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Sample records for temporally diverse sample

  1. Sampling of temporal networks: Methods and biases

    Science.gov (United States)

    Rocha, Luis E. C.; Masuda, Naoki; Holme, Petter

    2017-11-01

    Temporal networks have been increasingly used to model a diversity of systems that evolve in time; for example, human contact structures over which dynamic processes such as epidemics take place. A fundamental aspect of real-life networks is that they are sampled within temporal and spatial frames. Furthermore, one might wish to subsample networks to reduce their size for better visualization or to perform computationally intensive simulations. The sampling method may affect the network structure and thus caution is necessary to generalize results based on samples. In this paper, we study four sampling strategies applied to a variety of real-life temporal networks. We quantify the biases generated by each sampling strategy on a number of relevant statistics such as link activity, temporal paths and epidemic spread. We find that some biases are common in a variety of networks and statistics, but one strategy, uniform sampling of nodes, shows improved performance in most scenarios. Given the particularities of temporal network data and the variety of network structures, we recommend that the choice of sampling methods be problem oriented to minimize the potential biases for the specific research questions on hand. Our results help researchers to better design network data collection protocols and to understand the limitations of sampled temporal network data.

  2. Seasonality and predictability shape temporal species diversity.

    Science.gov (United States)

    Tonkin, Jonathan D; Bogan, Michael T; Bonada, Núria; Rios-Touma, Blanca; Lytle, David A

    2017-05-01

    Temporal environmental fluctuations, such as seasonality, exert strong controls on biodiversity. While the effects of seasonality are well known, the predictability of fluctuations across years may influence seasonality in ways that are less well understood. The ability of a habitat to support unique, non-nested assemblages of species at different times of the year should depend on both seasonality (occurrence of events at specific periods of the year) and predictability (the reliability of event recurrence) of characteristic ecological conditions. Drawing on tools from wavelet analysis and information theory, we developed a framework for quantifying both seasonality and predictability of habitats, and applied this using global long-term rainfall data. Our analysis predicted that temporal beta diversity should be maximized in highly predictable and highly seasonal climates, and that low degrees of seasonality, predictability, or both would lower diversity in characteristic ways. Using stream invertebrate communities as a case study, we demonstrated that temporal species diversity, as exhibited by community turnover, was determined by a balance between temporal environmental variability (seasonality) and the reliability of this variability (predictability). Communities in highly seasonal mediterranean environments exhibited strong oscillations in community structure, with turnover from one unique community type to another across seasons, whereas communities in aseasonal New Zealand environments fluctuated randomly. Understanding the influence of seasonal and other temporal scales of environmental oscillations on diversity is not complete without a clear understanding of their predictability, and our framework provides tools for examining these trends at a variety of temporal scales, seasonal and beyond. Given the uncertainty of future climates, seasonality and predictability are critical considerations for both basic science and management of ecosystems (e.g., dam

  3. Sampling nucleotide diversity in cotton

    Directory of Open Access Journals (Sweden)

    Yu John Z

    2009-10-01

    Full Text Available Abstract Background Cultivated cotton is an annual fiber crop derived mainly from two perennial species, Gossypium hirsutum L. or upland cotton, and G. barbadense L., extra long-staple fiber Pima or Egyptian cotton. These two cultivated species are among five allotetraploid species presumably derived monophyletically between G. arboreum and G. raimondii. Genomic-based approaches have been hindered by the limited variation within species. Yet, population-based methods are being used for genome-wide introgression of novel alleles from G. mustelinum and G. tomentosum into G. hirsutum using combinations of backcrossing, selfing, and inter-mating. Recombinant inbred line populations between genetics standards TM-1, (G. hirsutum × 3-79 (G. barbadense have been developed to allow high-density genetic mapping of traits. Results This paper describes a strategy to efficiently characterize genomic variation (SNPs and indels within and among cotton species. Over 1000 SNPs from 270 loci and 279 indels from 92 loci segregating in G. hirsutum and G. barbadense were genotyped across a standard panel of 24 lines, 16 of which are elite cotton breeding lines and 8 mapping parents of populations from six cotton species. Over 200 loci were genetically mapped in a core mapping population derived from TM-1 and 3-79 and in G. hirsutum breeding germplasm. Conclusion In this research, SNP and indel diversity is characterized for 270 single-copy polymorphic loci in cotton. A strategy for SNP discovery is defined to pre-screen loci for copy number and polymorphism. Our data indicate that the A and D genomes in both diploid and tetraploid cotton remain distinct from each such that paralogs can be distinguished. This research provides mapped DNA markers for intra-specific crosses and introgression of exotic germplasm in cotton.

  4. Fast Moving Sampling Designs in Temporal Networks

    CERN Document Server

    Thompson, Steven K

    2015-01-01

    In a study related to this one I set up a temporal network simulation environment for evaluating network intervention strategies. A network intervention strategy consists of a sampling design to select nodes in the network. An intervention is applied to nodes in the sample for the purpose of changing the wider network in some desired way. The network intervention strategies can represent natural agents such as viruses that spread in the network, programs to prevent or reduce the virus spread, and the agency of individual nodes, such as people, in forming and dissolving the links that create, maintain or change the network. The present paper examines idealized versions of the sampling designs used to that study. The purpose is to better understand the natural and human network designs in real situations and to provide a simple inference of design-based properties that in turn measure properties of the time-changing network. The designs use link tracing and sometimes other probabilistic procedures to add units ...

  5. Urbanization-induced habitat fragmentation erodes multiple components of temporal diversity in a Southern California native bee assemblage.

    Science.gov (United States)

    Hung, Keng-Lou James; Ascher, John S; Holway, David A

    2017-01-01

    Despite a large number of ecological studies that document diversity loss resulting from anthropogenic disturbance, surprisingly few consider how disturbance affects temporal patterns of diversity that result from seasonal turnover of species. Temporal dynamics can play an important role in the structure and function of biological assemblages. Here, we investigate the temporal diversity patterns of bee faunas in Southern California coastal sage scrub ecosystems that have been extensively fragmented by urbanization. Using a two-year dataset of 235 bee species (n = 12,036 specimens), we compared 1-ha plots in scrub fragments and scrub reserves with respect to three components of temporal diversity: overall plot-level diversity pooled over time (temporal gamma diversity), diversity at discrete points in time (temporal alpha diversity), and seasonal turnover in assemblage composition (temporal beta diversity). Compared to reserves, fragments harbored bee assemblages with lower species richness and assemblage evenness both when summed across temporal samples (i.e., lower temporal gamma diversity) and at single points in time (i.e., lower temporal alpha diversity). Bee assemblages in fragments also exhibited reduced seasonal turnover (i.e., lower temporal beta diversity). While fragments and reserves did not differ in overall bee abundance, bee abundance in fragments peaked later in the season compared to that in reserves. Our results argue for an increased awareness of temporal diversity patterns, as information about the distinct components of temporal diversity is essential both for characterizing the assemblage dynamics of seasonal organisms and for identifying potential impacts of anthropogenic disturbance on ecosystem function through its effects on assemblage dynamics.

  6. Temporal and spatial diversity of bacterial communities in coastal waters of the South china sea.

    Science.gov (United States)

    Du, Jikun; Xiao, Kai; Li, Li; Ding, Xian; Liu, Helu; Lu, Yongjun; Zhou, Shining

    2013-01-01

    Bacteria are recognized as important drivers of biogeochemical processes in all aquatic ecosystems. Temporal and geographical patterns in ocean bacterial communities have been observed in many studies, but the temporal and spatial patterns in the bacterial communities from the South China Sea remained unexplored. To determine the spatiotemporal patterns, we generated 16S rRNA datasets for 15 samples collected from the five regularly distributed sites of the South China Sea in three seasons (spring, summer, winter). A total of 491 representative sequences were analyzed by MOTHUR, yielding 282 operational taxonomic units (OTUs) grouped at 97% stringency. Significant temporal variations of bacterial diversity were observed. Richness and diversity indices indicated that summer samples were the most diverse. The main bacterial group in spring and summer samples was Alphaproteobacteria, followed by Cyanobacteria and Gammaproteobacteria, whereas Cyanobacteria dominated the winter samples. Spatial patterns in the samples were observed that samples collected from the coastal (D151, D221) waters and offshore (D157, D1512, D224) waters clustered separately, the coastal samples harbored more diverse bacterial communities. However, the temporal pattern of the coastal site D151 was contrary to that of the coastal site D221. The LIBSHUFF statistics revealed noticeable differences among the spring, summer and winter libraries collected at five sites. The UPGMA tree showed there were temporal and spatial heterogeneity of bacterial community composition in coastal waters of the South China Sea. The water salinity (P=0.001) contributed significantly to the bacteria-environment relationship. Our results revealed that bacterial community structures were influenced by environmental factors and community-level changes in 16S-based diversity were better explained by spatial patterns than by temporal patterns.

  7. Large-Scale Spatio-Temporal Patterns of Mediterranean Cephalopod Diversity.

    Directory of Open Access Journals (Sweden)

    Stefanie Keller

    Full Text Available Species diversity is widely recognized as an important trait of ecosystems' functioning and resilience. Understanding the causes of diversity patterns and their interaction with the environmental conditions is essential in order to effectively assess and preserve existing diversity. While diversity patterns of most recurrent groups such as fish are commonly studied, other important taxa such as cephalopods have received less attention. In this work we present spatio-temporal trends of cephalopod diversity across the entire Mediterranean Sea during the last 19 years, analysing data from the annual bottom trawl survey MEDITS conducted by 5 different Mediterranean countries using standardized gears and sampling protocols. The influence of local and regional environmental variability in different Mediterranean regions is analysed applying generalized additive models, using species richness and the Shannon Wiener index as diversity descriptors. While the western basin showed a high diversity, our analyses do not support a steady eastward decrease of diversity as proposed in some previous studies. Instead, high Shannon diversity was also found in the Adriatic and Aegean Seas, and high species richness in the eastern Ionian Sea. Overall diversity did not show any consistent trend over the last two decades. Except in the Adriatic Sea, diversity showed a hump-shaped trend with depth in all regions, being highest between 200-400 m depth. Our results indicate that high Chlorophyll a concentrations and warmer temperatures seem to enhance species diversity, and the influence of these parameters is stronger for richness than for Shannon diversity.

  8. The spatio-temporal dynamics of neutral genetic diversity

    OpenAIRE

    Bonnefon, Olivier; Coville, Jérôme; Garnier, Jimmy; Hamel, François; Roques, Lionel

    2014-01-01

    International audience; The notions of pulled and pushed solutions of reaction-dispersal equations introduced by Garnier et al. (2012) and Roques et al. (2012) are based on a decomposition of the solutions into several components. In the framework of population dynamics, this decomposition is related to the spatio-temporal evolution of the genetic structure of a population. The pulled solutions describe a rapid erosion of neutral genetic diversity, while the pushed solutions are associated wi...

  9. Spatial and temporal drivers of phenotypic diversity in polymorphic snakes.

    Science.gov (United States)

    Cox, Christian L; Davis Rabosky, Alison R

    2013-08-01

    Color polymorphism in natural populations presents an ideal opportunity to study the evolutionary drivers of phenotypic diversity. Systems with striking spatial, temporal, and qualitative variation in color can be leveraged to study the mechanisms promoting the distribution of different types of variation in nature. We used the highly polymorphic ground snake (Sonora semiannulata), a putative coral snake mimic with both cryptic and conspicuous morphs, to compare patterns of neutral genetic variation and variation over space and time in color polymorphism to investigate the mechanistic drivers of phenotypic variation across scales. We found that strong selection promotes color polymorphism across spatial and temporal scales, with morph frequencies differing markedly between juvenile and adult age classes within a single population, oscillating over time within multiple populations, and varying drastically over the landscape despite minimal population genetic structure. However, we found no evidence that conspicuousness of morphs was related to which color pattern was favored by selection or to any geographic factors, including sympatry with coral snakes. We suggest that complex patterns of phenotypic variation in polymorphic systems may be a fundamental outcome of the conspicuousness of morphs and that explicit tests of temporal and geographic variation are critical to the interpretation of conspicuousness and mimicry.

  10. Temporal variation of β-diversity and assembly mechanisms in a bacterial metacommunity.

    Science.gov (United States)

    Langenheder, Silke; Berga, Mercè; Östman, Örjan; Székely, Anna J

    2012-06-01

    The turnover of community composition across space, β-diversity, is influenced by different assembly mechanisms, which place varying weight on local habitat factors, such as environmental conditions and species interactions, and regional factors such as dispersal and history. Several assembly mechanisms may function simultaneously; however, little is known about how their importance changes over time and why. Here, we implemented a field survey where we sampled a bacterial metacommunity consisting of 17 rock pools located at the Swedish Baltic Sea coast at 11 occasions during 1 year. We determined to which extent communities were structured by different assembly mechanisms using variation partitioning and studied changes in β-diversity across environmental gradients over time. β-Diversity was highest at times of high overall productivity and environmental heterogeneity in the metacommunity, at least partly due to species sorting, that is, selection of taxa by the prevailing environmental conditions. In contrast, dispersal-driven assembly mechanisms were primarily detected at times when β-diversity was relatively low. There were no indications for strong and persistent differences in community composition or β-diversity between permanent and temporary pools, indicating that the physical disturbance regime is of relatively minor importance. In summary, our study clearly suggests that there are temporal differences in the relative importance of different assembly mechanisms related to abiotic factors and shows that the temporal variability of those factors is important for a more complete understanding of bacterial metacommunity dynamics.

  11. Sampling wild species to conserve genetic diversity

    Science.gov (United States)

    Sampling seed from natural populations of crop wild relatives requires choice of the locations to sample from and the amount of seed to sample. While this may seem like a simple choice, in fact careful planning of a collector’s sampling strategy is needed to ensure that a crop wild collection will ...

  12. Temporal variability in macroinvertebrates diversity patterns and their relation with environmental factors

    Directory of Open Access Journals (Sweden)

    MOHAMMAD HASAN GERAMI

    2016-05-01

    Full Text Available Abstract. Gerami MH, Patimar R, Negarestan H, Jafarian H, Mortazavi MS. 2015. Temporal variability in macroinvertebrates diversity patterns and their relation with environmental factors. Biodiversitas 17: 36-43. Seasonal changes are the most important factor in temporal variability of macroinvertebrates communities in marine benthic zone. Realizing the pattern of these changes are the key attributes to maintain benthic resources. For this purpose this study aimed to investigate temporal variability of macroinvertebrates diversity patterns in different seasons in Hormozgan province waters, Persian Gulf. Five sites were identified and sampling was carried out randomly at three places with three replicate in each site from autumn 2014 to spring 2015. Physiochemical properties of water were recorded in each sampling site. Total of 19 macroinvertebrate orders were identified form four seasons in all sites. Results showed that Polychaeta were dominant taxa in all seasons and maximum diversity of benthic macroinvertebrates exhibited in winter. According to evenness index (E1, abundances of species were most balanced in spring. Analysis of weight and density revealed that the species diversity and mean weight of macroinvertebrates had maximum in winter and minimum in summer. Macroinvertebrate community structure was similar in the spring and summer and partly discriminated from remaining two seasons. SIMPER analysis confirmed these dissimilarities and revealed that Foraminifera, Gastropoda and Polychaeta have three major contributions in dissimilarities between seasons. According to BIO-ENV analysis, oxygen and chlorophyll a were the best variables (r = 0.7143 explaining changes in the abundance over time of the benthic fauna under study. On the contrary, eight orders (Amphipoda, Secernentea, Cumacea, Euphausiacea, Gastropoda, Isopoda, Anthozoa and Sagittoidea did not show any convergence with environmental factors in this study.

  13. [Species diversity and temporal niche of entomopathogenic fungi in the extensively managed tea plantation soil].

    Science.gov (United States)

    Guo, Xian-Jian; Shen, Wan-Fang; Liu, Yu-Jun; Chen, Ming-Jun

    2014-11-01

    The species diversity and temporal niche of entomopathogenic fungi community in the rhizosphere soil collected from the extensively managed Huangshan fuzz tip tea plantation were investigated. A total of 140 soil samples were collected at the location of Tangkou Town, Huangshan of Anhui Province during August, 2012 to June, 2013, and totally 1041 fungal isolates were obtained on selective medium with soil dilution plating. The results showed that the entomopathogenic fungi community in the tea plantation soil was diverse with 13 species in 6 genera. Purpureocillium lilacinum (309 strains), Beauveria bassiana (255 strains), and Metarhizium anisopliae (101 strains) were the dominant species accounting for 29.7%, 24.5% and 9.7% of the relative frequency, respectively. P. lilacinum had the widest temporal niche breadth among these dominant entomopathogenic fungi from the tea plantation soil, while B. bassiana had the narrowest. Among the entomopathogenic fungi, B. bassiana and B. brongniartii had the biggest temporal niche overlap of 1.965, while Isaria javanicus and B. bassiana had the smallest of 0.374.

  14. Stochastic and deterministic processes regulate spatio-temporal variation in seed bank diversity

    Science.gov (United States)

    Alejandro A. Royo; Todd E. Ristau

    2013-01-01

    Seed banks often serve as reservoirs of taxonomic and genetic diversity that buffer plant populations and influence post-disturbance vegetation trajectories; yet evaluating their importance requires understanding how their composition varies within and across spatial and temporal scales (α- and β-diversity). Shifts in seed bank diversity are strongly...

  15. Bacterial diversity of biofilm samples from deep mines in South ...

    African Journals Online (AJOL)

    JTEkanem

    microbial diversity of mines in South Africa, biofilm samples were collected from Goldfield and diamond ... understand microbial biosynthetic processes and enhance remediation of contaminated environments3. The microbial diversity in these extreme environments has been the key to the ..... Biodiversity of acidophilic.

  16. Temporal changes in taxonomic and functional diversity of fish assemblages downstream from mountaintop mining

    Science.gov (United States)

    Hitt, Nathaniel P.; Chambers, Douglas B.

