moving Upstream in U.S. Hospital Care Toward Investments in Population Health.

PubMed

Begun, James W; Potthoff, Sandra

The root causes for most health outcomes are often collectively referred to as the social determinants of health. Hospitals and health systems now must decide how much to "move upstream," or invest in programs that directly affect the social determinants of health. Moving upstream in healthcare delivery requires an acceptance of responsibility for the health of populations. We examine responses of 950 nonfederal, general hospitals in the United States to the 2015 American Hospital Association Population Health Survey to identify characteristics that distinguish those hospitals that are most aligned with population health and most engaged in addressing social determinants of health. Those "upstream" hospitals are significantly more likely to be large, not-for-profit, metropolitan, teaching-affiliated, and members of systems. Internally, the more upstream hospitals are more likely to organize their population health activities with strong executive-level involvement, full-time-equivalent support, and coordination at the system level.The characteristics differentiating hospitals strongly involved in population health and upstream activity are not unlike those characteristics associated with diffusion of many innovations in hospitals. These hospitals may be the early adopters in a diffusion process that will eventually include most hospitals or, at least, most not-for-profit hospitals. Alternatively, the population health and social determinants movements could be transient or could be limited to a small portion of hospitals such as those identified here, with distinctive patient populations, missions, and resources.

Gene polymorphisms and sport attitude in Italian athletes.

PubMed

Sessa, Francesco; Chetta, Massimiliano; Petito, Annamaria; Franzetti, Mauro; Bafunno, Valeria; Pisanelli, Daniela; Sarno, Michelina; Iuso, Salvatore; Margaglione, Maurizio

2011-04-01

The aim of this study was to evaluate whether the distribution of polymorphisms in the ACE, ACTN3, NOS3, UCP2, and UCP3 genes, which has been reported to be correlated with different physiological parameters, played a role in sport performance. We focused on a cohort of 82 Italian athletes: first of all, athletes were divided according to type of sport: team (n=72) versus individual (n=10), and subsequently, according to the performance, into "power" sports (n=29; sprinters, short distance swimmers, and volleyball players) and "intermittent" sports (n=53; football, basketball, and hockey players). All the populations studied were in Hardy-Weinberg equilibrium for the following polymorphisms: ACE (I/D), ACTN3 (R577X), NOS3 (-786 T/C), UCP2 (A55V), and UCP3 (-55 C/T). We observed that the frequency of NOS3-786 T and UCP2 C alleles was higher among power athletes compared with controls (p=0.011 and p=0.012, respectively); these alleles were also overrepresented in individual athletes (p=0.02 and p=0.045, respectively), although a small sample was analyzed. The frequency of NOS3 298G allele was higher among power athletes compared with controls (p=0.015); these data remained suggestive after correction for multiple testing. We found a suggestive association between NOS3 (-786 T/C; G298A) and UCP2 (A55V) polymorphisms and power athletes, whereas no significant correlation was found with UCP3 (-55C/T), ACE (I/D), and ACTN3 (R577X) polymorphisms, in contrast to previous studies. Analysis of multiple performance-associated genetic polymorphisms needs further examination to explain the relationship between genetic background and potential success in sport performance.

M Protein Gene (emm Type) Analysis of Group A Beta-Hemolytic Streptococci from Ethiopia Reveals Unique Patterns

PubMed Central

Tewodros, Wezenet; Kronvall, Göran

2005-01-01

The genetic diversity of group A streptococcal (GAS) isolates obtained in 1990 from Ethiopian children with various streptococcal diseases was studied by using emm gene sequence analysis. A total of 217 GAS isolates were included: 155 and 62 isolates from throat and skin, respectively. A total of 78 different emm/st types were detected among the 217 isolates. Of these, 166 (76.5%) belonged to 52 validated reference emm types, 26 (11.9%) belonged to 16 already recognized sequence types (st types) and 25 (11.5%) belonged to 10 undocumented new sequence types. Resistance to tetracycline (148 of 217) was not correlated to emm type. Isolation rate of the classical rheumatogenic and nephritogenic strains was low from cases of acute rheumatic fever (ARF) and acute glomerulonephritis (AGN), respectively. Instead, the recently discovered st types were overrepresented among isolates from patients with ARF (3 of 7) and AGN (9 of 16) (P < 0.01) compared to isolates from subjects with tonsillitis and from healthy carriers (10 of 57 and 16 of 90, respectively). In contrast to rheumatogenic strains from the temperate regions, more than half of the isolates from ARF (four of seven) carried the genetic marker for skin preference, emm pattern D, although most of them (six of seven) were isolated from throat. Of 57 tonsillitis-associated isolates, 16 (28%) belonged to emm pattern D compared to <1% in temperate regions. As in other reports emm patterns A to C were strongly associated with throat, whereas emm pattern D did not correlate to skin. This first large-scale emm typing report from Africa has demonstrated a heterogeneous GAS population and contrasting nature of GAS epidemiology in the region. PMID:16145079

Quantitative statistical analysis of cis-regulatory sequences in ABA/VP1- and CBF/DREB1-regulated genes of Arabidopsis.