    2014-01-01

    Mountaintop mining (MTM) affects chemical, physical, and hydrological properties of receiving streams, but the long-term consequences for fish-assemblage structure and function are poorly understood. We sampled stream fish assemblages using electrofishing techniques in MTM exposure sites and reference sites within the Guyandotte River basin, USA, during 2010–2011. We calculated indices of taxonomic diversity (species richness, abundance, Shannon diversity) and functional diversity (functional richness, functional evenness, functional divergence) to compare exposure and reference assemblages between seasons (spring and autumn) and across years (1999–2011). We based temporal comparisons on 2 sites that were sampled during 1999–2001 by Stauffer and Ferreri (2002). Exposure assemblages had lower taxonomic and functional diversity than reference assemblages or simulated assemblages that accounted for random variation. Differences in taxonomic composition between reference and exposure assemblages were associated with conductivity and aqueous Se concentrations. Exposure assemblages had fewer species, lower abundances, and less biomass than reference assemblages across years and seasons. Green Sunfish (Lepomis cyanellus) and Creek Chub (Semotilus atromaculatus) became numerically dominant in exposure assemblages over time because of their persistence and losses of other taxa. In contrast, species richness increased over time in reference assemblages, a result that may indicate recovery from drought. Mean individual biomass increased as fish density decreased and most obligate invertivores were apparently extirpated at MTM exposure sites. Effects of MTM were not related to physical-habitat conditions but were associated with water-quality variables, which may limit quality and availability of benthic macroinvertebrate prey. Simulations revealed effects of MTM that could not be attributed to random variation in fish assemblage structure.

  17. Diversity, spatial and temporal abundance of Anopheles gambiae ...

    African Journals Online (AJOL)

    The Anopheles gambiae complex contains the most efficient malaria vectors in the world. Identification of the species and the concomitant distribution are vital for effective malaria control. The objective of the study was to establish the diversity, spatial and seasonal abundance of malaria vectors in the Rufiji River Basin in ...

  18. Using temporal sampling to improve attribution of source populations for invasive species.

    Directory of Open Access Journals (Sweden)

    Sharyn J Goldstien

    Full Text Available Numerous studies have applied genetic tools to the identification of source populations and transport pathways for invasive species. However, there are many gaps in the knowledge obtained from such studies because comprehensive and meaningful spatial sampling to meet these goals is difficult to achieve. Sampling populations as they arrive at the border should fill the gaps in source population identification, but such an advance has not yet been achieved with genetic data. Here we use previously acquired genetic data to assign new incursions as they invade populations within New Zealand ports and marinas. We also investigated allelelic frequency change in these recently established populations over a two-year period, and assessed the effect of temporal genetic sampling on our ability to assign new incursions to their population of source. We observed shifts in the allele frequencies among populations, as well as the complete loss of some alleles and the addition of alleles novel to New Zealand, within these recently established populations. There was no significant level of genetic differentiation observed in our samples between years, and the use of these temporal data did alter the assignment probability of new incursions. Our study further suggests that new incursions can add genetic variation to the population in a single introduction event as the founders themselves are often more genetically diverse than theory initially predicted.

  19. Sensitivity of functional diversity metrics to sampling intensity

    NARCIS (Netherlands)

    van der Plas, Fons; van Klink, Roel; Manning, Pete; Olff, Han; Fischer, Andmarkus

    1. Functional diversity (FD) metrics are increasingly used in ecological research, particularly in the studies of community assembly and ecosystem functioning. However, studies using the FD metrics vary greatly in the intensity by which ecological communities were sampled and it is largely unknown

  20. Temporal Stability of Molecular Diversity Measures in Natural Populations of Drosophila pseudoobscura and Drosophila persimilis

    Science.gov (United States)

    Hish, Alexander J.; Noor, Mohamed A. F.

    2015-01-01

    Many molecular ecological and evolutionary studies sample wild populations at a single point in time, but that data represents genetic variation from a potentially unrepresentative snapshot in time. Variation across time in genetic parameters may occur quickly in species that produce multiple generations of offspring per year. Here, we compare genetic diversity in wild caught populations of Drosophila persimilis and Drosophila pseudoobscura collected 16 years apart at the same time of year and same site at 4 X-linked and 2 mitochondrial loci to assess genetic stability. We found no major changes in nucleotide diversity in either species, but we observed a drastic shift in Tajima’s D between D. pseudoobscura timepoints at 1 locus associated with increased abundance of a set of related haplotypes. Our data also suggests that D. persimilis may have recently accelerated its demographic expansion. While the changes we observed were modest, this study reinforces the importance of considering potential temporal variation in genetic parameters within single populations over short evolutionary timescales. PMID:25969560

  1. The role of pitch and temporal diversity in the perception and production of musical sequences.

    Science.gov (United States)

    Prince, Jon B; Pfordresher, Peter Q

    2012-10-01

    In two experiments we explored how the dimensions of pitch and time contribute to the perception and production of musical sequences. We tested how dimensional diversity (the number of unique categories in each dimension) affects how pitch and time combine. In Experiment 1, 18 musically trained participants rated the complexity of sequences varying only in their diversity in pitch or time; a separate group of 18 pianists reproduced these sequences after listening to them without practice. Overall, sequences with more diversity were perceived as more complex, but pitch diversity influenced ratings more strongly than temporal diversity. Further, although participants perceived sequences with high levels of pitch diversity as more complex, errors were more common in the sequences with higher diversity in time. Sequences in Experiment 2 exhibited diversity in both pitch and time; diversity levels were a subset of those tested in Experiment 1. Again diversity affected complexity ratings and errors, but there were no statistical interactions between dimensions. Nonetheless, pitch diversity was the primary factor in determining perceived complexity, and again temporal errors occurred more often than pitch errors. Additionally, diversity in one dimension influenced error rates in the other dimension in that both error types were more frequent relative to Experiment 1. These results suggest that although pitch and time do not interact directly, they are nevertheless not processed in an informationally encapsulated manner. The findings also align with a dimensional salience hypothesis, in which pitch is prioritised in the processing of typical Western musical sequences. Copyright © 2012 Elsevier B.V. All rights reserved.

  2. [Actinobacterial diversity of marine sediment samples from Chile].

    Science.gov (United States)

    Jiang, Hong; Lin, Ru; Chen, Lujie; Lin, Hao; Nie, Yilei; Lian, Yunyang

    2010-07-01

    The aim of this study was to investigate actinobacterial diversity in Chilean marine sediments. Actinobacterial diversity in these sediments was investigated by selective isolation method, culture-independent method and phylogenetic analysis based on 16S rRNA gene sequences. Six selective media were used to isolate actinomycetes from sediment samples. The primers for the class Actinobacteria were used for Actinobacterial 16S rRNA gene amplification and then a clone library was constructed for the sediment sample btt. Twenty-two strains with different culture characteristics and 59 clones from sample btt were selected for 16S rRNA gene sequences analysis. To determine requirement for seawater each strain was grown on oatmeal agar prepared with deionized water and with seawater, respectively. Strains were screened for antibiotic activity against bacteria and fungi. In total 328 actinomycetes were obtained. Twenty-two strains which were selected belonged to Streptomyces, Micromonospora, Polymorphospora, Aeromicrobium and Brachybacterium. Fifty-nine clones (40 OTUs) were sequenced, and 60% OTUs belonged to Actinobacteridae, Acidimicrobidae and Rubrobacteridae. The other 40% OTUs, which formed several distinct clades in phylogenetic tree among phylum Actinobacteria may represent new taxonomical groups. 50% of the 47 sea water dependant strains and nineteen strains out of the above 22 strains exhibited antimicrobial activity. There was abundant actinobacterial diversity in the marine sediments of Chile, and the result implied that there were large numbers of unknown actinobacterial groups in the sediments. Actinomycetes from Chilean marine sediments had the potential of producing bioactive secondary metabolites.

  3. Mushroom biomass and diversity are driven by different spatio-temporal scales along Mediterranean elevation gradients

    Science.gov (United States)

    Alday, Josu G.; Martínez de Aragón, Juan; de-Miguel, Sergio; Bonet, José Antonio

    2017-04-01

    Mushrooms are important non-wood-forest-products in many Mediterranean ecosystems, being highly vulnerable to climate change. However, the ecological scales of variation of mushroom productivity and diversity, and climate dependence has been usually overlooked due to a lack of available data. We determined the spatio-temporal variability of epigeous sporocarps and the climatic factors driving their fruiting to plan future sustainable management of wild mushrooms production. We collected fruiting bodies in Pinus sylvestris stands along an elevation gradient for 8 consecutive years. Overall, sporocarp biomass was mainly dependent on inter-annual variations, whereas richness was more spatial-scale dependent. Elevation was not significant, but there were clear elevational differences in biomass and richness patterns between ectomycorrhizal and saprotrophic guilds. The main driver of variation was late-summer-early-autumn precipitation. Thus, different scale processes (inter-annual vs. spatial-scale) drive sporocarp biomass and diversity patterns; temporal effects for biomass and ectomycorrhizal fungi vs. spatial scale for diversity and saprotrophic fungi. The significant role of precipitation across fungal guilds and spatio-temporal scales indicates that it is a limiting resource controlling sporocarp production and diversity in Mediterranean regions. The high spatial and temporal variability of mushrooms emphasize the need for long-term datasets of multiple spatial points to effectively characterize fungal fruiting patterns.

  4. It's in the Sample: The Effects of Sample Size and Sample Diversity on the Breadth of Inductive Generalization

    Science.gov (United States)

    Lawson, Chris A.; Fisher, Anna V.

    2011-01-01

    Developmental studies have provided mixed evidence with regard to the question of whether children consider sample size and sample diversity in their inductive generalizations. Results from four experiments with 105 undergraduates, 105 school-age children (M = 7.2 years), and 105 preschoolers (M = 4.9 years) showed that preschoolers made a higher…

  5. Diversity promotes temporal stability across levels of ecosystem organization in experimental grasslands.

    Science.gov (United States)

    Proulx, Raphaël; Wirth, Christian; Voigt, Winfried; Weigelt, Alexandra; Roscher, Christiane; Attinger, Sabine; Baade, Jussi; Barnard, Romain L; Buchmann, Nina; Buscot, François; Eisenhauer, Nico; Fischer, Markus; Gleixner, Gerd; Halle, Stefan; Hildebrandt, Anke; Kowalski, Esther; Kuu, Annely; Lange, Markus; Milcu, Alex; Niklaus, Pascal A; Oelmann, Yvonne; Rosenkranz, Stephan; Sabais, Alexander; Scherber, Christoph; Scherer-Lorenzen, Michael; Scheu, Stefan; Schulze, Ernst-Detlef; Schumacher, Jens; Schwichtenberg, Guido; Soussana, Jean-François; Temperton, Vicky M; Weisser, Wolfgang W; Wilcke, Wolfgang; Schmid, Bernhard

    2010-10-13

    The diversity-stability hypothesis states that current losses of biodiversity can impair the ability of an ecosystem to dampen the effect of environmental perturbations on its functioning. Using data from a long-term and comprehensive biodiversity experiment, we quantified the temporal stability of 42 variables characterizing twelve ecological functions in managed grassland plots varying in plant species richness. We demonstrate that diversity increases stability i) across trophic levels (producer, consumer), ii) at both the system (community, ecosystem) and the component levels (population, functional group, phylogenetic clade), and iii) primarily for aboveground rather than belowground processes. Temporal synchronization across studied variables was mostly unaffected with increasing species richness. This study provides the strongest empirical support so far that diversity promotes stability across different ecological functions and levels of ecosystem organization in grasslands.

  6. Hidden diversity in diatoms of Kenyan Lake Naivasha: a genetic approach detects temporal variation.

    Science.gov (United States)

    Stoof-Leichsenring, Kathleen R; Epp, Laura S; Trauth, Martin H; Tiedemann, Ralph

    2012-04-01

    This study provides insights into the morphological and genetic diversity in diatoms occurring in core sediments from tropical lakes in Kenya. We developed a genetic survey technique specific for diatoms utilizing a short region (76-67 bp) of the ribulose-1,5-bisphosphate carboxylase/oxygenase large subunit (rbcL) gene as genetic barcode. Our analyses (i) validated the use of rbcL as a barcoding marker for diatoms, applied to sediment samples, (ii) showed a significant correlation between the results obtained by morphological and molecular data and (iii) indicated temporal variation in diatom assemblages on the inter- and intra-specific level. Diatom assemblages from a short core from Lake Naivasha show a drastic shift over the last 200 years, as littoral species (e.g. Navicula) are replaced by more planktonic ones (e.g. Aulacoseira). Within that same period, we detected periodic changes in the respective frequencies of distinct haplotype groups of Navicula, which coincide with wet and dry periods of Lake Naivasha between 1820 and 1938 AD. Our genetic analyses on historical lake sediments revealed inter- and intra-specific variation in diatoms, which is partially hidden behind single morphotypes. The occurrence of particular genetic lineages is probably correlated with environmental factors. © 2012 Blackwell Publishing Ltd.

  7. Designing waveforms for temporal encoding using a frequency sampling method

    DEFF Research Database (Denmark)

    Gran, Fredrik; Jensen, Jørgen Arendt

    2007-01-01

    In this paper a method for designing waveforms for temporal encoding in medical ultrasound imaging is described. The method is based on least squares optimization and is used to design nonlinear frequency modulated signals for synthetic transmit aperture imaging. By using the proposed design method......, the amplitude spectrum of the transmitted waveform can be optimized, such that most of the energy is transmitted where the transducer has large amplification. To test the design method, a waveform was designed for a BK8804 linear array transducer. The resulting nonlinear frequency modulated waveform...... waveform, on the other hand, was designed so that only frequencies where the transducer had a large amplification were excited. Hereby, unnecessary heating of the transducer could be avoided and the signal-tonoise ratio could be increased. The experimental ultrasound scanner RASMUS was used to evaluate...

  8. Temporal stability in forest productivity increases with tree diversity due to asynchrony in species dynamics.

    Science.gov (United States)

    Morin, Xavier; Fahse, Lorenz; de Mazancourt, Claire; Scherer-Lorenzen, Michael; Bugmann, Harald

    2014-12-01

    Theory predicts a positive relationship between biodiversity and stability in ecosystem properties, while diversity is expected to have a negative impact on stability at the species level. We used virtual experiments based on a dynamic simulation model to test for the diversity-stability relationship and its underlying mechanisms in Central European forests. First our results show that variability in productivity between stands differing in species composition decreases as species richness and functional diversity increase. Second we show temporal stability increases with increasing diversity due to compensatory dynamics across species, supporting the biodiversity insurance hypothesis. We demonstrate that this pattern is mainly driven by the asynchrony of species responses to small disturbances rather than to environmental fluctuations, and is only weakly affected by the net biodiversity effect on productivity. Furthermore, our results suggest that compensatory dynamics between species may enhance ecosystem stability through an optimisation of canopy occupancy by coexisting species. © 2014 John Wiley & Sons Ltd/CNRS.

  9. Modelling the loss of genetic diversity in vole populations in a spatially and temporally varying environment

    DEFF Research Database (Denmark)

    Topping, C; Ostergaard, S; Pertoldi, C

    2003-01-01

    heterogeneity. Results showed that both spatial and temporal heterogeneity exerted an influence on the rate of loss of genetic diversity, but the precise effect was a balance between the effects of population sub-structuring, the frequency of founder effects and population size. These were in turn related...... conditions, but exclude factors such as animal behaviour, environmental structure, and breeding biology, all of which influence genetic diversity. Most populations are unique in some of these characteristics, and therefore may be unsuitable for the classical approach. Here, an alternative approach using...... a genetically explicit individual-based model (IBM) coupled to a dynamic landscape model was used to obtain measures for the genetic status of simulated vole populations. The rate of loss of expected heterozygosity (H-e) was calculated for simulated populations using two levels of spatial and temporal...

  10. Plant diversity increases spatio-temporal niche complementarity in plant-pollinator interactions.

    Science.gov (United States)

    Venjakob, Christine; Klein, Alexandra-Maria; Ebeling, Anne; Tscharntke, Teja; Scherber, Christoph

    2016-04-01

    Ongoing biodiversity decline impairs ecosystem processes, including pollination. Flower visitation, an important indicator of pollination services, is influenced by plant species richness. However, the spatio-temporal responses of different pollinator groups to plant species richness have not yet been analyzed experimentally. Here, we used an experimental plant species richness gradient to analyze plant-pollinator interactions with an unprecedented spatio-temporal resolution. We observed four pollinator functional groups (honeybees, bumblebees, solitary bees, and hoverflies) in experimental plots at three different vegetation strata between sunrise and sunset. Visits were modified by plant species richness interacting with time and space. Furthermore, the complementarity of pollinator functional groups in space and time was stronger in species-rich mixtures. We conclude that high plant diversity should ensure stable pollination services, mediated via spatio-temporal niche complementarity in flower visitation.

  11. Temporal Beta Diversity of Bird Assemblages in Agricultural Landscapes: Land Cover Change vs. Stochastic Processes.

    Directory of Open Access Journals (Sweden)

    Andrés Baselga

    Full Text Available Temporal variation in the composition of species assemblages could be the result of deterministic processes driven by environmental change and/or stochastic processes of colonization and local extinction. Here, we analyzed the relative roles of deterministic and stochastic processes on bird assemblages in an agricultural landscape of southwestern France. We first assessed the impact of land cover change that occurred between 1982 and 2007 on (i the species composition (presence/absence of bird assemblages and (ii the spatial pattern of taxonomic beta diversity. We also compared the observed temporal change of bird assemblages with a null model accounting for the effect of stochastic dynamics on temporal beta diversity. Temporal assemblage dissimilarity was partitioned into two separate components, accounting for the replacement of species (i.e. turnover and for the nested species losses (or gains from one time to the other (i.e. nestedness-resultant dissimilarity, respectively. Neither the turnover nor the nestedness-resultant components of temporal variation were accurately explained by any of the measured variables accounting for land cover change (r(2<0.06 in all cases. Additionally, the amount of spatial assemblage heterogeneity in the region did not significantly change between 1982 and 2007, and site-specific observed temporal dissimilarities were larger than null expectations in only 1% of sites for temporal turnover and 13% of sites for nestedness-resultant dissimilarity. Taken together, our results suggest that land cover change in this agricultural landscape had little impact on temporal beta diversity of bird assemblages. Although other unmeasured deterministic process could be driving the observed patterns, it is also possible that the observed changes in presence/absence species composition of local bird assemblages might be the consequence of stochastic processes in which species populations appeared and disappeared from specific

  12. Temporal variation in mycorrhizal diversity and carbon and nitrogen stable isotope abundance in the wintergreen meadow orchid Anacamptis morio.

    Science.gov (United States)

    Ercole, Enrico; Adamo, Martino; Rodda, Michele; Gebauer, Gerhard; Girlanda, Mariangela; Perotto, Silvia

    2015-02-01

    Many adult orchids, especially photoautotrophic species, associate with a diverse range of mycorrhizal fungi, but little is known about the temporal changes that might occur in the diversity and functioning of orchid mycorrhiza during vegetative and reproductive plant growth. Temporal variations in the spectrum of mycorrhizal fungi and in stable isotope natural abundance were investigated in adult plants of Anacamptis morio, a wintergreen meadow orchid. Anacamptis morio associated with mycorrhizal fungi belonging to Tulasnella, Ceratobasidium and a clade of Pezizaceae (Ascomycetes). When a complete growing season was investigated, multivariate analyses indicated significant differences in the mycorrhizal fungal community. Among fungi identified from manually isolated pelotons, Tulasnella was more common in autumn and winter, the pezizacean clade was very frequent in spring, and Ceratobasidium was more frequent in summer. By contrast, relatively small variations were found in carbon (C) and nitrogen (N) stable isotope natural abundance, A. morio samples showing similar (15)N enrichment and (13)C depletion at the different sampling times. These observations suggest that, irrespective of differences in the seasonal environmental conditions, the plant phenological stages and the associated fungi, the isotopic content in mycorrhizal A. morio remains fairly constant over time. © 2014 The Authors. New Phytologist © 2014 New Phytologist Trust.

  13. Securing maximum diversity of Non Pollen Palynomorphs in palynological samples

    DEFF Research Database (Denmark)

    Enevold, Renée; Odgaard, Bent Vad

    2015-01-01

    Palynology is no longer synonymous with analysis of pollen with the addition of a few fern spores. A wide range of Non Pollen Palynomorphs are now described and are potential palaeoenvironmental proxies in the palynological surveys. The contribution of NPP’s has proven important to the interpreta......Palynology is no longer synonymous with analysis of pollen with the addition of a few fern spores. A wide range of Non Pollen Palynomorphs are now described and are potential palaeoenvironmental proxies in the palynological surveys. The contribution of NPP’s has proven important.......g. Schulz & Shumilovskikh 2013). Increasingly it has become customary for palynologists to quantify at least some of the NPP’s appearing on the pollen slides (e.g. Strother et al. 2015, Odgaard 1994). Are these samples representative of the initial NPP assemblages? The usual sample preparation method...... for pollen analysis is based on acetylization (Erdtman 1969) and HF-treatment which are of variable destructiveness to the NPP’s. Some NPP’s might completely vanish and the prepared sample might hold less NPP diversity than the initial NPP assemblage. Consequently, it may be advisable to consider...

  14. Temporal Beta Diversity of Bird Assemblages in Agricultural Landscapes: Land Cover Change vs. Stochastic Processes.

    Science.gov (United States)

    Baselga, Andrés; Bonthoux, Sébastien; Balent, Gérard

    2015-01-01

    Temporal variation in the composition of species assemblages could be the result of deterministic processes driven by environmental change and/or stochastic processes of colonization and local extinction. Here, we analyzed the relative roles of deterministic and stochastic processes on bird assemblages in an agricultural landscape of southwestern France. We first assessed the impact of land cover change that occurred between 1982 and 2007 on (i) the species composition (presence/absence) of bird assemblages and (ii) the spatial pattern of taxonomic beta diversity. We also compared the observed temporal change of bird assemblages with a null model accounting for the effect of stochastic dynamics on temporal beta diversity. Temporal assemblage dissimilarity was partitioned into two separate components, accounting for the replacement of species (i.e. turnover) and for the nested species losses (or gains) from one time to the other (i.e. nestedness-resultant dissimilarity), respectively. Neither the turnover nor the nestedness-resultant components of temporal variation were accurately explained by any of the measured variables accounting for land cover change (r(2)process could be driving the observed patterns, it is also possible that the observed changes in presence/absence species composition of local bird assemblages might be the consequence of stochastic processes in which species populations appeared and disappeared from specific localities in a random-like way. Our results might be case-specific, but if stochastic dynamics are generally dominant, the ability of correlative and mechanistic models to predict land cover change effects on species composition would be compromised.

  15. Temporal orientation in a national community sample of older people.

    Science.gov (United States)

    Kington, Justin; Stewart, Robert

    2011-02-01

    To investigate how often older people know the correct answers to questions about time orientation (knowledge of the day, date, month and year), and what factors might affect performance with these. Data were analysed from the British 2000 National Psychiatric Morbidity Study. In the original survey, 2007 people aged 60 years or older had been asked orientation questions as part of the modified Telephone Interview for Cognitive Status (TICSm). Using this data we calculated error rates for orientation to date, day of the week, month and year. Associations between performance on these questions and other covariates (sociodemographic factors, estimated verbal IQ, education, common mental disorder (CMD), employment and disability) were further explored using logistic regression. Overall 19.9% of the sample did not know the correct date. Orientation errors for day, month and year were substantially lower (2.4, 1.9 and 1.0% respectively). After adjustment, increased age and lower verbal IQ remained significantly associated with date orientation errors. A significant proportion of older people in the community did not know the correct date, particularly those with lower background education. This should be borne in mind by clinicians in brief assessments of cognitive function. Other deficits in time orientation, however, were less common and not consistently education-dependent. Copyright © 2010 John Wiley & Sons, Ltd.

  16. Spatio-temporal representativeness of euphotic depth in situ sampling in transitional coastal waters

    Science.gov (United States)

    Luhtala, Hanna; Tolvanen, Harri

    2016-06-01

    In dynamic coastal waters, the representativeness of spot sampling is limited to the measurement time and place due to local heterogeneity and irregular water property fluctuations. We assessed the representativeness of in situ sampling by analysing spot-sampled depth profiles of photosynthetically active radiation (PAR) in dynamic coastal archipelago waters in the south-western Finnish coast of the Baltic Sea. First, we assessed the role of spatio-temporality within the underwater light dynamics. As a part of this approach, an anomaly detection procedure was tested on a dataset including a large archipelago area and extensive temporal coverage throughout the ice-free season. The results suggest that euphotic depth variability should be treated as a spatio-temporal process rather than considering spatial and temporal dimensions separately. Second, we assessed the representativeness of spot sampling through statistical analysis of comparative data from spatially denser sampling on three test sites on two optically different occasions. The datasets revealed variability in different dimensions and scales. The suitability of a dataset to reveal wanted phenomena can usually be improved by careful planning and by clearly defining the data sampling objectives beforehand. Nonetheless, conducting a sufficient in situ sampling in dynamic coastal area is still challenging: detecting the general patterns at all the relevant dimensions is complicated by the randomness effect, which reduces the reliability of spot samples on a more detailed scale. Our results indicate that good representativeness of a euphotic depth sampling location is not a stable feature in a highly dynamic environment.

  17. Assessing Racial Microaggression Distress in a Diverse Sample.

    Science.gov (United States)

    Torres-Harding, Susan; Turner, Tasha

    2015-12-01

    Racial microaggressions are everyday subtle or ambiguous racially related insults, slights, mistreatment, or invalidations. Racial microaggressions are a type of perceived racism that may negatively impact the health and well-being of people of color in the United States. This study examined the reliability and validity of the Racial Microaggression Scale distress subscales, which measure the perceived stressfulness of six types of microaggression experiences in a racially and ethnically diverse sample. These subscales exhibited acceptable to good internal consistency. The distress subscales also evidenced good convergent validity; the distress subscales were positively correlated with additional measures of stressfulness due to experiencing microaggressions or everyday discrimination. When controlling for the frequency of one's exposure to microaggression incidents, some racial/ethnic group differences were found. Asian Americans reported comparatively lower distress and Latinos reporting comparatively higher distress in response to Foreigner, Low-Achieving, Invisibility, and Environmental microaggressions. African Americans reported higher distress than the other groups in response to Environmental microaggressions. Results suggest that the Racial Microaggressions Scale distress subscales may aid health professionals in assessing the distress elicited by different types of microaggressions. In turn, this may facilitate diagnosis and treatment planning in order to provide multiculturally competent care for African American, Latino, and Asian American clients. © The Author(s) 2014.

  18. Learning temporal patterns of risk in a predator-diverse environment.

    Directory of Open Access Journals (Sweden)

    Yoland J Bosiger

    Full Text Available Predation plays a major role in shaping prey behaviour. Temporal patterns of predation risk have been shown to drive daily activity and foraging patterns in prey. Yet the ability to respond to temporal patterns of predation risk in environments inhabited by highly diverse predator communities, such as rainforests and coral reefs, has received surprisingly little attention. In this study, we investigated whether juvenile marine fish, Pomacentrus moluccensis (lemon damselfish, have the ability to learn to adjust the intensity of their antipredator response to match the daily temporal patterns of predation risk they experience. Groups of lemon damselfish were exposed to one of two predictable temporal risk patterns for six days. "Morning risk" treatment prey were exposed to the odour of Cephalopholis cyanostigma (rockcod paired with conspecific chemical alarm cues (simulating a rockcod present and feeding during the morning, and rockcod odour only in the evening (simulating a rockcod present but not feeding. "Evening risk" treatment prey had the two stimuli presented to them in the opposite order. When tested individually for their response to rockcod odour alone, lemon damselfish from the morning risk treatment responded with a greater antipredator response intensity in the morning than in the evening. In contrast, those lemon damselfish previously exposed to the evening risk treatment subsequently responded with a greater antipredator response when tested in the evening. The results of this experiment demonstrate that P. moluccensis have the ability to learn temporal patterns of predation risk and can adjust their foraging patterns to match the threat posed by predators at a given time of day. Our results provide the first experimental demonstration of a mechanism by which prey in a complex, multi-predator environment can learn and respond to daily patterns of predation risk.

  19. The effect of urbanization on ant abundance and diversity: a temporal examination of factors affecting biodiversity.

    Science.gov (United States)

    Buczkowski, Grzegorz; Richmond, Douglas S

    2012-01-01

    Numerous studies have examined the effect of urbanization on species richness and most studies implicate urbanization as the major cause of biodiversity loss. However, no study has identified an explicit connection between urbanization and biodiversity loss as the impact of urbanization is typically inferred indirectly by comparing species diversity along urban-rural gradients at a single time point. A different approach is to focus on the temporal rather than the spatial aspect and perform "before and after" studies where species diversity is cataloged over time in the same sites. The current study examined changes in ant abundance and diversity associated with the conversion of natural habitats into urban habitats. Ant abundance and diversity were tracked in forested sites that became urbanized through construction and were examined at 3 time points - before, during, and after construction. On average, 4.3 ± 1.2 unique species were detected in undisturbed plots prior to construction. Ant diversity decreased to 0.7 ± 0.8 species in plots undergoing construction and 1.5 ± 1.1 species in plots 1 year after construction was completed. With regard to species richness, urbanization resulted in the permanent loss of 17 of the 20 species initially present in the study plots. Recovery was slow and only 3 species were present right after construction was completed and 4 species were present 1 year after construction was completed. The second objective examined ant fauna recovery in developed residential lots based on time since construction, neighboring habitat quality, pesticide inputs, and the presence of invasive ants. Ant diversity was positively correlated with factors that promoted ecological recovery and negatively correlated with factors that promoted ecological degradation. Taken together, these results address a critical gap in our knowledge by characterizing the short- and long-term the effects of urbanization on the loss of ant biodiversity.

  20. The effect of urbanization on ant abundance and diversity: a temporal examination of factors affecting biodiversity.

    Directory of Open Access Journals (Sweden)

    Grzegorz Buczkowski

    Full Text Available Numerous studies have examined the effect of urbanization on species richness and most studies implicate urbanization as the major cause of biodiversity loss. However, no study has identified an explicit connection between urbanization and biodiversity loss as the impact of urbanization is typically inferred indirectly by comparing species diversity along urban-rural gradients at a single time point. A different approach is to focus on the temporal rather than the spatial aspect and perform "before and after" studies where species diversity is cataloged over time in the same sites. The current study examined changes in ant abundance and diversity associated with the conversion of natural habitats into urban habitats. Ant abundance and diversity were tracked in forested sites that became urbanized through construction and were examined at 3 time points - before, during, and after construction. On average, 4.3 ± 1.2 unique species were detected in undisturbed plots prior to construction. Ant diversity decreased to 0.7 ± 0.8 species in plots undergoing construction and 1.5 ± 1.1 species in plots 1 year after construction was completed. With regard to species richness, urbanization resulted in the permanent loss of 17 of the 20 species initially present in the study plots. Recovery was slow and only 3 species were present right after construction was completed and 4 species were present 1 year after construction was completed. The second objective examined ant fauna recovery in developed residential lots based on time since construction, neighboring habitat quality, pesticide inputs, and the presence of invasive ants. Ant diversity was positively correlated with factors that promoted ecological recovery and negatively correlated with factors that promoted ecological degradation. Taken together, these results address a critical gap in our knowledge by characterizing the short- and long-term the effects of urbanization on the loss of ant

  1. Temporal patterns of ant diversity across a mountain with climatically contrasting aspects in the tropics of Africa.

    Directory of Open Access Journals (Sweden)

    Thinandavha Caswell Munyai

    Full Text Available Factors that drive species richness over space and time are still poorly understood and are often context specific. Identifying these drivers for ant diversity has become particularly relevant within the context of contemporary global change events. We report on a long-term bi-annual (wet and dry seasons, standardized sampling of epigeal ants over a five year period on the mesic and arid aspects of an inselberg (Soutpansberg Mountain Range in the tropics of Africa. We detail seasonal, annual and long-term trends of species density, test the relative contribution of geometric constraints, energy, available area, climate, local environmental variables, time, and space in explaining ant species density patterns through Generalized Linear Mixed Models (GLMM where replicates were included as random factors to account for temporal pseudo-replication. Seasonal patterns were very variable and we found evidence of decreased seasonal variation in species density with increased elevation. The extent and significance of a decrease in species density with increased elevation varied with season. Annual patterns point to an increase in ant diversity over time. Ant density patterns were positively correlated with mean monthly temperature but geometric constraints dominated model performance while soil characteristics were minor correlates. These drivers and correlates accounted for all the spatio-temporal variability in the database. Ant diversity was therefore mainly determined by geometric constraints and temperature while soil characteristics (clay and carbon content accounted for smaller but significant amounts of variation. This study documents the role of season, elevation and their interaction in affecting ant species densities while highlighting the importance of neutral processes and temperature in driving these patterns.

  2. Temporal patterns of ant diversity across a mountain with climatically contrasting aspects in the tropics of Africa.

    Science.gov (United States)

    Munyai, Thinandavha Caswell; Foord, Stefan Hendrik

    2015-01-01

    Factors that drive species richness over space and time are still poorly understood and are often context specific. Identifying these drivers for ant diversity has become particularly relevant within the context of contemporary global change events. We report on a long-term bi-annual (wet and dry seasons), standardized sampling of epigeal ants over a five year period on the mesic and arid aspects of an inselberg (Soutpansberg Mountain Range) in the tropics of Africa. We detail seasonal, annual and long-term trends of species density, test the relative contribution of geometric constraints, energy, available area, climate, local environmental variables, time, and space in explaining ant species density patterns through Generalized Linear Mixed Models (GLMM) where replicates were included as random factors to account for temporal pseudo-replication. Seasonal patterns were very variable and we found evidence of decreased seasonal variation in species density with increased elevation. The extent and significance of a decrease in species density with increased elevation varied with season. Annual patterns point to an increase in ant diversity over time. Ant density patterns were positively correlated with mean monthly temperature but geometric constraints dominated model performance while soil characteristics were minor correlates. These drivers and correlates accounted for all the spatio-temporal variability in the database. Ant diversity was therefore mainly determined by geometric constraints and temperature while soil characteristics (clay and carbon content) accounted for smaller but significant amounts of variation. This study documents the role of season, elevation and their interaction in affecting ant species densities while highlighting the importance of neutral processes and temperature in driving these patterns.

  3. Influenza-A Viruses in Ducks in Northwestern Minnesota: Fine Scale Spatial and Temporal Variation in Prevalence and Subtype Diversity

    Science.gov (United States)

    Wilcox, Benjamin R.; Knutsen, Gregory A.; Berdeen, James; Goekjian, Virginia; Poulson, Rebecca; Goyal, Sagar; Sreevatsan, Srinand; Cardona, Carol; Berghaus, Roy D.; Swayne, David E.; Yabsley, Michael J.; Stallknecht, David E.

    2011-01-01

    Waterfowl from northwestern Minnesota were sampled by cloacal swabbing for Avian Influenza Virus (AIV) from July – October in 2007 and 2008. AIV was detected in 222 (9.1%) of 2,441 ducks in 2007 and in 438 (17.9%) of 2,452 ducks in 2008. Prevalence of AIV peaked in late summer. We detected 27 AIV subtypes during 2007 and 31 during 2008. Ten hemagglutinin (HA) subtypes were detected each year (i.e., H1, 3–8, and 10–12 during 2007; H1-8, 10 and 11 during 2008). All neuraminidase (NA) subtypes were detected during each year of the study. Subtype diversity varied between years and increased with prevalence into September. Predominant subtypes during 2007 (comprising ≥5% of subtype diversity) included H1N1, H3N6, H3N8, H4N6, H7N3, H10N7, and H11N9. Predominant subtypes during 2008 included H3N6, H3N8, H4N6, H4N8, H6N1, and H10N7. Additionally, within each HA subtype, the same predominant HA/NA subtype combinations were detected each year and included H1N1, H3N8, H4N6, H5N2, H6N1, H7N3, H8N4, H10N7, and H11N9. The H2N3 and H12N5 viruses also predominated within the H2 and H12 subtypes, respectively, but only were detected during a single year (H2 and H12 viruses were not detected during 2007 and 2008, respectively). Mallards were the predominant species sampled (63.7% of the total), and 531 AIV were isolated from this species (80.5% of the total isolates). Mallard data collected during both years adequately described the observed temporal and spatial prevalence from the total sample and also adequately represented subtype diversity. Juvenile mallards also were adequate in describing the temporal and spatial prevalence of AIV as well as subtype diversity. PMID:21931636

  4. Microbial diversity within Juan de Fuca ridge basement fluids sampled from oceanic borehole observatories

    Science.gov (United States)

    Jungbluth, S.; Bowers, R.; Lin, H.; Hsieh, C.; Cowen, J. P.; Rappé, M.