PubMed

Suzuki, Masaharu; Ketterling, Matthew G; McCarty, Donald R

2005-09-01

We have developed a simple quantitative computational approach for objective analysis of cis-regulatory sequences in promoters of coregulated genes. The program, designated MotifFinder, identifies oligo sequences that are overrepresented in promoters of coregulated genes. We used this approach to analyze promoter sequences of Viviparous1 (VP1)/abscisic acid (ABA)-regulated genes and cold-regulated genes, respectively, of Arabidopsis (Arabidopsis thaliana). We detected significantly enriched sequences in up-regulated genes but not in down-regulated genes. This result suggests that gene activation but not repression is mediated by specific and common sequence elements in promoters. The enriched motifs include several known cis-regulatory sequences as well as previously unidentified motifs. With respect to known cis-elements, we dissected the flanking nucleotides of the core sequences of Sph element, ABA response elements (ABREs), and the C repeat/dehydration-responsive element. This analysis identified the motif variants that may correlate with qualitative and quantitative differences in gene expression. While both VP1 and cold responses are mediated in part by ABA signaling via ABREs, these responses correlate with unique ABRE variants distinguished by nucleotides flanking the ACGT core. ABRE and Sph motifs are tightly associated uniquely in the coregulated set of genes showing a strict dependence on VP1 and ABA signaling. Finally, analysis of distribution of the enriched sequences revealed a striking concentration of enriched motifs in a proximal 200-base region of VP1/ABA and cold-regulated promoters. Overall, each class of coregulated genes possesses a discrete set of the enriched motifs with unique distributions in their promoters that may account for the specificity of gene regulation.

Aeroacoustic catastrophes: upstream cusp beaming in Lilley's equation.

PubMed

Stone, J T; Self, R H; Howls, C J

2017-05-01

The downstream propagation of high-frequency acoustic waves from a point source in a subsonic jet obeying Lilley's equation is well known to be organized around the so-called 'cone of silence', a fold catastrophe across which the amplitude may be modelled uniformly using Airy functions. Here we show that acoustic waves not only unexpectedly propagate upstream, but also are organized at constant distance from the point source around a cusp catastrophe with amplitude modelled locally by the Pearcey function. Furthermore, the cone of silence is revealed to be a cross-section of a swallowtail catastrophe. One consequence of these discoveries is that the peak acoustic field upstream is not only structurally stable but also at a similar level to the known downstream field. The fine structure of the upstream cusp is blurred out by distributions of symmetric acoustic sources, but peak upstream acoustic beaming persists when asymmetries are introduced, from either arrays of discrete point sources or perturbed continuum ring source distributions. These results may pose interesting questions for future novel jet-aircraft engine designs where asymmetric source distributions arise.

Investigation on centrifugal impeller in an axial-radial combined compressor with inlet distortion

NASA Astrophysics Data System (ADS)

Li, Du; Yang, Ce; Zhao, Ben; Zhou, Mi; Qi, Mingxu; Zhang, Jizhong

2011-12-01

Assembling an axial rotor and a stator at centrifugal compressor upstream to build an axial-radial combined compressor could achieve high pressure ratio and efficiency by appropriate size augment. Then upstream potential flow and wake effect appear at centrifugal impeller inlet. In this paper, the axial-radial compressor is unsteadily simulated by three-dimensional Reynolds averaged Navier-Stokes equations with uniform and circumferential distorted total pressure inlet condition to investigate upstream effect on radial rotor. The results show that span-wise nonuniform total pressure distribution is generated and radial and circumferential combined distortion is formed at centrifugal rotor inlet. The upstream stator wake deflects to rotor rotation direction and decreases with blade span increases. Circumferential distortion causes different separated flow formations at different pitch positions. The tip leakage vortex is suppressed in centrifugal blade passages. Under distorted inlet condition, flow direction of centrifugal impeller leading edge upstream varies evidently near hub and shroud but varies slightly at mid-span. In addition, compressor stage inlet distortion produces remarkable effect on blade loading of centrifugal blade both along chordwise and pitchwise.