    2012-12-01

    Three generations of sampling and instrumentation platforms known as Circulation Obviation Retrofit Kit (CORK) observatories affixed to Ocean Drilling Program (ODP) and Integrated Ocean Drilling Program (IODP) boreholes are providing unrivaled access to fluids originating from 1.2-3.5 million-years (Myr) old basaltic crust of the eastern flank of the Juan de Fuca ridge. Borehole fluid samples obtained via a custom seafloor fluid pumping and sampling system coupled to CORK continuous fluid delivery lines are yielding critical insights into the biogeochemistry and nature of microbial life inhabiting the sediment-covered basement environment. Direct microscopic enumeration revealed microbial cell abundances that are 2-41% of overlying bottom seawater. Snapshots of basement fluid microbial diversity and community structure have been obtained through small subunit ribosomal RNA (SSU rRNA) gene cloning and sequencing from five boreholes that access a range of basement ages and temperatures at the sediment-basement interface. SSU rRNA gene clones were derived from four different CORK installations (1026B, 1301A, 1362A, and 1362B) accessing relatively warmer (65°C) and older (3.5 Myr) ridge flank, and one location (1025C) accessing relatively cooler (39°C) and younger (1.2 Myr) ridge flank, revealing that warmer basement fluids had higher microbial diversity. A sampling time-series collected from borehole 1301A has revealed a microbial community that is temporally variable, with the dominant lineages changing between years. Each of the five boreholes sampled contained a unique microbial assemblage, however, common members are found from both cultivated and uncultivated lineages within the archaeal and bacterial domains, including meso- and thermophilic microbial lineages involved with sulfur cycling (e.g Thiomicrospira, Sulfurimonas, Desulfocapsa, Desulfobulbus). In addition, borehole fluid environmental gene clones were also closely related to uncultivated lineages

  5. What is an Appropriate Temporal Sampling Rate to Record Floating Car Data with a GPS?

    NARCIS (Netherlands)

    Ranacher, P.; Brunauer, R.; van der Spek, S.C.; Reich, S

    2016-01-01

    Floating car data (FCD) recorded with the Global Positioning System (GPS) are an important data source for traffic research. However, FCD are subject to error, which can relate either to the accuracy of the recordings (measurement error) or to the temporal rate at which the data are sampled

  6. Neotropical mammal diversity and the Great American Biotic Interchange: spatial and temporal variation in South America's fossil record

    Science.gov (United States)

    Carrillo, Juan D.; Forasiepi, Analía; Jaramillo, Carlos; Sánchez-Villagra, Marcelo R.

    2015-01-01

    The vast mammal diversity of the Neotropics is the result of a long evolutionary history. During most of the Cenozoic, South America was an island continent with an endemic mammalian fauna. This isolation ceased during the late Neogene after the formation of the Isthmus of Panama, resulting in an event known as the Great American Biotic Interchange (GABI). In this study, we investigate biogeographic patterns in South America, just before or when the first immigrants are recorded and we review the temporal and geographical distribution of fossil mammals during the GABI. We performed a dissimilarity analysis which grouped the faunal assemblages according to their age and their geographic distribution. Our data support the differentiation between tropical and temperate assemblages in South America during the middle and late Miocene. The GABI begins during the late Miocene (~10–7 Ma) and the putative oldest migrations are recorded in the temperate region, where the number of GABI participants rapidly increases after ~5 Ma and this trend continues during the Pleistocene. A sampling bias toward higher latitudes and younger records challenges the study of the temporal and geographic patterns of the GABI. PMID:25601879

  7. Temporal analyses of the distribution and diversity of Salmonella in natural biofilms.

    Science.gov (United States)

    Sha, Qiong; Gunathilake, Anuradha; Forstner, Michael R J; Hahn, Dittmar

    2011-07-01

    The diversity and distribution of salmonellae in freshwater biofilms were analyzed at a fine scale (i.e. in 20 locations from a 324 cm(2) area) for two sites in San Marcos, TX. A concrete storm water overflow channel (City Park) was sampled 4 times and a concrete surface in the spring-fed headwaters of the San Marcos River (Spring Lake) 5 times between April and September 2009, and each biofilm sample analyzed by a combination of traditional enrichment methods and molecular techniques. PCR detection of the invA gene, that encodes a protein of a type III secretion system present in salmonellae, after semi-selective enrichment of salmonellae was achieved in biofilms from all 20 locations at the City Park site, with locations generally being positive 2-3 times out of 4 sampling times for a total of 59% positive samples. InvA gene fragment detection in biofilms was less frequent for the 5 sampling times and 20 locations from the Spring Lake site (18% of all samples), with 1 sampling time being entirely negative and 8 locations remaining negative throughout the study. Rep-PCR fingerprinting of 491 Salmonella isolates obtained from both sites resulted in 30 distinct profiles, with 26 and 7 profiles retrieved from City Park and Spring Lake samples, respectively, and thus with 3 profiles present at both sites, and multiple strains frequently obtained from single locations at both sites. The composition of Salmonella strains in the area analyzed changed in time with large differences between early (April, June) and late sampling times (September) within and among sites, except for one strain (S12) that was present at almost all sampling times at both sites, though often at different locations within the area analyzed. These results demonstrate the presence of salmonellae in natural biofilms and a significant micro-heterogeneity with differences in diversity and persistence of salmonellae. Copyright © 2011 Elsevier GmbH. All rights reserved.

  8. Temporal Control over Transient Chemical Systems using Structurally Diverse Chemical Fuels.

    Science.gov (United States)

    Chen, Jack L-Y; Maiti, Subhabrata; Fortunati, Ilaria; Ferrante, Camilla; Prins, Leonard J

    2017-08-25

    The next generation of adaptive, intelligent chemical systems will rely on a continuous supply of energy to maintain the functional state. Such systems will require chemical methodology that provides precise control over the energy dissipation process, and thus, the lifetime of the transiently activated function. This manuscript reports on the use of structurally diverse chemical fuels to control the lifetime of two different systems under dissipative conditions: transient signal generation and the transient formation of self-assembled aggregates. The energy stored in the fuels is dissipated at different rates by an enzyme, which installs a dependence of the lifetime of the active system on the chemical structure of the fuel. In the case of transient signal generation, it is shown that different chemical fuels can be used to generate a vast range of signal profiles, allowing temporal control over two orders of magnitude. Regarding self-assembly under dissipative conditions, the ability to control the lifetime using different fuels turns out to be particularly important as stable aggregates are formed only at well-defined surfactant/fuel ratios, meaning that temporal control cannot be achieved by simply changing the fuel concentration. © 2017 Wiley-VCH Verlag GmbH & Co. KGaA, Weinheim.

  9. Temporality and collectivity: diversity, history and the rhetorical construction of national entitativity.

    Science.gov (United States)

    Condor, Susan

    2006-12-01

    Vernacular representations of nationhood collected in England differed from canonical accounts of social categorization in three respects. First, nations were not typically constructed as simple person categories, but rather as hybrid collectivities of human beings, objects and geographical locations. Second, national representation was not confined to the present tense, but was typically conveyed through temporal distinctions and narratives. Third, speakers displayed a reflexive concern over the rationality and morality of national categorization and stereotyping. Speakers could manage the tension between the need to recognize both national diversity and entitativity by forging a distinction between Englishness (identified with homogeneity, ethnic nationalism and the past) and Britishness (identified with pluralism, civic nationalism and historical progress). However, accounts had a dilemmatic quality. The strategies speakers used to promote images of contemporary national in-group diversity often implicitly presupposed a normal moral order of national cultural homogeneity. The association of pluralism with values of progressive social change meant that accounts of 'our' distinctive lack of national character could carry tacit implications of relative superiority. General implications for social identity approaches to social categorization are discussed.

  10. On the Spatial and Temporal Sampling Errors of Remotely Sensed Precipitation Products

    Directory of Open Access Journals (Sweden)

    Ali Behrangi

    2017-11-01

    Full Text Available Observation with coarse spatial and temporal sampling can cause large errors in quantification of the amount, intensity, and duration of precipitation events. In this study, the errors resulting from temporal and spatial sampling of precipitation events were quantified and examined using the latest version (V4 of the Global Precipitation Measurement (GPM mission integrated multi-satellite retrievals for GPM (IMERG, which is available since spring of 2014. Relative mean square error was calculated at 0.1° × 0.1° every 0.5 h between the degraded (temporally and spatially and original IMERG products. The temporal and spatial degradation was performed by producing three-hour (T3, six-hour (T6, 0.5° × 0.5° (S5, and 1.0° × 1.0° (S10 maps. The results show generally larger errors over land than ocean, especially over mountainous regions. The relative error of T6 is almost 20% larger than T3 over tropical land, but is smaller in higher latitudes. Over land relative error of T6 is larger than S5 across all latitudes, while T6 has larger relative error than S10 poleward of 20°S–20°N. Similarly, the relative error of T3 exceeds S5 poleward of 20°S–20°N, but does not exceed S10, except in very high latitudes. Similar results are also seen over ocean, but the error ratios are generally less sensitive to seasonal changes. The results also show that the spatial and temporal relative errors are not highly correlated. Overall, lower correlations between the spatial and temporal relative errors are observed over ocean than over land. Quantification of such spatiotemporal effects provides additional insights into evaluation studies, especially when different products are cross-compared at a range of spatiotemporal scales.

  11. Daily temporal structure in African savanna flower visitation networks and consequences for network sampling.

    Science.gov (United States)

    Baldock, Katherine C R; Memmott, Jane; Ruiz-Guajardo, Juan Carlos; Roze, Denis; Stone, Graham N

    2011-03-01

    Ecological interaction networks are a valuable approach to understanding plant-pollinator interactions at the community level. Highly structured daily activity patterns are a feature of the biology of many flower visitors, particularly provisioning female bees, which often visit different floral sources at different times. Such temporal structure implies that presence/absence and relative abundance of specific flower-visitor interactions (links) in interaction networks may be highly sensitive to the daily timing of data collection. Further, relative timing of interactions is central to their possible role in competition or facilitation of seed set among coflowering plants sharing pollinators. To date, however, no study has examined the network impacts of daily temporal variation in visitor activity at a community scale. Here we use temporally structured sampling to examine the consequences of daily activity patterns upon network properties using fully quantified flower-visitor interaction data for a Kenyan savanna habitat. Interactions were sampled at four sequential three-hour time intervals between 06:00 and 18:00, across multiple seasonal time points for two sampling sites. In all data sets the richness and relative abundance of links depended critically on when during the day visitation was observed. Permutation-based null modeling revealed significant temporal structure across daily time intervals at three of the four seasonal time points, driven primarily by patterns in bee activity. This sensitivity of network structure shows the need to consider daily time in network sampling design, both to maximize the probability of sampling links relevant to plant reproductive success and to facilitate appropriate interpretation of interspecific relationships. Our data also suggest that daily structuring at a community level could reduce indirect competitive interactions when coflowering plants share pollinators, as is commonly observed during flowering in highly

  12. Ad-Hoc vs. Standardized and Optimized Arthropod Diversity Sampling

    Directory of Open Access Journals (Sweden)

    Pedro Cardoso

    2009-09-01

    Full Text Available The use of standardized and optimized protocols has been recently advocated for different arthropod taxa instead of ad-hoc sampling or sampling with protocols defined on a case-by-case basis. We present a comparison of both sampling approaches applied for spiders in a natural area of Portugal. Tests were made to their efficiency, over-collection of common species, singletons proportions, species abundance distributions, average specimen size, average taxonomic distinctness and behavior of richness estimators. The standardized protocol revealed three main advantages: (1 higher efficiency; (2 more reliable estimations of true richness; and (3 meaningful comparisons between undersampled areas.

  13. Social Dating Goals in Female College Students: Failure to Replicate in a Diverse Sample

    Science.gov (United States)

    Killeya-Jones, Ley A.

    2004-01-01

    This article reports a failure to replicate aspects of the Social Dating Goals Scale (SDGS; Sanderson & Cantor, 1995) with an ethnically diverse group of female college students. The SDGS was developed and validated with predominantly White samples. In the present study, a diverse sample of 82 Asian, Black, Hispanic and White female college…

  14. Distribution of Escherichia coli in a coastal lagoon (Venice, Italy): Temporal patterns, genetic diversity and the role of tidal forcing.

    Science.gov (United States)

    Perini, L; Quero, G M; García, E Serrano; Luna, G M

    2015-12-15

    Despite its worldwide importance as fecal indicator in aquatic systems, little is known about the diversity of Escherichia coli in the environment and the factors driving its spatial distribution. The city of Venice (Italy), lying at the forefront of a large European lagoon, is an ideal site to study the mechanisms driving the fate of fecal bacteria, due to the huge fluxes of tourists, the city's unique architecture (causing poor efficiency of sewages treatment), and the long branching network of canals crossing the city. We summarize the results of a multi-year investigation to study the temporal dynamics of E. coli around the city, describe the population structure (by assigning isolates to their phylogenetic group) and the genotypic diversity, and explore the role of environmental factors in determining its variability. E. coli abundance in water was highly variable, ranging from being undetectable up to 10(4) Colony Forming Units (CFU) per 100 ml. Abundance did not display significant relationships with the water physico-chemical variables. The analysis of the population structure showed the presence of all known phylogroups, including extra-intestinal and potentially pathogenic ones. The genotypic diversity was very high, as likely consequence of the heterogeneous input of fecal bacteria from the city, and showed site-specific patterns. Intensive sampling during the tidal fluctuations highlighted the prominent role of tides, rather than environmental variables, as source of spatial variation, with a more evident influence in water than sediments. These results, the first providing information on the genetic properties, spatial heterogeneity and influence of tides on E. coli populations around Venice, have implications to manage the fecal pollution, and the associated waterborne disease risks, in coastal cities lying in front of lagoons and semi-enclosed basins. Copyright © 2015 Elsevier Ltd. All rights reserved.

  15. Microbial diversity in fecal samples depends on DNA extraction method

    DEFF Research Database (Denmark)

    Mirsepasi, Hengameh; Persson, Søren; Struve, Carsten

    2014-01-01

    BACKGROUND: There are challenges, when extracting bacterial DNA from specimens for molecular diagnostics, since fecal samples also contain DNA from human cells and many different substances derived from food, cell residues and medication that can inhibit downstream PCR. The purpose of the study w...

  16. Multi Class Active Learning by Uncertainty Sampling with Diversity Maximization

    Science.gov (United States)

    2014-11-13

    where d is the dimension of the sample. To better utilize the distribution of the pool data and the seed set, we propose to evaluate the uncertainty...represented by 1,000 dimension BoW STIP feature (Laptev et al. 2008). KTH action dataset contains six types of human actions (walking, jogging, running...soccer juggling, swinging, ten- nis swinging, trampoline jumping, volleyball spiking, and walking with a dog (Liu et al. 2009). Four videos in

  17. Temporal genetic variation as revealed by a microsatellite analysis of European sardine ( Sardina pilchardus) archived samples

    DEFF Research Database (Denmark)

    Ruggeri, Paolo; Splendiani, Andrea; Bonanomi, Sara

    2012-01-01

    ) that explain the genetic diversity variation, while the same parameters turned out to be more stable in the southern samples. In addition, we detected the presence of a genetic bottleneck and low effective population size ( Ne) values in several northern samples. Even if the northern and southern Adriatic...... of otoliths and scales from sampling locations of northern (Chioggia) and southern (Vieste) Adriatic Sea, with the aim to investigate the genetic effects of these stock biomass fluctuations. The northern samples showed significant reduction in observed heterozygosity ( HO) and mean number of alleles ( Na...... sardine samples belong to the same genetic stock, the more pronounced decrease in genetic variability recorded in the northern sample led us to speculate that a more intensive fishing pressure and a more pronounced oceanographic isolation of this area could have accentuated the effects of the genetic...

  18. Diversity of non-acarine arachnids of the Ophathe Game Reserve, South Africa: Testing a rapid sampling protocol

    Directory of Open Access Journals (Sweden)

    Charles R. Haddad

    2015-03-01

    Full Text Available As part of the second phase of the South African National Survey of Arachnida (SANSA, field surveys were conducted in many degree-square grids throughout the country using a standardised rapid sampling protocol. This study reports on the arachnid diversity of the Ophathe Game Reserve (OGR in northern KwaZulu-Natal, as found during a preliminary survey in June 2007 (mid winter and a SANSA field survey in October 2008 (mid spring in four representative habitats. The SANSA survey included seven sampling methods: pitfalls, beating, sweep-netting, litter sifting, hand collecting, night collecting and Winkler traps. A total of 282 species in six arachnid orders were collected during the two surveys, of which spiders were the most species-rich order (268 species in 47 families. The SANSA survey yielded 966 adult arachnids, representing six orders and 197 species, with a further 67 species represented only by immatures. Although adult arachnid abundance (n differed considerably between the four habitats (range: 156–321, adult species richness (Sobs was less variable (range: 65–85. These survey results are comparable with several longer-term surveys in the Savanna biome, and indicate that the SANSA sampling protocol can yield an impressive diversity of arachnids during a relatively short period of sampling, with a high level of coverage (> 0.8 for sites and most sampling methods and moderate levels of sample completion for adults (> 0.55 for all sites, despite logistical and temporal challenges. Additional repetitions of the SANSA sampling protocol in other seasons will likely increase biodiversity knowledge of arachnids in OGR considerably.Conservation implications: The implementation of rapid sampling protocols in an atlas project is essential to generate a large volume of species-level data. The SANSA protocol is an efficient means for rapidly generating arachnid data, and in future will allow for an assessment of diversity patterns in degree

  19. Species-genetic diversity correlations in habitat fragmentation can be biased by small sample sizes.

    Science.gov (United States)

    Nazareno, Alison G; Jump, Alistair S

    2012-06-01

    Predicted parallel impacts of habitat fragmentation on genes and species lie at the core of conservation biology, yet tests of this rule are rare. In a recent article in Ecology Letters, Struebig et al. (2011) report that declining genetic diversity accompanies declining species diversity in tropical forest fragments. However, this study estimates diversity in many populations through extrapolation from very small sample sizes. Using the data of this recent work, we show that results estimated from the smallest sample sizes drive the species-genetic diversity correlation (SGDC), owing to a false-positive association between habitat fragmentation and loss of genetic diversity. Small sample sizes are a persistent problem in habitat fragmentation studies, the results of which often do not fit simple theoretical models. It is essential, therefore, that data assessing the proposed SGDC are sufficient in order that conclusions be robust.