Performance Enhancement of Multichannel Gigabit Rate Bidirectional WDM-PON Using RSOA and Optimized Modulation Format

NASA Astrophysics Data System (ADS)

Parkash, Sooraj; Sharma, Anurag; Singh, Harsukhpreet

2016-09-01

This paper successfully demonstrates bidirectional wavelength division multiplexing passive optical network (WDM-PON) system for 32 channels, 0.8 nm (100 GHz) channels spacing with 3.5 GHz filter bandwidth. The system delivers 160 GB/s data rate and 80 GB/s data rate in downstream and upstream, respectively. The optical source for downstream data and upstream data is mode-locked laser at central office and reflective semiconductor optical amplifier (RSOA) at optical network unit. The maximum reach of designed system is 50 km without using any dispersion compensation scheme. This paper comprises comparison of series of modulation format in downstream and upstream such as SOLITON, NRZ, RZ, MANCHESTER, CSRZ and CRZ-DPSK and optimization of the performance of designed system. It has been observed that CRZ-DPSK/NRZ gives best performance in downstream and upstream transmission for designed system. The simulation work report of minimum BER is e-13 for CRZ-DPSK in downstream and e-16 for NRZ in upstream transmission in case of 32-channel bidirectional WDM-PON.

Importance of a midterm time horizon for addressing ethical issues integral to nanobiotechnology.

PubMed

Khushf, George

2007-01-01

There is a consensus emerging on the importance of upstream ethical engagement in nanobiotechnology. Such a preventive ethic would anticipate downstream concerns that might arise and mitigate them as part of the research and development process. However, there is an unappreciated tension between the time horizon of upstream ethics and that assumed by most bioethical research. Current standards of high-quality research on ethical issues biases the research in favor of near-term, science-based, results-oriented work. A near-term focus would miss many of the important ethical issues integral to nanobiotechnology and undermine the goals integral to upstream ethical engagement. However, if we move to a far-term time horizon, the ethical debates tend to get too speculative and are no longer disciplined by existing research trajectories. This paper addresses the link between the midterm time horizon necessary for upstream ethics and the form, content, and style of ethical reflection. New paradigm cases, standards, and criteria will be needed for high-quality upstream ethics work in the area of nanobiotechnology.

C. elegans STK39/SPAK ortholog-mediated inhibition of ClC anion channel activity is regulated by WNK-independent ERK kinase signaling

PubMed Central

Falin, Rebecca A.; Miyazaki, Hiroaki

2011-01-01

Mammalian Ste20-like proline/alanine-rich kinase (SPAK) and oxidative stress-responsive 1 (OSR1) kinases phosphorylate and regulate cation-coupled Cl− cotransporter activity in response to cell volume changes. SPAK and OSR1 are activated via phosphorylation by upstream with-no-lysine (WNK) kinases. In Caenorhabditis elegans, the SPAK/OSR1 ortholog germinal center kinase (GCK)-3 binds to and regulates the activity of the cell volume- and meiotic cell cycle-dependent ClC anion channel CLH-3b. We tested the hypothesis that WNK kinases function in the GCK-3/CLH-3b signaling cascade. CLH-3b heterologously expressed in human embryonic kidney (HEK) cells was unaffected by coexpression with the single C. elegans WNK kinase, WNK-1, or kinase-dead WNK-1 dominant-negative mutants. RNA interference (RNAi) knockdown of the single Drosophila WNK kinase had no effect on the activity of CLH-3b expressed in Drosophila S2 cells. Similarly, RNAi silencing of C. elegans WNK-1 had no effect on basal or cell volume-sensitive activity of CLH-3b expressed endogenously in worm oocytes. Previous yeast 2-hybrid studies suggested that ERK kinases may function upstream of GCK-3. Pharmacological inhibition of ERK signaling disrupted CLH-3b activity in HEK cells in a GCK-3-dependent manner. RNAi silencing of the C. elegans ERK kinase MPK-1 or the ERK phosphorylating/activating kinase MEK-2 constitutively activated native CLH-3b. MEK-2 and MPK-1 play important roles in regulating the meiotic cell cycle in C. elegans oocytes. Cell cycle-dependent changes in MPK-1 correlate with the pattern of CLH-3b activation observed during oocyte meiotic maturation. We postulate that MEK-2/MPK-1 functions upstream from GCK-3 to regulate its activity during cell volume and meiotic cell cycle changes. PMID:21160027

Appearance of the pituitary factor Pit-1 increases chromatin remodeling at hypersensitive site III in the human GH locus.

PubMed

Yang, Xiaoyang; Jin, Yan; Cattini, Peter A

2010-07-01

Expression of pituitary and placental members of the human GH and chorionic somatomammotropin (CS) gene family is directed by an upstream remote locus control region (LCR). Pituitary-specific expression of GH requires direct binding of Pit-1 (listed as POU1F1 in the HUGO database) to sequences marked by a hypersensitive site (HS) region (HS I/II) 14.6 kb upstream of the GH-N gene (listed as GH1 in the HUGO database). We used human embryonic kidney 293 (HEK293) cells overexpressing wild-type and mutant Pit-1 proteins as a model system to gain insight into the mechanism by which Pit-1 gains access to the GH LCR. Addition of Pit-1 to these cells increased DNA accessibility at HS III, located 28 kb upstream of the human GH-N gene, in a POU homeodomain-dependent manner, as reflected by effects on histone hyperacetylation and RNA polymerase II activity. Direct binding of Pit-1 to HS III sequences is not supported. However, the potential for binding of ETS family members to this region has been demonstrated, and Pit-1 association with this ETS element in HS III sequences requires the POU homeodomain. Also, both ETS1 and ELK1 co-precipitate from human pituitary extracts using two independent sources of Pit-1 antibodies. Finally, overexpression of ELK1 or Pit-1 expression in HEK293 cells increased GH-N RNA levels. However, while ELK1 overexpression also stimulated placental CS RNA levels, the effect of Pit-1 appeared to correlate with ETS factor levels and target GH-N preferentially. These data are consistent with recruitment and an early role for Pit-1 in remodeling of the GH LCR at the constitutively open HS III through protein-protein interaction.

Analyzing the Relative Linkages of Land Use and Hydrologic Variables with Urban Surface Water Quality using Multivariate Techniques

NASA Astrophysics Data System (ADS)

Ahmed, S.; Abdul-Aziz, O. I.

2015-12-01

We used a systematic data-analytics approach to analyze and quantify relative linkages of four stream water quality indicators (total nitrogen, TN; total phosphorus, TP; chlorophyll-a, Chla; and dissolved oxygen, DO) with six land use and four hydrologic variables, along with the potential external (upstream in-land and downstream coastal) controls in highly complex coastal urban watersheds of southeast Florida, U.S.A. Multivariate pattern recognition techniques of principle component and factor analyses, in concert with Pearson correlation analysis, were applied to map interrelations and identify latent patterns of the participatory variables. Relative linkages of the in-stream water quality variables with their associated drivers were then quantified by developing dimensionless partial least squares (PLS) regression model based on standardized data. Model fitting efficiency (R2=0.71-0.87) and accuracy (ratio of root-mean-square error to the standard deviation of the observations, RSR=0.35-0.53) suggested good predictions of the water quality variables in both wet and dry seasons. Agricultural land and groundwater exhibited substantial controls on surface water quality. In-stream TN concentration appeared to be mostly contributed by the upstream water entering from Everglades in both wet and dry seasons. In contrast, watershed land uses had stronger linkages with TP and Chla than that of the watershed hydrologic and upstream (Everglades) components for both seasons. Both land use and hydrologic components showed strong linkages with DO in wet season; however, the land use linkage appeared to be less in dry season. The data-analytics method provided a comprehensive empirical framework to achieve crucial mechanistic insights into the urban stream water quality processes. Our study quantitatively identified dominant drivers of water quality, indicating key management targets to maintain healthy stream ecosystems in complex urban-natural environments near the coast.

In situ impact assessment of wastewater effluents by integrating multi-level biomarker responses in the pale chub (Zacco platypus).