  20. Spatio-temporal Analysis of the Genetic Diversity of Arctic Rabies Viruses and Their Reservoir Hosts in Greenland.

    Science.gov (United States)

    Hanke, Dennis; Freuling, Conrad M; Fischer, Susanne; Hueffer, Karsten; Hundertmark, Kris; Nadin-Davis, Susan; Marston, Denise; Fooks, Anthony R; Bøtner, Anette; Mettenleiter, Thomas C; Beer, Martin; Rasmussen, Thomas B; Müller, Thomas F; Höper, Dirk

    2016-07-01

    There has been limited knowledge on spatio-temporal epidemiology of zoonotic arctic fox rabies among countries bordering the Arctic, in particular Greenland. Previous molecular epidemiological studies have suggested the occurrence of one particular arctic rabies virus (RABV) lineage (arctic-3), but have been limited by a low number of available samples preventing in-depth high resolution phylogenetic analysis of RABVs at that time. However, an improved knowledge of the evolution, at a molecular level, of the circulating RABVs and a better understanding of the historical perspective of the disease in Greenland is necessary for better direct control measures on the island. These issues have been addressed by investigating the spatio-temporal genetic diversity of arctic RABVs and their reservoir host, the arctic fox, in Greenland using both full and partial genome sequences. Using a unique set of 79 arctic RABV full genome sequences from Greenland, Canada, USA (Alaska) and Russia obtained between 1977 and 2014, a description of the historic context in relation to the genetic diversity of currently circulating RABV in Greenland and neighboring Canadian Northern territories has been provided. The phylogenetic analysis confirmed delineation into four major arctic RABV lineages (arctic 1-4) with viruses from Greenland exclusively grouping into the circumpolar arctic-3 lineage. High resolution analysis enabled distinction of seven geographically distinct subclades (3.I - 3.VII) with two subclades containing viruses from both Greenland and Canada. By combining analysis of full length RABV genome sequences and host derived sequences encoding mitochondrial proteins obtained simultaneously from brain tissues of 49 arctic foxes, the interaction of viruses and their hosts was explored in detail. Such an approach can serve as a blueprint for analysis of infectious disease dynamics and virus-host interdependencies. The results showed a fine-scale spatial population structure in

  1. Spatio-temporal Analysis of the Genetic Diversity of Arctic Rabies Viruses and Their Reservoir Hosts in Greenland.

    Directory of Open Access Journals (Sweden)

    Dennis Hanke

    2016-07-01

    Full Text Available There has been limited knowledge on spatio-temporal epidemiology of zoonotic arctic fox rabies among countries bordering the Arctic, in particular Greenland. Previous molecular epidemiological studies have suggested the occurrence of one particular arctic rabies virus (RABV lineage (arctic-3, but have been limited by a low number of available samples preventing in-depth high resolution phylogenetic analysis of RABVs at that time. However, an improved knowledge of the evolution, at a molecular level, of the circulating RABVs and a better understanding of the historical perspective of the disease in Greenland is necessary for better direct control measures on the island. These issues have been addressed by investigating the spatio-temporal genetic diversity of arctic RABVs and their reservoir host, the arctic fox, in Greenland using both full and partial genome sequences. Using a unique set of 79 arctic RABV full genome sequences from Greenland, Canada, USA (Alaska and Russia obtained between 1977 and 2014, a description of the historic context in relation to the genetic diversity of currently circulating RABV in Greenland and neighboring Canadian Northern territories has been provided. The phylogenetic analysis confirmed delineation into four major arctic RABV lineages (arctic 1-4 with viruses from Greenland exclusively grouping into the circumpolar arctic-3 lineage. High resolution analysis enabled distinction of seven geographically distinct subclades (3.I - 3.VII with two subclades containing viruses from both Greenland and Canada. By combining analysis of full length RABV genome sequences and host derived sequences encoding mitochondrial proteins obtained simultaneously from brain tissues of 49 arctic foxes, the interaction of viruses and their hosts was explored in detail. Such an approach can serve as a blueprint for analysis of infectious disease dynamics and virus-host interdependencies. The results showed a fine-scale spatial population

  2. A Comparison of Two Sampling Strategies to Assess Discomycete Diversity in Wet Tropical Forests

    Science.gov (United States)

    SHARON A. CANTRELL

    2004-01-01

    Most of the fungal diversity studies that have used a systematic collecting scheme have not included the discomycetes, so optimal sampling methods are not available for this group. In this study, I tested two sampling methods at each sites in the Caribbean National Forest, Puerto Rico and Ebano Verde Reserve, Dominican Republic. For a plot-based sampling method, 10 ×...

  3. Unbiased Estimation of Gene Diversity in Samples Containing Related Individuals: Exact Variance and Arbitrary Ploidy

    OpenAIRE

    DeGiorgio, Michael; Jankovic, Ivana; Rosenberg, Noah A.

    2010-01-01

    Gene diversity, a commonly used measure of genetic variation, evaluates the proportion of heterozygous individuals expected at a locus in a population, under the assumption of Hardy–Weinberg equilibrium. When using the standard estimator of gene diversity, the inclusion of related or inbred individuals in a sample produces a downward bias. Here, we extend a recently developed estimator shown to be unbiased in a diploid autosomal sample that includes known related or inbred individuals to the ...

  4. Spatial and temporal variation in crop diversity in agroforestry homegardens of southern Ethiopia

    OpenAIRE

    Abebe, T.; Wiersum, K.F.; Bongers, F.

    2010-01-01

    A key assumption in many homegarden studies is that homegardens are ecologically and socio-economically sustainable due to their species diversity. The precise relation between diversity and sustainability is still heavily debated, however. A basic question is how diversity in homegardens can best be characterized in view of the various dimensions of species diversity and their variation in time and space. This paper assesses different types of species diversity in the homegardens of Sidama r...

  5. Temporal distribution of favourite books, movies, and records: differential encoding and re-sampling.

    Science.gov (United States)

    Janssen, Steve M J; Chessa, Antonio G; Murre, Jaap M J

    2007-10-01

    The reminiscence bump is the effect that people recall more personal events from early adulthood than from childhood or adulthood. The bump has been examined extensively. However, the question of whether the bump is caused by differential encoding or re-sampling is still unanswered. To examine this issue, participants were asked to name their three favourite books, movies, and records. Furthermore,they were asked when they first encountered them. We compared the temporal distributions and found that they all showed recency effects and reminiscence bumps. The distribution of favourite books had the largest recency effect and the distribution of favourite records had the largest reminiscence bump. We can explain these results by the difference in rehearsal. Books are read two or three times, movies are watched more frequently, whereas records are listened to numerous times. The results suggest that differential encoding initially causes the reminiscence bump and that re-sampling increases the bump further.

  6. Drivers and spatio-temporal extent of hyporheic patch variation: implications for sampling.

    Directory of Open Access Journals (Sweden)

    Alexander Braun

    Full Text Available The hyporheic zone in stream ecosystems is a heterogeneous key habitat for species across many taxa. Consequently, it attracts high attention among freshwater scientists, but generally applicable guidelines on sampling strategies are lacking. Thus, the objective of this study was to develop and validate such sampling guidelines. Applying geostatistical analysis, we quantified the spatio-temporal variability of parameters, which characterize the physico-chemical substratum conditions in the hyporheic zone. We investigated eight stream reaches in six small streams that are typical for the majority of temperate areas. Data was collected on two occasions in six stream reaches (development data, and once in two additional reaches, after one year (validation data. In this study, the term spatial variability refers to patch contrast (patch to patch variance and patch size (spatial extent of a patch. Patch contrast of hyporheic parameters (specific conductance, pH and dissolved oxygen increased with macrophyte cover (r(2=0.95, p<0.001, while patch size of hyporheic parameters decreased from 6 to 2 m with increasing sinuosity of the stream course (r(2=0.91, p<0.001, irrespective of the time of year. Since the spatial variability of hyporheic parameters varied between stream reaches, our results suggest that sampling design should be adapted to suit specific stream reaches. The distance between sampling sites should be inversely related to the sinuosity, while the number of samples should be related to macrophyte cover.

  7. Spatial and temporal variation in crop diversity in agroforestry homegardens of southern Ethiopia

    NARCIS (Netherlands)

    Abebe, T.; Wiersum, K.F.; Bongers, F.

    2010-01-01

    A key assumption in many homegarden studies is that homegardens are ecologically and socio-economically sustainable due to their species diversity. The precise relation between diversity and sustainability is still heavily debated, however. A basic question is how diversity in homegardens can best

  8. Detection of temporal behaviour patterns of free-ranging cattle by means of diversity spectra

    Directory of Open Access Journals (Sweden)

    de Miguel, J. M.

    1991-06-01

    Full Text Available The aim of this paper is to detect temporal patterns of cattle behaviour. The method, diversity spectra, provides, on the one hand, the number of parts into which a temporary transect should be divided in order to understand the maximum segregation of cattle activities and, on the other, the clarity with which each segregation is defined. In the case under study (a 'dehesa' pasture-land in central Spain the maximum segregation of fundamental activities in cattle behaviour is reached by considering the year as divided into two periods: spring-summer and autumn-winter. Cattle behaviour shows an annual "coarse grain" pattern, which is associated with management activities and with the meteorological seasonality of the Mediterranean climate. However, within each of the two annual periods, maximum segregation is reached considering separately the days of observation. This "fine grain" pattern indicates within each season, a certain capacity for response to a fluctuating environment and determines very different behaviour on close days. During autumn-winter period cattle show seasonal and daily activity segregations which are clearer than during spring-summer. In the former period, the lack of grass, more severe climatic conditions and management would seem to be determining factors of this temporal behaviour pattern.

    [es] El objetivo del trabajo es identificar patrones temporales de comportamiento del ganado. El procedimiento utilizado, espectros de diversidad, permite apreciar, por un lado, el número de partes en que debe dividirse un transecto temporal para detectar la máxima segregación de las actividades del ganado y, por otro, el grado de definición con que se manifiesta dicha segregación. En el caso estudiado (una dehesa del centro de España la máxima segregación de las actividades fundamentales de comportamiento del ganado se produce al considerar el año dividido en dos periodos: primavera-verano y otoño-invierno. El

  9. Sampling and Selection Factors that Enhance the Diversity of Microbial Collections: Application to Biopesticide Development

    Directory of Open Access Journals (Sweden)

    Jun-Kyung Park

    2013-06-01

    Full Text Available Diverse bacteria are known to colonize plants. However, only a small fraction of that diversity has been evaluated for their biopesticide potential. To date, the criteria for sampling and selection in such bioprospecting endeavors have not been systematically evaluated in terms of the relative amount of diversity they provide for analysis. The present study aimed to enhance the success of bio-prospecting efforts by increasing the diversity while removing the genotypic redundancy often present in large collections of bacteria. We developed a multivariate sampling and marker-based selection strategy that significantly increase the diversity of bacteria recovered from plants. In doing so, we quantified the effects of varying sampling intensity, media composition, incubation conditions, plant species, and soil source on the diversity of recovered isolates. Subsequent sequencing and high-throughput phenotypic analyses of a small fraction of the collected isolates revealed that this approach led to the recovery of over a dozen rare and, to date, poorly characterized genera of plant-associated bacteria with significant biopesticide activities. Overall, the sampling and selection approach described led to an approximately 5-fold improvement in efficiency and the recovery of several novel strains of bacteria with significant biopesticide potential.

  10. Who Are We Studying? Sample Diversity in Teaching of Psychology Research

    Science.gov (United States)

    Richmond, Aaron S.; Broussard, Kristin A.; Sterns, Jillian L.; Sanders, Kristina K.; Shardy, Justin C.

    2015-01-01

    The purpose of the current study was to examine the sample diversity of empirical articles published in four premier teaching of psychology journals from 2008 to 2013. We investigated which demographic information was commonly reported and if samples were ethnically representative and whether gender was representative compared to National…

  11. What is an Appropriate Temporal Sampling Rate to Record Floating Car Data with a GPS?

    Directory of Open Access Journals (Sweden)

    Peter Ranacher

    2016-01-01

    Full Text Available Floating car data (FCD recorded with the Global Positioning System (GPS are an important data source for traffic research. However, FCD are subject to error, which can relate either to the accuracy of the recordings (measurement error or to the temporal rate at which the data are sampled (interpolation error. Both errors affect movement parameters derived from the FCD, such as speed or direction, and consequently influence conclusions drawn about the movement. In this paper we combined recent findings about the autocorrelation of GPS measurement error and well-established findings from random walk theory to analyse a set of real-world FCD. First, we showed that the measurement error in the FCD was affected by positive autocorrelation. We explained why this is a quality measure of the data. Second, we evaluated four metrics to assess the influence of interpolation error. We found that interpolation error strongly affects the correct interpretation of the car’s dynamics (speed, direction, whereas its impact on the path (travelled distance, spatial location was moderate. Based on these results we gave recommendations for recording of FCD using the GPS. Our recommendations only concern time-based sampling, change-based, location-based or event-based sampling are not discussed. The sampling approach minimizes the effects of error on movement parameters while avoiding the collection of redundant information. This is crucial for obtaining reliable results from FCD.

  12. Drivers and spatio-temporal extent of hyporheic patch variation: implications for sampling.

    Science.gov (United States)

    Braun, Alexander; Auerswald, Karl; Geist, Juergen

    2012-01-01

    The hyporheic zone in stream ecosystems is a heterogeneous key habitat for species across many taxa. Consequently, it attracts high attention among freshwater scientists, but generally applicable guidelines on sampling strategies are lacking. Thus, the objective of this study was to develop and validate such sampling guidelines. Applying geostatistical analysis, we quantified the spatio-temporal variability of parameters, which characterize the physico-chemical substratum conditions in the hyporheic zone. We investigated eight stream reaches in six small streams that are typical for the majority of temperate areas. Data was collected on two occasions in six stream reaches (development data), and once in two additional reaches, after one year (validation data). In this study, the term spatial variability refers to patch contrast (patch to patch variance) and patch size (spatial extent of a patch). Patch contrast of hyporheic parameters (specific conductance, pH and dissolved oxygen) increased with macrophyte cover (r(2)=0.95, psampling design should be adapted to suit specific stream reaches. The distance between sampling sites should be inversely related to the sinuosity, while the number of samples should be related to macrophyte cover.

  13. Sampling plant diversity and rarity at landscape scales: importance of sampling time in species detectability.

    Science.gov (United States)

    Zhang, Jian; Nielsen, Scott E; Grainger, Tess N; Kohler, Monica; Chipchar, Tim; Farr, Daniel R

    2014-01-01

    Documenting and estimating species richness at regional or landscape scales has been a major emphasis for conservation efforts, as well as for the development and testing of evolutionary and ecological theory. Rarely, however, are sampling efforts assessed on how they affect detection and estimates of species richness and rarity. In this study, vascular plant richness was sampled in 356 quarter hectare time-unlimited survey plots in the boreal region of northeast Alberta. These surveys consisted of 15,856 observations of 499 vascular plant species (97 considered to be regionally rare) collected by 12 observers over a 2 year period. Average survey time for each quarter-hectare plot was 82 minutes, ranging from 20 to 194 minutes, with a positive relationship between total survey time and total plant richness. When survey time was limited to a 20-minute search, as in other Alberta biodiversity methods, 61 species were missed. Extending the survey time to 60 minutes, reduced the number of missed species to 20, while a 90-minute cut-off time resulted in the loss of 8 species. When surveys were separated by habitat type, 60 minutes of search effort sampled nearly 90% of total observed richness for all habitats. Relative to rare species, time-unlimited surveys had ∼ 65% higher rare plant detections post-20 minutes than during the first 20 minutes of the survey. Although exhaustive sampling was attempted, observer bias was noted among observers when a subsample of plots was re-surveyed by different observers. Our findings suggest that sampling time, combined with sample size and observer effects, should be considered in landscape-scale plant biodiversity surveys.

  14. Capturing temporal variation in phosphorus dynamics in groundwater dominated rivers using automated high-frequency sampling

    Science.gov (United States)

    Bieroza, M. Z.; Heathwaite, A. L.; Mullinger, N. J.; Keenan, P. O.

    2012-04-01

    High-frequency river water quality monitoring provides detailed hydrochemical information on the time scale of hydrologic response. Several studies (Kirchner et al., 2004; Johnes, 2007; Cassidy and Jordan, 2011) have shown previously that coarse sampling approaches fail to quantify nutrient and sediment loads and to capture the fine structure of water quality dynamics correctly. A robust analysis of high-frequency nutrient and water quality time series can present a complex conceptual, analytical and computational problem. High-frequency nutrient monitoring provides new evidence of processes and patterns that could not be observed previously using standard coarse resolution sampling schemes. However, to fully utilise the wealth of information contained in high-frequency nutrient data, we need to address the following questions: how to detect complex coupling patterns and processes in high-resolution flow-nutrients data, how do these patterns and processes change throughout the period of observation, and how to distinguish noise signals from an evidence of real processes (Harris and Heathwaite, 2005). Here, hourly measurements of total phosphorus (TP), soluble reactive phosphorus (SRP) and turbidity were carried out using bank side analysers to study the biogeochemical response of a 54 km2 catchment of the River Leith, a tributary of the River Eden (Cumbria, UK). A remote automated mobile lab facilitates real-time high-frequency nutrient and water quality monitoring, with no time delay between collection and analysis of the reactive elements. The objectives of this study were two-fold: first to investigate the intrinsic complexity of the temporal relationship between phosphorus fractions (SRP, TP), turbidity and continuous hydrometric time series and secondly to investigate the possibilities of missing high-frequency phosphorus data infilling using continuous hydrometric time series. Complex non-linear relationships between flow, TP and SRP, turbidity were observed

  15. Marine protected areas increase temporal stability of community structure, but not density or diversity, of tropical seagrass fish communities.

    Directory of Open Access Journals (Sweden)

    Elisa Alonso Aller

    Full Text Available Marine protected areas (MPAs have been shown to increase long-term temporal stability of fish communities and enhance ecosystem resilience to anthropogenic disturbance. Yet, the potential ability of MPAs to buffer effects of environmental variability at shorter time scales remains widely unknown. In the tropics, the yearly monsoon cycle is a major natural force affecting marine organisms in tropical regions, and its timing and severity are predicted to change over the coming century, with potentially severe effects on marine organisms, ecosystems and ecosystem services. Here, we assessed the ability of MPAs to buffer effects of monsoon seasonality on seagrass-associated fish communities, using a field survey in two MPAs (no-take zones and two unprotected (open-access sites around Zanzibar (Tanzania. We assessed the temporal stability of fish density and community structure within and outside MPAs during three monsoon seasons in 2014-2015, and investigated several possible mechanisms that could regulate temporal stability. Our results show that MPAs did not affect fish density and diversity, but that juvenile fish densities were temporally more stable within MPAs. Second, fish community structure was more stable within MPAs for juvenile and adult fish, but not for subadult fish or the total fish community. Third, the observed effects may be due to a combination of direct and indirect (seagrass-mediated effects of seasonality and, potentially, fluctuating fishing pressure outside MPAs. In summary, these MPAs may not have the ability to enhance fish density and diversity and to buffer effects of monsoon seasonality on the whole fish community. However, they may increase the temporal stability of certain groups, such as juvenile fish. Consequently, our results question whether MPAs play a general role in the maintenance of biodiversity and ecosystem functioning under changing environmental conditions in tropical seagrass fish communities.

  16. Marine protected areas increase temporal stability of community structure, but not density or diversity, of tropical seagrass fish communities.

    Science.gov (United States)

    Alonso Aller, Elisa; Jiddawi, Narriman S; Eklöf, Johan S

    2017-01-01

    Marine protected areas (MPAs) have been shown to increase long-term temporal stability of fish communities and enhance ecosystem resilience to anthropogenic disturbance. Yet, the potential ability of MPAs to buffer effects of environmental variability at shorter time scales remains widely unknown. In the tropics, the yearly monsoon cycle is a major natural force affecting marine organisms in tropical regions, and its timing and severity are predicted to change over the coming century, with potentially severe effects on marine organisms, ecosystems and ecosystem services. Here, we assessed the ability of MPAs to buffer effects of monsoon seasonality on seagrass-associated fish communities, using a field survey in two MPAs (no-take zones) and two unprotected (open-access) sites around Zanzibar (Tanzania). We assessed the temporal stability of fish density and community structure within and outside MPAs during three monsoon seasons in 2014-2015, and investigated several possible mechanisms that could regulate temporal stability. Our results show that MPAs did not affect fish density and diversity, but that juvenile fish densities were temporally more stable within MPAs. Second, fish community structure was more stable within MPAs for juvenile and adult fish, but not for subadult fish or the total fish community. Third, the observed effects may be due to a combination of direct and indirect (seagrass-mediated) effects of seasonality and, potentially, fluctuating fishing pressure outside MPAs. In summary, these MPAs may not have the ability to enhance fish density and diversity and to buffer effects of monsoon seasonality on the whole fish community. However, they may increase the temporal stability of certain groups, such as juvenile fish. Consequently, our results question whether MPAs play a general role in the maintenance of biodiversity and ecosystem functioning under changing environmental conditions in tropical seagrass fish communities.

  17. Bee (Hymenoptera: Apoidea) Diversity and Sampling Methodology in a Midwestern USA Deciduous Forest.

    Science.gov (United States)

    McCravy, Kenneth W; Ruholl, Jared D

    2017-08-04

    Forests provide potentially important bee habitat, but little research has been done on forest bee diversity and the relative effectiveness of bee sampling methods in this environment. Bee diversity and sampling methodology were studied in an Illinois, USA upland oak-hickory forest using elevated and ground-level pan traps, malaise traps, and vane traps. 854 bees and 55 bee species were collected. Elevated pan traps collected the greatest number of bees (473), but ground-level pan traps collected greater species diversity (based on Simpson's diversity index) than did elevated pan traps. Elevated and ground-level pan traps collected the greatest bee species richness, with 43 and 39 species, respectively. An estimated sample size increase of over 18-fold would be required to approach minimum asymptotic richness using ground-level pan traps. Among pan trap colors/elevations, elevated yellow pan traps collected the greatest number of bees (266) but the lowest diversity. Malaise traps were relatively ineffective, collecting only 17 bees. Vane traps collected relatively low species richness (14 species), and Chao1 and abundance coverage estimators suggested that minimum asymptotic species richness was approached for that method. Bee species composition differed significantly between elevated pan traps, ground-level pan traps, and vane traps. Indicator species were significantly associated with each of these trap types, as well as with particular pan trap colors/elevations. These results indicate that Midwestern deciduous forests provide important bee habitat, and that the performance of common bee sampling methods varies substantially in this environment.

  18. Molecular diversity and distribution of marine fungi across 130 European environmental samples.

    Science.gov (United States)

    Richards, Thomas A; Leonard, Guy; Mahé, Frédéric; Del Campo, Javier; Romac, Sarah; Jones, Meredith D M; Maguire, Finlay; Dunthorn, Micah; De Vargas, Colomban; Massana, Ramon; Chambouvet, Aurélie

    2015-11-22

    Environmental DNA and culture-based analyses have suggested that fungi are present in low diversity and in low abundance in many marine environments, especially in the upper water column. Here, we use a dual approach involving high-throughput diversity tag sequencing from both DNA and RNA templates and fluorescent cell counts to evaluate the diversity and relative abundance of fungi across marine samples taken from six European near-shore sites. We removed very rare fungal operational taxonomic units (OTUs) selecting only OTUs recovered from multiple samples for a detailed analysis. This approach identified a set of 71 fungal 'OTU clusters' that account for 66% of all the sequences assigned to the Fungi. Phylogenetic analyses demonstrated that this diversity includes a significant number of chytrid-like lineages that had not been previously described, indicating that the marine environment encompasses a number of zoosporic fungi that are new to taxonomic inventories. Using the sequence datasets, we identified cases where fungal OTUs were sampled across multiple geographical sites and between different sampling depths. This was especially clear in one relatively abundant and diverse phylogroup tentatively named Novel Chytrid-Like-Clade 1 (NCLC1). For comparison, a subset of the water column samples was also investigated using fluorescent microscopy to examine the abundance of eukaryotes with chitin cell walls. Comparisons of relative abundance of RNA-derived fungal tag sequences and chitin cell-wall counts demonstrate that fungi constitute a low fraction of the eukaryotic community in these water column samples. Taken together, these results demonstrate the phylogenetic position and environmental distribution of 71 lineages, improving our understanding of the diversity and abundance of fungi in marine environments. © 2015 The Authors.

  19. Spatial and temporal analysis of the anthropogenic effects on local diversity of forest trees

    National Research Council Canada - National Science Library

    Polyakov, Maksym; Majumdar, Indrajit; Teeter, Lawrence

    2008-01-01

    ... variety of goods and services to humans. Tree diversity is a key component of forest ecosystem biodiversity and this is one of the reasons why biodiversity has emerged as a major objective of forest management and conservation since the Earth Summit in Rio de Janeiro in 1992. Forest diversity is an important criterion of sustainable for...

  20. The effect of sampling rate on interpretation of the temporal characteristics of radiative and convective heating in wildland flames

    Science.gov (United States)

    David Frankman; Brent W. Webb; Bret W. Butler; Daniel Jimenez; Michael Harrington

    2012-01-01

    Time-resolved radiative and convective heating measurements were collected on a prescribed burn in coniferous fuels at a sampling frequency of 500 Hz. Evaluation of the data in the time and frequency domain indicate that this sampling rate was sufficient to capture the temporal fluctuations of radiative and convective heating. The convective heating signal contained...

  1. Diversity and Spatial-Temporal Distribution of Soil Macrofauna Communities Along Elevation in the Changbai Mountain, China.

    Science.gov (United States)

    Yin, Xiuqin; Qiu, Lili; Jiang, Yunfeng; Wang, Yeqiao

    2017-06-01

    The understanding of patterns of vertical variation and diversity of flora and fauna along elevational change has been well established over the past century. However, it is unclear whether there is an elevational distribution pattern for soil fauna. This study revealed the diversity and spatial-temporal distribution of soil macrofauna communities in different vegetation zones from forest to alpine tundra along elevation of the Changbai Mountain, China. The abundance, richness, and Shannon-Wiener diversity index of soil macrofauna communities were compared in four distinguished vegetation zones including the coniferous and broadleaved mixed forest zone, the coniferous forest zone, the subalpine dwarf birch (Betula ermanii) forest zone, and the alpine tundra zone. Soil macrofauna were extracted in May, July, and September of 2009. In each season, the abundance and richness of the soil macrofauna decreased with the ascending elevation. The Shannon-Wiener diversity indices of the soil macrofauna were higher in the vegetation zones of lower elevation than of higher elevation. Significant differences were observed in the abundance, richness, and Shannon-Wiener diversity index for the studied vegetation zones. Soil macrofauna congregated mainly to the litter layer in the low-elevation areas and in the 0-5 cm soil layer of the higher elevation areas. The results emphasized that the diversity of soil macrofauna communities decreased as the elevation increased and possess the distinct characteristics of zonation in the mountain ecosystem. The diversity and distribution of soil macrofauna communities were influenced by mean annual precipitation, altitude, annual radiation quantity, and mean annual temperature. © The Authors 2017. Published by Oxford University Press on behalf of Entomological Society of America. All rights reserved. For Permissions, please email: journals.permissions@oup.com.

  2. Understanding the Spatio-Temporal Response of Coral Reef Fish Communities to Natural Disturbances: Insights from Beta-Diversity Decomposition.

    Directory of Open Access Journals (Sweden)

    Thomas Lamy

    Full Text Available Understanding how communities respond to natural disturbances is fundamental to assess the mechanisms of ecosystem resistance and resilience. However, ecosystem responses to natural disturbances are rarely monitored both through space and time, while the factors promoting ecosystem stability act at various temporal and spatial scales. Hence, assessing both the spatial and temporal variations in species composition is important to comprehensively explore the effects of natural disturbances. Here, we suggest a framework to better scrutinize the mechanisms underlying community responses to disturbances through both time and space. Our analytical approach is based on beta diversity decomposition into two components, replacement and biomass difference. We illustrate this approach using a 9-year monitoring of coral reef fish communities off Moorea Island (French Polynesia, which encompassed two severe natural disturbances: a crown-of-thorns starfish outbreak and a hurricane. These disturbances triggered a fast logistic decline in coral cover, which suffered a 90% decrease on all reefs. However, we found that the coral reef fish composition remained largely stable through time and space whereas compensatory changes in biomass among species were responsible for most of the temporal fluctuations, as outlined by the overall high contribution of the replacement component to total beta diversity. This suggests that, despite the severity of the two disturbances, fish communities exhibited high resistance and the ability to reorganize their compositions to maintain the same level of total community biomass as before the disturbances. We further investigated the spatial congruence of this pattern and showed that temporal dynamics involved different species across sites; yet, herbivores controlling the proliferation of algae that compete with coral communities were consistently favored. These results suggest that compensatory changes in biomass among species

  3. Understanding the Spatio-Temporal Response of Coral Reef Fish Communities to Natural Disturbances: Insights from Beta-Diversity Decomposition.

    Science.gov (United States)

    Lamy, Thomas; Legendre, Pierre; Chancerelle, Yannick; Siu, Gilles; Claudet, Joachim

    2015-01-01

    Understanding how communities respond to natural disturbances is fundamental to assess the mechanisms of ecosystem resistance and resilience. However, ecosystem responses to natural disturbances are rarely monitored both through space and time, while the factors promoting ecosystem stability act at various temporal and spatial scales. Hence, assessing both the spatial and temporal variations in species composition is important to comprehensively explore the effects of natural disturbances. Here, we suggest a framework to better scrutinize the mechanisms underlying community responses to disturbances through both time and space. Our analytical approach is based on beta diversity decomposition into two components, replacement and biomass difference. We illustrate this approach using a 9-year monitoring of coral reef fish communities off Moorea Island (French Polynesia), which encompassed two severe natural disturbances: a crown-of-thorns starfish outbreak and a hurricane. These disturbances triggered a fast logistic decline in coral cover, which suffered a 90% decrease on all reefs. However, we found that the coral reef fish composition remained largely stable through time and space whereas compensatory changes in biomass among species were responsible for most of the temporal fluctuations, as outlined by the overall high contribution of the replacement component to total beta diversity. This suggests that, despite the severity of the two disturbances, fish communities exhibited high resistance and the ability to reorganize their compositions to maintain the same level of total community biomass as before the disturbances. We further investigated the spatial congruence of this pattern and showed that temporal dynamics involved different species across sites; yet, herbivores controlling the proliferation of algae that compete with coral communities were consistently favored. These results suggest that compensatory changes in biomass among species and spatial

  4. A new enrichment method for isolation of Bacillus thuringiensis from diverse sample types.

    Science.gov (United States)

    Patel, Ketan D; Bhanshali, Forum C; Chaudhary, Avani V; Ingle, Sanjay S

    2013-05-01

    New or more efficient methodologies having different principles are needed, as one method could not be suitable for isolation of organisms from samples of diverse types and from various environments. In present investigation, growth kinetics study revealed a higher germination rate, a higher growth rate, and maximum sporulation of Bacillus thuringiensis (Bt) compared to other Bacillus species. Considering these facts, a simple and efficient enrichment method was devised which allowed propagation of spores and vegetative cells of Bt and thereby increased Bt cell population proportionately. The new enrichment method yielded Bt from 44 out of 58 samples. Contrarily, Bt was isolated only from 16 and 18 samples by sodium acetate selection and dry heat pretreatment methods, respectively. Moreover, the percentages of Bt colonies isolated by the enrichment method were higher comparatively. Vegetative whole cell protein profile analysis indicated isolation of diverse population of Bt from various samples. Bt strains isolated by the enrichment method represented novel serovars and possibly new cry2 gene.

  5. Maintaining and Enhancing Diversity of Sampled Protein Conformations in Robotics-Inspired Methods.

    Science.gov (United States)

    Abella, Jayvee R; Moll, Mark; Kavraki, Lydia E

    2017-10-16

    The ability to efficiently sample structurally diverse protein conformations allows one to gain a high-level view of a protein's energy landscape. Algorithms from robot motion planning have been used for conformational sampling, and several of these algorithms promote diversity by keeping track of "coverage" in conformational space based on the local sampling density. However, large proteins present special challenges. In particular, larger systems require running many concurrent instances of these algorithms, but these algorithms can quickly become memory intensive because they typically keep previously sampled conformations in memory to maintain coverage estimates. In addition, robotics-inspired algorithms depend on defining useful perturbation strategies for exploring the conformational space, which is a difficult task for large proteins because such systems are typically more constrained and exhibit complex motions. In this article, we introduce two methodologies for maintaining and enhancing diversity in robotics-inspired conformational sampling. The first method addresses algorithms based on coverage estimates and leverages the use of a low-dimensional projection to define a global coverage grid that maintains coverage across concurrent runs of sampling. The second method is an automatic definition of a perturbation strategy through readily available flexibility information derived from B-factors, secondary structure, and rigidity analysis. Our results show a significant increase in the diversity of the conformations sampled for proteins consisting of up to 500 residues when applied to a specific robotics-inspired algorithm for conformational sampling. The methodologies presented in this article may be vital components for the scalability of robotics-inspired approaches.

  6. Impact of diversity of colonizing strains on strategies for sampling Escherichia coli from fecal specimens.

    Science.gov (United States)

    Lautenbach, Ebbing; Bilker, Warren B; Tolomeo, Pam; Maslow, Joel N

    2008-09-01

    Of 49 subjects, 21 were colonized with more than one strain of Escherichia coli and 12 subjects had at least one strain present in fewer than 20% of colonies. The ability to accurately characterize E. coli strain diversity is directly related to the number of colonies sampled and the underlying prevalence of the strain.

  7. Depressive Symptoms and Mental Health Treatment in an Ethnoracially Diverse College Student Sample

    Science.gov (United States)

    Herman, Steve; Archambeau, Olga G.; Deliramich, Aimee N.; Kim, Bryan S. K.; Chiu, Pearl H.; Frueh, B. Christopher

    2011-01-01

    Objectives: To study (a) the prevalence of depressive symptoms and (b) the utilization of mental health treatment in an ethnoracially diverse sample consisting primarily of Asian Americans, European Americans, Native Hawaiians, and Pacific Islanders. Participants: Five hundred eighty-nine college students. Method: A questionnaire packet that…

  8. Children's Use of Sample Size and Diversity Information within Basic-Level Categories.

    Science.gov (United States)

    Gutheil, Grant; Gelman, Susan A.

    1997-01-01

    Three studies examined the ability of 8- and 9-year-olds and young adults to use sample monotonicity and diversity information according to the similarity-coverage model of category-based induction. Found that children's difficulty with this information was independent of category level, and may be based on preferences for other strategies…

  9. Patterns of oribatid mite species diversity: testing the effects of elevation, area and sampling effort.

    Science.gov (United States)

    Mumladze, Levan; Murvanidze, Maka; Maraun, Mark

    2017-07-01

    Elevational gradients in species diversity and species area relationships are two well established patterns that are not mutually exclusive in space and time. Elevation and area are both considered as good proxies to detect and characterize the patterns of species diversity distribution. However, such studies are hampered by the incomplete biodiversity data available for ecologists, which may affect the pattern perceptions. Using the large dataset of oribatid mite communities sampled in Georgia, we tested the effects of altitude and area on species distribution using various approaches, while explicitly considering the biases from sampling effort. Our results showed that elevation and area are strongly correlated (with increasing absolute elevation, land area decreases) and both have strong linear effects on species diversity distribution when studied separately. Approaches based on multiple regression and direct removal of co-varied factors, indicated that the effect of area can actually override the effect of elevation in describing the oribatid species diversity distribution along with elevation. On the other hand, the bias of sampling proved significant in perception of elevational species richness pattern with less effect on elevational species area relationship. We suggest that the sampling alone may be responsible for patterns observed and thus should be considered in ecological studies when eligible.

  10. The Modified Checklist for Autism in Toddlers: Reliability in a Diverse Rural American Sample

    Science.gov (United States)

    Scarpa, Angela; Reyes, Nuri M.; Patriquin, Michelle A.; Lorenzi, Jill; Hassenfeldt, Tyler A.; Desai, Varsha J.; Kerkering, Kathryn W.

    2013-01-01

    This study investigated the psychometric properties of the modified checklist for autism in toddlers (M-CHAT) in a diverse rural American low-socioeconomic status (SES) sample. Four hundred and forty-seven English (n = 335) and Spanish (n = 112) speaking caregivers completed the M-CHAT during their toddler's 18- or 24-month well visit in a…

  11. Student-teacher relationships and achievement goal orientations : Examining student perceptions in an ethnically diverse sample

    NARCIS (Netherlands)

    Thijs, J.T.; Fleischmann, F.