PubMed

Kim, Woo-Keun; Jung, Jinho

2016-06-01

The integration of biomarker responses ranging from the molecular to the individual level is of great interest for measuring the toxic effects of hazardous chemicals or effluent mixtures on aquatic organisms. This study evaluated the effects of wastewater treatment plant (WWTP) effluents on the freshwater pale chub Zacco platypus by using multi-level biomarker responses at molecular [mRNA expression of catalase (CAT), superoxide dismutase (SOD), glutathione S-transferase (GST), and metallothionein (MT)], biochemical (enzyme activities of CAT, SOD, GST, and concentration of MT), and physiological [condition factor (CF) and liver somatic index (LSI)] levels. The mRNA expression levels of GST and MT in Z. platypus from a site downstream of a WWTP significantly increased by 2.2- and 4.5-fold (p<0.05) when compared with those from an upstream site. However, the enzyme activities of CAT, SOD, and GST in fish from the downstream site significantly decreased by 43%, 98%, and 13%, respectively (p<0.05), except for an increase in MT concentration (41%). In addition, a significant increase in LSI (46%) was observed in Z. platypus from the downstream site (p<0.05). Concentrations of Cu, Zn, Cd, and Pb in the liver of Z. platypus were higher (530%, 353%, 800%, and 2,200%, respectively) in fish from a downstream site than in fish from an upstream location, and several multi-level biomarker responses were significantly correlated with the accumulated metals in Z. platypus (p<0.05). Integrated biomarker responses at molecular, biochemical, and physiological levels (multi-level IBR) were much higher (about 4-fold) at the downstream site than at the upstream site. This study suggests that the multi-level IBR approach is very useful for quantifying in situ adverse effects of WWTP effluents. Copyright © 2016 Elsevier Inc. All rights reserved.

Validation of the kidney disease quality of life-short form: a cross-sectional study of a dialysis-targeted health measure in Singapore.

PubMed

Joshi, Veena D; Mooppil, Nandakumar; Lim, Jeremy Fy

2010-12-20

In Singapore, the prevalence of end-stage renal disease (ESRD) and the number of people on dialysis is increasing. The impact of ESRD on patient quality of life has been recognized as an important outcome measure. The Kidney Disease Quality Of Life-Short Form (KDQOL-SF™) has been validated and is widely used as a measure of quality of life in dialysis patients in many countries, but not in Singapore. We aimed to determine the reliability and validity of the KDQOL-SF™ for haemodialysis patients in Singapore. From December 2006 through January 2007, this cross-sectional study gathered data on patients ≥21 years old, who were undergoing haemodialysis at National Kidney Foundation in Singapore. We used exploratory factor analysis to determine construct validity of the eight KDQOL-SF™ sub-scales, Cronbach's alpha coefficient to determine internal consistency reliability, correlation of the overall health rating with kidney disease-targeted scales to confirm validity, and correlation of the eight sub-scales with age, income and education to determine convergent and divergent validity. Of 1980 haemodialysis patients, 1180 (59%) completed the KDQOL-SF™. Full information was available for 980 participants, with a mean age of 56 years. The sample was representative of the total dialysis population in Singapore, except Indian ethnicity that was over-represented. The instrument designers' proposed eight sub-scales were confirmed, which together accounted for 68.4% of the variance. All sub-scales had a Cronbach's α above the recommended minimum value of 0.7 to indicate good reliability (range: 0.72 to 0.95), except for Social function (0.66). Correlation of items within subscales was higher than correlation of items outside subscales in 90% of the cases. The overall health rating positively correlated with kidney disease-targeted scales, confirming validity. General health subscales were found to have significant associations with age, income and education, confirming convergent and divergent validity. The psychometric properties of the KDQOL-SF™ resulting from this first-time administration of the instrument support the validity and reliability of the KDQOL-SF™ as a measure of quality of life of haemodialysis patients in Singapore. It is, however, necessary to determine the test-retest reliability of the KDQOL-SF™ among the haemodialysis population of Singapore.

Correlation of Carbon Stock and Biodiversity Index at the Small Scale Agroforestry Landscape in Ciliwung Watershed

NASA Astrophysics Data System (ADS)

Choliq, M. B. S.; Kaswanto, R. L.

2017-10-01

Pekarangan is part of a complex of small-scale agroforestry landscape. Pekarangan have 3 functions i.e. ecological, economic, and social. ecological function, for providing landscape services such as carbon stock and biodiversity; economic function, can supplies foods and nutrition; and social function, for building low carbon communities and increasing the environmental awareness. Therefore, this research aims to correlate carbon stocks and biodiversity index of Pekarangan in Ciliwung Watershed. This study has measured 48 samples which were divided in three stream, namely upstream, midstream, and downstream. The samples were divided into four groups, G1 (pekarangan size less than 120 m2 and doesn’t have other agricultural land (no other agricultural land - OAL), G2 (<120 m2 with OAL < 1000 m2), G3 (120-400 m2 with no OAL) and G4 (120-400 m2 with OAL < 1000 m2). The results show that correlation between carbon stock and biodiversity index value is R2 = 0.05. The results showed no correlation between carbon stocks and biodiversity index could be due to the amount of Pekarangan owners who prefer potted plants than plant a tree, so that the carbon sequestered in the Pekarangan only slightly.