    2015-01-01

    Among an ethnically diverse sample of 803 preadolescent students (ages 9-13 years), the present study examined the associations between students’ perceptions of the student-teacher relationship and their achievement goal orientations. Multilevel analyses showed that students who perceived more

  12. Diversity-dependent temporal divergence of ecosystem functioning in experimental ecosystems.

    Science.gov (United States)

    Guerrero-Ramírez, Nathaly R; Craven, Dylan; Reich, Peter B; Ewel, John J; Isbell, Forest; Koricheva, Julia; Parrotta, John A; Auge, Harald; Erickson, Heather E; Forrester, David I; Hector, Andy; Joshi, Jasmin; Montagnini, Florencia; Palmborg, Cecilia; Piotto, Daniel; Potvin, Catherine; Roscher, Christiane; van Ruijven, Jasper; Tilman, David; Wilsey, Brian; Eisenhauer, Nico

    2017-11-01

    The effects of biodiversity on ecosystem functioning generally increase over time, but the underlying processes remain unclear. Using 26 long-term grassland and forest experimental ecosystems, we demonstrate that biodiversity-ecosystem functioning relationships strengthen mainly by greater increases in functioning in high-diversity communities in grasslands and forests. In grasslands, biodiversity effects also strengthen due to decreases in functioning in low-diversity communities. Contrasting trends across grasslands are associated with differences in soil characteristics.

  13. Multisite tumor sampling enhances the detection of intratumor heterogeneity at all different temporal stages of tumor evolution.

    Science.gov (United States)

    Erramuzpe, Asier; Cortés, Jesús M; López, José I

    2017-08-25

    Intratumor heterogeneity (ITH) is an inherent process of tumor development that has received much attention in previous years, as it has become a major obstacle for the success of targeted therapies. ITH is also temporally unpredictable across tumor evolution, which makes its precise characterization even more problematic since detection success depends on the precise temporal snapshot at which ITH is analyzed. New and more efficient strategies for tumor sampling are needed to overcome these difficulties which currently rely entirely on the pathologist's interpretation. Recently, we showed that a new strategy, the multisite tumor sampling, works better than the routine sampling protocol for the ITH detection when the tumor time evolution was not taken into consideration. Here, we extend this work and compare the ITH detections of multisite tumor sampling and routine sampling protocols across tumor time evolution, and in particular, we provide in silico analyses of both strategies at early and late temporal stages for four different models of tumor evolution (linear, branched, neutral, and punctuated). Our results indicate that multisite tumor sampling outperforms routine protocols in detecting ITH at all different temporal stages of tumor evolution. We conclude that multisite tumor sampling is more advantageous than routine protocols in detecting intratumor heterogeneity.

  14. A simple method for estimating genetic diversity in large populations from finite sample sizes

    Directory of Open Access Journals (Sweden)

    Rajora Om P

    2009-12-01

    Full Text Available Abstract Background Sample size is one of the critical factors affecting the accuracy of the estimation of population genetic diversity parameters. Small sample sizes often lead to significant errors in determining the allelic richness, which is one of the most important and commonly used estimators of genetic diversity in populations. Correct estimation of allelic richness in natural populations is challenging since they often do not conform to model assumptions. Here, we introduce a simple and robust approach to estimate the genetic diversity in large natural populations based on the empirical data for finite sample sizes. Results We developed a non-linear regression model to infer genetic diversity estimates in large natural populations from finite sample sizes. The allelic richness values predicted by our model were in good agreement with those observed in the simulated data sets and the true allelic richness observed in the source populations. The model has been validated using simulated population genetic data sets with different evolutionary scenarios implied in the simulated populations, as well as large microsatellite and allozyme experimental data sets for four conifer species with contrasting patterns of inherent genetic diversity and mating systems. Our model was a better predictor for allelic richness in natural populations than the widely-used Ewens sampling formula, coalescent approach, and rarefaction algorithm. Conclusions Our regression model was capable of accurately estimating allelic richness in natural populations regardless of the species and marker system. This regression modeling approach is free from assumptions and can be widely used for population genetic and conservation applications.

  15. Estimating effective population size from temporally spaced samples with a novel, efficient maximum-likelihood algorithm.

    Science.gov (United States)

    Hui, Tin-Yu J; Burt, Austin

    2015-05-01

    The effective population size [Formula: see text] is a key parameter in population genetics and evolutionary biology, as it quantifies the expected distribution of changes in allele frequency due to genetic drift. Several methods of estimating [Formula: see text] have been described, the most direct of which uses allele frequencies measured at two or more time points. A new likelihood-based estimator [Formula: see text] for contemporary effective population size using temporal data is developed in this article. The existing likelihood methods are computationally intensive and unable to handle the case when the underlying [Formula: see text] is large. This article tries to work around this problem by using a hidden Markov algorithm and applying continuous approximations to allele frequencies and transition probabilities. Extensive simulations are run to evaluate the performance of the proposed estimator [Formula: see text], and the results show that it is more accurate and has lower variance than previous methods. The new estimator also reduces the computational time by at least 1000-fold and relaxes the upper bound of [Formula: see text] to several million, hence allowing the estimation of larger [Formula: see text]. Finally, we demonstrate how this algorithm can cope with nonconstant [Formula: see text] scenarios and be used as a likelihood-ratio test to test for the equality of [Formula: see text] throughout the sampling horizon. An R package "NB" is now available for download to implement the method described in this article. Copyright © 2015 by the Genetics Society of America.

  16. Fungi in the sea fan Gorgonia ventalina: diversity and sampling strategies

    Science.gov (United States)

    Toledo-Hernández, C.; Bones-González, A.; Ortiz-Vázquez, O. E.; Sabat, A. M.; Bayman, P.

    2007-09-01

    Fungal communities from gorgonians have been poorly documented and most studies of these communities have lacked defined sampling strategies. The objectives of this study were: (1) to estimate fungal diversity in Gorgonia ventalina; (2) to compare two sampling and tissue processing strategies: tissue fragments of different sizes vs. homogenized tissue. A total of seven genera and fourteen species of fungi were isolated on culture medium and identified by sequencing the nrITS. All but one species were new reports. In both treatments Aspergillus and Penicillium were the most common genera isolated. Most species isolated from fragments were not observed from homogenized tissue and vice versa. Reducing the size fragment increased significantly the number of species isolated per fragment. To better estimate fungal diversity in sea fans a strategy is proposed that combines sampling of small tissue fragments with homogenized tissue, since each technique yielded fungal species not detected by the other.

  17. Temporal association between federal gun laws and the diversion of guns to criminals in Milwaukee.

    Science.gov (United States)

    Webster, Daniel W; Vernick, Jon S; Bulzacchelli, Maria T; Vittes, Katherine A

    2012-02-01

    The practices of licensed gun dealers can threaten the safety of urban residents by facilitating the diversion of guns to criminals. In 2003, changes to federal law shielded gun dealers from the release of gun trace data and provided other protections to gun dealers. The 14-month period during which the dealer did not sell junk guns was associated with a 68% reduction in the diversion of guns to criminals within a year of sale by the dealer and a 43% increase in guns diverted to criminals following sales by other dealers. The laws were associated with a 203% increase in the number of guns diverted to criminals within a year of sale by the gun store, which was the focus of this study. Policies which affect gun dealer accountability appeared to influence the diversion of guns to criminals.

  18. Preparation method matters: Aiming at higher NPP diversity and representativeness in sediment samples

    DEFF Research Database (Denmark)

    Enevold, Renée; Odgaard, Bent Vad

    2016-01-01

    of palynology in archaeological and forensic sciences. NPPs in anthropogenic soils and archaeological samples may be numerous in types as well as in abundance. However, preparing these soil samples with methods based on acid digestion potentially biases NPP assemblages because of differential damage or even...... dissolution of microfossils. In spite of this potential bias standard preparation procedures for pollen analysis have, in most cases without modification, generally been applied to palynological samples used for NPP analysis. We review briefly the advantages of high diversity NPP-analysis and preparation...

  19. Composition, diversity and short-term temporal fluctuations of zooplankton communities in fish culture ponds (Pindamonhangaba, SP

    Directory of Open Access Journals (Sweden)

    NF. Negreiros

    Full Text Available The present study aimed at evaluating the composition, diversity and short-term temporal fluctuations of zooplankton communities in fish ponds. The study was carried out in two fish ponds, with 180 m² of water surface (6 × 30 m each, located in the Aquiculture Centre of the Pindamonhangaba Fisheries Institute - São Paulo. The study was developed over eight weeks, from February 16 to April 6, 1998. The physical and chemical conditions of the water in the fish ponds were adequate for zooplankton development. The zooplanktonic community was characterised by high richness of species and a greater diversity was observed in the first fish pond, with a superior density of Rotifera. Temporal changes in zooplankton composition occurred in both ponds with Cladocera appearing in abundance later, in the fourth week, whereas copepods and rotifers were well represented since the beginning. Many species found are typical of fish ponds and are considered to constitute an excellent food source, showing high nutritional value for fish larvae, a good example being individuals from the Rotifera group and the micro-crustacean species Moina minuta and Thermocyclops decipiens.

  20. Temporal Association between Federal Gun Laws and the Diversion of Guns to Criminals in Milwaukee

    OpenAIRE

    Webster, Daniel W.; Vernick, Jon S.; Bulzacchelli, Maria T.; Vittes, Katherine A.

    2012-01-01

    The practices of licensed gun dealers can threaten the safety of urban residents by facilitating the diversion of guns to criminals. In 2003, changes to federal law shielded gun dealers from the release of gun trace data and provided other protections to gun dealers. The 14-month period during which the dealer did not sell junk guns was associated with a 68% reduction in the diversion of guns to criminals within a year of sale by the dealer and a 43% increase in guns diverted to criminals fol...

  1. The diversion of stimulant medications among a convenience sample of college students with current prescriptions.

    Science.gov (United States)

    Gallucci, Andrew R; Martin, Ryan J; Usdan, Stuart L

    2015-03-01

    Diversion is defined as the unlawful channeling of regulated pharmaceuticals from legal sources to the illicit marketplace. Persons with legal prescriptions often give away or sell their medications to others. The misuse of prescription stimulant medications continues to be a problem on college campuses and a need to understand how students are obtaining stimulant medications exists. The object of the study was to identify the prevalence, correlates, and motivations associated with diversion of prescription stimulants among current prescription holders. A large sample of undergraduates (n = 1,022) between the ages of 18 and 24 enrolled at a large public university in the southeastern United States completed an in class questionnaire. Among those respondents, we identified 151 current stimulant prescription holders and analyzed the prevalence, motivations, and correlates associated with lifetime and current diversion. Overall, 58.9% of current prescription holders had given away or sold their stimulant medication during their lifetime. Those with a history of nonmedical use of prescription stimulants were almost 5 times more likely to divert their medication during their lifetime. The majority of those engaging in lifetime and current diversion medication did so infrequently. The most common motivations reported for both lifetime and current diversion were "to make extra money" and to "help during a time of high academic stress." Students who reported a history of prescription misuse were also more likely to engage in current diversion. Diversion-related behaviors should be explored further and programs aimed at the reducing these behaviors should be considered. (c) 2015 APA, all rights reserved).

  2. Temporal variability in urinary excretion of bisphenol A and seven other phenols in spot, morning, and 24-h urine samples

    DEFF Research Database (Denmark)

    Lassen, Tina Harmer; Frederiksen, Hanne; Jensen, Tina Kold

    2013-01-01

    of bisphenol A (BPA) and seven other phenols. All analytes were determined using TurboFlow-LC-MS/MS. Two spot, three first morning and three 24-h urine samples were collected from 33 young Danish men over a three months period. Temporal variability was estimated by means of intraclass correlation coefficients...

  3. Genetic diversity and temporal dynamics of phytoplankton viruses in East Lake, China.

    Science.gov (United States)

    Wang, Mei-Niang; Ge, Xing-Yi; Wu, Yong-Quan; Yang, Xing-Lou; Tan, Bing; Zhang, Yu-Ji; Shi, Zheng-Li

    2015-08-01

    Phytoplankton viruses are important components of aquatic ecosystems. However, their prevalence and genetic diversity in marine and freshwater systems are largely under estimated owing to the immense size of water bodies and limitations in virus discovery techniques. In this study, we conducted a 1-year survey of phytoplankton virus communities by collecting surface water monthly from an inland lake (East Lake) in China between May 2012 and April 2013. We examined four phytoplankton viruses, i.e., myoviruses, podoviruses, siphoviruses, and phycodnaviruses, and seven sets of primers were used to target conserved genes within these four species. In this year-long investigation, a total of 358 different virus-related sequences from four virus families were obtained. All virus families were detected in all months, except for cyanopodoviruses, which were only identified during eight of the 12 months surveyed. Moreover, virus abundance and diversity changed dynamically over time. Phylogenetic analysis revealed that the majority of viral sequences from East Lake, China displayed distinct clustering patterns compared with published sequences. These results supported the existence of a highly diverse and unique phytoplankton virus community in East Lake, China.

  4. Woody species diversity in forest plantations in a mountainous region of Beijing, China: effects of sampling scale and species selection.

    Directory of Open Access Journals (Sweden)

    Yuxin Zhang

    Full Text Available The role of forest plantations in biodiversity conservation has gained more attention in recent years. However, most work on evaluating the diversity of forest plantations focuses only on one spatial scale; thus, we examined the effects of sampling scale on diversity in forest plantations. We designed a hierarchical sampling strategy to collect data on woody species diversity in planted pine (Pinus tabuliformis Carr., planted larch (Larix principis-rupprechtii Mayr., and natural secondary deciduous broadleaf forests in a mountainous region of Beijing, China. Additive diversity partition analysis showed that, compared to natural forests, the planted pine forests had a different woody species diversity partitioning pattern at multi-scales (except the Simpson diversity in the regeneration layer, while the larch plantations did not show multi-scale diversity partitioning patterns that were obviously different from those in the natural secondary broadleaf forest. Compare to the natural secondary broadleaf forests, the effects of planted pine forests on woody species diversity are dependent on the sampling scale and layers selected for analysis. Diversity in the planted larch forest, however, was not significantly different from that in the natural forest for all diversity components at all sampling levels. Our work demonstrated that the species selected for afforestation and the sampling scales selected for data analysis alter the conclusions on the levels of diversity supported by plantations. We suggest that a wide range of scales should be considered in the evaluation of the role of forest plantations on biodiversity conservation.

  5. Hillslope scale temporal stability of soil water storage in diverse soil layers

    Science.gov (United States)

    Jia, Xiaoxu; Shao, Ming'an; Wei, Xiaorong; Wang, Yunqiang

    2013-08-01

    Knowledge of the soil water storage (SWS) of soil profiles on the scale of a hillslope is important for the optimal management of soil water and revegetation on sloping land in semi-arid areas. This study aimed to investigate the temporal stability of SWS profiles (0-1.0, 1.0-2.0, and 2.0-3.0 m) and to identify representative sites for reliably estimating the mean SWS on two adjacent hillslopes of the Loess Plateau in China. We used two indices: the standard deviation of relative difference (SDRD) and the mean absolute bias error (MABE). We also endeavored to identify any correlations between temporal stability and soil, topography, or properties of the vegetation. The SWS of the soil layers was measured using neutron probes on 15 occasions at 59 locations arranged on two hillslopes (31 and 28 locations for hillslope A (HA) and hillslope B (HB), respectively) from 2009 to 2011. The time-averaged mean SWS for the three layers differed significantly (P management of soil water on sloping land on the Loess Plateau.

  6. Molecular diversity sample generation on the basis of quantum-mechanical computations and principal component analysis.

    Science.gov (United States)

    Gutierrez-De-Teran, H; Lozano, J J; Segarra, V; Sanz, F

    2002-02-01

    The present study introduces a new strategy of selection of a maximum diversity sample of n compounds from N available in a molecular database. This strategy can be useful in pharmacological screening, combinatorial chemistry or parallel synthesis planning. It consists of first describing the compounds by means of parameters derived from quantum mechanical computations (water solvation deltaG, benzene solvation deltaG, octanol solvation deltaG, dipolar moment), as well as standard molecular parameters such as solvent-accessible surface area and molecular weight. Solvation parameters are used because of the importance of this phenomenon in the pharmacological behaviour. Redundant information in the description of the compounds is eliminated by using principal components (PC) instead of the original descriptors. Based on the similarity between the N compounds in the PC space, they are classified into n groups by k-means cluster analysis. The compounds that are nearest to the centroid of each cluster constituted the maximum diversity sample. When practical difficulties exist for the use of one of the proposed compounds, another also close to the cluster centroid can substitute for it. This strategy has been tested in the selection of a sample of 50 amines from the 923 available in the Aldrich catalogue. The results have been contrasted with those obtained from an optimal, distance-based experimental design, resulting in an 86% of agreement between both approaches. An R(2)-like diversity coefficient has been used to assess the quality of the proposed solutions.

  7. Seasonal and Temporal Variation in Release of Antibiotics in Hospital Wastewater: Estimation Using Continuous and Grab Sampling

    Science.gov (United States)

    Diwan, Vishal; Stålsby Lundborg, Cecilia; Tamhankar, Ashok J.

    2013-01-01

    The presence of antibiotics in the environment and their subsequent impact on resistance development has raised concerns globally. Hospitals are a major source of antibiotics released into the environment. To reduce these residues, research to improve knowledge of the dynamics of antibiotic release from hospitals is essential. Therefore, we undertook a study to estimate seasonal and temporal variation in antibiotic release from two hospitals in India over a period of two years. For this, 6 sampling sessions of 24 hours each were conducted in the three prominent seasons of India, at all wastewater outlets of the two hospitals, using continuous and grab sampling methods. An in-house wastewater sampler was designed for continuous sampling. Eight antibiotics from four major antibiotic groups were selected for the study. To understand the temporal pattern of antibiotic release, each of the 24-hour sessions were divided in three sub-sampling sessions of 8 hours each. Solid phase extraction followed by liquid chromatography/tandem mass spectrometry (LC-MS/MS) was used to determine the antibiotic residues. Six of the eight antibiotics studied were detected in the wastewater samples. Both continuous and grab sampling methods indicated that the highest quantities of fluoroquinolones were released in winter followed by the rainy season and the summer. No temporal pattern in antibiotic release was detected. In general, in a common timeframe, continuous sampling showed less concentration of antibiotics in wastewater as compared to grab sampling. It is suggested that continuous sampling should be the method of choice as grab sampling gives erroneous results, it being indicative of the quantities of antibiotics present in wastewater only at the time of sampling. Based on our studies, calculations indicate that from hospitals in India, an estimated 89, 1 and 25 ng/L/day of fluroquinolones, metronidazole and sulfamethoxazole respectively, might be getting released into the

  8. Seasonal and temporal variation in release of antibiotics in hospital wastewater: estimation using continuous and grab sampling.

    Directory of Open Access Journals (Sweden)

    Vishal Diwan

    Full Text Available The presence of antibiotics in the environment and their subsequent impact on resistance development has raised concerns globally. Hospitals are a major source of antibiotics released into the environment. To reduce these residues, research to improve knowledge of the dynamics of antibiotic release from hospitals is essential. Therefore, we undertook a study to estimate seasonal and temporal variation in antibiotic release from two hospitals in India over a period of two years. For this, 6 sampling sessions of 24 hours each were conducted in the three prominent seasons of India, at all wastewater outlets of the two hospitals, using continuous and grab sampling methods. An in-house wastewater sampler was designed for continuous sampling. Eight antibiotics from four major antibiotic groups were selected for the study. To understand the temporal pattern of antibiotic release, each of the 24-hour sessions were divided in three sub-sampling sessions of 8 hours each. Solid phase extraction followed by liquid chromatography/tandem mass spectrometry (LC-MS/MS was used to determine the antibiotic residues. Six of the eight antibiotics studied were detected in the wastewater samples. Both continuous and grab sampling methods indicated that the highest quantities of fluoroquinolones were released in winter followed by the rainy season and the summer. No temporal pattern in antibiotic release was detected. In general, in a common timeframe, continuous sampling showed less concentration of antibiotics in wastewater as compared to grab sampling. It is suggested that continuous sampling should be the method of choice as grab sampling gives erroneous results, it being indicative of the quantities of antibiotics present in wastewater only at the time of sampling. Based on our studies, calculations indicate that from hospitals in India, an estimated 89, 1 and 25 ng/L/day of fluroquinolones, metronidazole and sulfamethoxazole respectively, might be getting

  9. Evaluation of bacterial diversity recovered from petroleum samples using different physical matrices

    Directory of Open Access Journals (Sweden)

    Bruna Martins Dellagnezze

    Full Text Available ABSTRACT Unraveling the microbial diversity and its complexity in petroleum reservoir environments has been a challenge throughout the years. Despite the techniques developed in order to improve methodologies involving DNA extraction from crude oil, microbial enrichments using different culture conditions can be applied as a way to increase the recovery of DNA from environments with low cellular density for further microbiological analyses. This work aimed at the evaluation of different matrices (arenite, shale and polyurethane foam as support materials for microbial growth and biofilm formation in enrichments using a biodegraded petroleum sample as inoculum in sulfate reducing condition. Subsequent microbial diversity characterization was carried out using Scanning Electronic Microscopy (SEM, Denaturing Gradient Gel Electrophoresis (DGGE and 16S rRNA gene libraries in order to compare the microbial biomass yield, DNA recovery efficiency and diversity among the enrichments. The DNA from microbial communities in petroleum enrichments was purified according to a protocol established in this work and used for 16S rRNA amplification with bacterial generic primers. The PCR products were cloned, and positive clones were screened by Amplified Ribosomal DNA Restriction Analysis (ARDRA. Sequencing and phylogenetic analyses revealed that the bacterial community was mostly represented by members of the genera Petrotoga, Bacillus, Pseudomonas, Geobacillus and Rahnella. The use of different support materials in the enrichments yielded an increase in microbial biomass and biofilm formation, indicating that these materials may be employed for efficient biomass recovery from petroleum reservoir samples. Nonetheless, the most diverse microbiota were recovered from the biodegraded petroleum sample using polyurethane foam cubes as support material.

  10. Sampling designs for contaminant temporal trend analyses using sedentary species exemplified by the snails Bellamya aeruginosa and Viviparus viviparus.

    Science.gov (United States)

    Yin, Ge; Danielsson, Sara; Dahlberg, Anna-Karin; Zhou, Yihui; Qiu, Yanling; Nyberg, Elisabeth; Bignert, Anders

    2017-10-01

    Environmental monitoring typically assumes samples and sampling activities to be representative of the population being studied. Given a limited budget, an appropriate sampling strategy is essential to support detecting temporal trends of contaminants. In the present study, based on real chemical analysis data on polybrominated diphenyl ethers in snails collected from five subsites in Tianmu Lake, computer simulation is performed to evaluate three sampling strategies by the estimation of required sample size, to reach a detection of an annual change of 5% with a statistical power of 80% and 90% with a significant level of 5%. The results showed that sampling from an arbitrarily selected sampling spot is the worst strategy, requiring much more individual analyses to achieve the above mentioned criteria compared with the other two approaches. A fixed sampling site requires the lowest sample size but may not be representative for the intended study object e.g. a lake and is also sensitive to changes of that particular sampling site. In contrast, sampling at multiple sites along the shore each year, and using pooled samples when the cost to collect and prepare individual specimens are much lower than the cost for chemical analysis, would be the most robust and cost efficient strategy in the long run. Using statistical power as criterion, the results demonstrated quantitatively the consequences of various sampling strategies, and could guide users with respect of required sample sizes depending on sampling design for long term monitoring programs. Copyright © 2017 Elsevier Ltd. All rights reserved.

  11. Temporal regulation of kin recognition maintains recognition-cue diversity and suppresses cheating.

    Science.gov (United States)

    Ho, Hsing-I; Shaulsky, Gad

    2015-05-28

    Kin recognition, the ability to distinguish kin from non-kin, can facilitate cooperation between relatives. Evolutionary theory predicts that polymorphism in recognition cues, which is essential for effective recognition, would be unstable. Individuals carrying rare recognition cues would benefit less from social interactions than individuals with common cues, leading to loss of the genetic-cue diversity. We test this evolutionary hypothesis in Dictyostelium discoideum, which forms multicellular fruiting bodies by aggregation and utilizes two polymorphic membrane proteins to facilitate preferential cooperation. Surprisingly, we find that rare recognition variants are tolerated and maintain their frequencies among incompatible majority during development. Although the rare variants are initially excluded from the aggregates, they subsequently rejoin the aggregate and produce spores. Social cheating is also refrained in late development, thus limiting the cost of chimerism. Our results suggest a potential mechanism to sustain the evolutionary stability of kin-recognition genes and to suppress cheating.

  12. Modelling the loss of genetic diversity in vole populations in a spatially and temporally varying environment

    DEFF Research Database (Denmark)

    Topping, Christopher John; Østergaard, Siri; Pertoldi, Cino

    2003-01-01

    incorporating explicit genetics provide a promising new approach to the evaluation of the effect of animal behaviour, and random and man-induced events on the genetic composition of populations. They also provide a new platform from which to investigate the implication of real world deviations from assumptions...... conditions, but exclude factors such as animal behaviour, environmental structure, and breeding biology, all of which influence genetic diversity. Most populations are unique in some of these characteristics, and therefore may be unsuitable for the classical approach. Here, an alternative approach using......Altering environmental conditions affects the genetic composition of populations via demographic and selective responses by creating of variety of population substructuring types. Classical genetic approaches can predict the genetic composition of populations under long-term or structurally stable...

  13. Temporal genetic patterns of diversity and structure evidence chaotic genetic patchiness in a spiny lobster.

    Science.gov (United States)

    Villacorta-Rath, Cecilia; Souza, Carla A; Murphy, Nicholas P; Green, Bridget S; Gardner, Caleb; Strugnell, Jan M

    2018-01-01

    Population structure of many marine organisms is spatially patchy and varies within and between years, a phenomenon defined as chaotic genetic patchiness. This results from the combination of planktonic larval dispersal and environmental stochasticity. Additionally, in species with bi-partite life, postsettlement selection can magnify these genetic differences. The high fecundity (up to 500,000 eggs annually) and protracted larval duration (12-24 months) and dispersal of the southern rock lobster, Jasus edwardsii, make it a good test species for chaotic genetic patchiness and selection during early benthic life. Here, we used double digest restriction site-associated DNA sequencing (ddRADseq) to investigate chaotic genetic patchiness and postsettlement selection in this species. We assessed differences in genetic structure and diversity of recently settled pueruli across four settlement years and between two sites in southeast Australia separated by approximately 1,000 km. Postsettlement selection was investigated by identifying loci under putative positive selection between recently settled pueruli and postpueruli and quantifying differences in the magnitude and strength of the selection at each year and site. Genetic differences within and among sites through time in neutral SNP markers indicated chaotic genetic patchiness. Recently settled puerulus at the southernmost site exhibited lower genetic diversity during years of low puerulus catches, further supporting this hypothesis. Finally, analyses of outlier SNPs detected fluctuations in the magnitude and strength of the markers putatively under positive selection over space and time. One locus under putative positive selection was consistent at both locations during the same years, suggesting the existence of weak postsettlement selection. © 2017 John Wiley & Sons Ltd.

  14. Influence of spatio-temporal resource availability on mushroom mite diversity.

    Science.gov (United States)

    Okabe, Kimiko

    2013-11-01

    Although biodiversity in nature is of fundamental importance because it improves the sustainability of ecosystems, communities of microscopic organisms are generally excluded from conservation targets for biodiversity. Here, I hypothesize that mushroom mite species richness is correlated with both spatial (i.e., mushroom size) and temporal (i.e., longevity of fruiting bodies) resource availability. I collected fruiting bodies in an old-growth forest over 4 years to collect mites and insects inhabiting the mushrooms. Mites were collected from 47 % of the fruiting bodies and approximately 60 % of the mite species were collected only once. Mite species richness was significantly correlated with the availability of long-lasting fruiting bodies. For example, bracket fungi contained more mite species than ephemeral fruiting bodies. Insect presence was also correlated with mushroom mite richness, probably as phoretic hosts and food resources for predacious mites. On the other hand, mushroom size seemed to be less important; small fruiting bodies sometimes harbored several mite species. Although mite species richness was correlated with mushroom species richness, mushroom specificity by mites was not clear except for a preference for long-lasting fruiting bodies. Therefore, I suggest that a constant supply of coarse woody debris is crucial for maintaining preferred resources for mushroom mites (e.g., bracket fungi) and their associated insects (mycophilous and possibly saproxylic insects).

  15. Spatial and temporal diversity in genomic instability processes defines lung cancer evolution.

    Science.gov (United States)

    de Bruin, Elza C; McGranahan, Nicholas; Mitter, Richard; Salm, Max; Wedge, David C; Yates, Lucy; Jamal-Hanjani, Mariam; Shafi, Seema; Murugaesu, Nirupa; Rowan, Andrew J; Grönroos, Eva; Muhammad, Madiha A; Horswell, Stuart; Gerlinger, Marco; Varela, Ignacio; Jones, David; Marshall, John; Voet, Thierry; Van Loo, Peter; Rassl, Doris M; Rintoul, Robert C; Janes, Sam M; Lee, Siow-Ming; Forster, Martin; Ahmad, Tanya; Lawrence, David; Falzon, Mary; Capitanio, Arrigo; Harkins, Timothy T; Lee, Clarence C; Tom, Warren; Teefe, Enock; Chen, Shann-Ching; Begum, Sharmin; Rabinowitz, Adam; Phillimore, Benjamin; Spencer-Dene, Bradley; Stamp, Gordon; Szallasi, Zoltan; Matthews, Nik; Stewart, Aengus; Campbell, Peter; Swanton, Charles

    2014-10-10

    Spatial and temporal dissection of the genomic changes occurring during the evolution of human non-small cell lung cancer (NSCLC) may help elucidate the basis for its dismal prognosis. We sequenced 25 spatially distinct regions from seven operable NSCLCs and found evidence of branched evolution, with driver mutations arising before and after subclonal diversification. There was pronounced intratumor heterogeneity in copy number alterations, translocations, and mutations associated with APOBEC cytidine deaminase activity. Despite maintained carcinogen exposure, tumors from smokers showed a relative decrease in smoking-related mutations over time, accompanied by an increase in APOBEC-associated mutations. In tumors from former smokers, genome-doubling occurred within a smoking-signature context before subclonal diversification, which suggested that a long period of tumor latency had preceded clinical detection. The regionally separated driver mutations, coupled with the relentless and heterogeneous nature of the genome instability processes, are likely to confound treatment success in NSCLC. Copyright © 2014, American Association for the Advancement of Science.

  16. Genetic diversity of Cryptosporidium identified in clinical samples from cities in Brazil and Argentina

    Directory of Open Access Journals (Sweden)

    Regina Helena Saramago Peralta

    2016-01-01

    Full Text Available The identification and characterisation of Cryptosporidiumgenotypes and subtypes are fundamental to the study of cryptosporidiosis epidemiology, aiding in prevention and control strategies. The objective was to determine the genetic diversity ofCryptosporidium in samples obtained from hospitals of Rio de Janeiro, Brazil, and Buenos Aires, Argentina. Samples were analysed by microscopy and TaqMan polymerase chain reaction (PCR assays forCryptosporidium detection, genotyped by nested-PCR-restriction fragment length polymorphism (RFLP analysis of the 18S rRNA gene and subtyped by DNA sequencing of the gp60 gene. Among the 89 samples from Rio de Janeiro, Cryptosporidium spp were detected in 26 by microscopy/TaqMan PCR. In samples from Buenos Aires,Cryptosporidium was diagnosed in 15 patients of the 132 studied. The TaqMan PCR and the nested-PCR-RFLP detected Cryptosporidium parvum, Cryptosporidium hominis, and co-infections of both species. In Brazilian samples, the subtypes IbA10G2 and IIcA5G3 were observed. The subtypes found in Argentinean samples were IbA10G2, IaA10G1R4, IaA11G1R4, and IeA11G3T3, and mixed subtypes of Ia and IIa families were detected in the co-infections. C. hominis was the species more frequently detected, and subtype family Ib was reported in both countries. Subtype diversity was higher in Buenos Aires than in Rio de Janeiro and two new subtypes were described for the first time.

  17. The Impact of Attachment Style on Sexual Satisfaction and Sexual Desire in a Sexually Diverse Sample.

    Science.gov (United States)

    Mark, Kristen P; Patrick, Laura M; Murray, Sarah H

    2017-11-22

    Research has indicated that adult romantic attachment is influential and important to sexual and relationship satisfaction. Sexual desire, although not a direct focus of attachment literature, is highly related to sexual and relationship satisfaction, suggesting it may also be impacted by attachment style in romantic couples. However, the research conducted on sexual desire, sexual satisfaction, and attachment has been largely heterocentric, making it difficult to determine whether the findings documented in the literature thus far are relevant in a sexually diverse group of individuals. The current study aimed to better understand the way that attachment style may impact sexual desire, sexual satisfaction, and relationship satisfaction in a sample of sexually diverse men and women. In total, 955 individuals (63.4% cis-gender women, 30.7% cis-gender men, 6.0% genderqueer; 54.8% straight, 20.4% bisexual, 18.4% gay) participated in a web-based study examining relationship dynamics. In three multivariate regression models indicated that attachment style significantly predicted relationship satisfaction (29% of variance accounted for), sexual satisfaction (19% of variance accounted for), and sexual desire (4% of variance accounted for). Attachment style appears to be a more important contributing factor to satisfaction than desire amongst diverse sexual orientations. Clinical implications and future directions are discussed.

  18. Variabilidad espacial y temporal de la abundancia y diversidad de la comunidad de peces en la costa de Campeche, México Spatial and temporal variability of fish community abundance and diversity off the coast of Campeche, Mexico

    Directory of Open Access Journals (Sweden)

    Luis Amado Ayala-Pérez

    2012-03-01

    temporal abundance and diversity patterns of the fish community are described and analyzed in this paper, and the ecologically dominant species are identified. Monthly sampling was carried out from February 2006 to January 2007, at 37 sites located between the mouth of the Grijalva-Usumacinta system to the mouth of the Chumpan-Balchacah system inside the Terminos Lagoon, in the state of Campeche, southern Gulf of Mexico. Using an experimental trawl net, 444 experimental hauls were done, and 26,386 individuals were caught with a joint weight of 407.1 kg. In total, 94 species were identified, grouped in 65 genera and 38 families. The abundance and diversity of the fish community was analyzed on spatial and temporal scales in terms of density (ind m², biomass (g m², average weight (g ind-1, diversity index (H'n, species richness (Dmg, and evenness (J'. The abundance was high in August and September at sites near the mouths of the Grijalva-Usumacinta and Palizada-Del Este systems. The most important species in terms of abundance was the catfish, Cathorops melanopus. The intervals of variation of the diversity range on a spatial scale were H'n = 0.5 to 2.8 bits; Dmg = 2.6 to 5.3 sp ind-1, and J' = 0.1 to 0.8 bits. On a temporal scale, the intervals were: H'n = 1.8 to 2.6 bits; Dmg = 5.1 to 6.7 sp ind-1, and J' = 0.4 to 0.6 bits. Nine dominant species were identified, with 16,840 individuals and a joint weight of 278.5 kg, equivalent to 63.8% of the total capture.

  19. Hydrological variables play a remarkable role in temporal dynamics of daily sampled diatom community in a German lowland river

    Science.gov (United States)

    Sun, Xiuming; Wu, Naicheng; Faber, Claas; Fohrer, Nicola

    2017-04-01

    Temporal dynamics of diatom community with relation to abiotic factors is an important part of water quality monitoring and water resource management. However, the contribution of hydrological variables to temporal diatom variation has been rarely reported, especially at a short-interval sampling scale. Based on daily riverine diatom samples over a 1-year period (25 April 2013 - 30 April 2014) at the outlet of a German lowland river, we aimed to examine the temporal variation patterns of diatom community and to compare the relative importance between chemical and hydrological variables of affecting the temporal diatom community variation. Among the 339 samples, a total of 113 diatom taxa from 45 genera were identified. Sampling dates with similar species composition and structure were classified into five clusters by a Kohonen Self-Organizing Map (SOM) method within Matlab software. These five groups were distinct with respect to species composition, density, richness, and indicator species, as well as environmental variables. Redundancy analysis (RDA) and variance partitioning techniques were used to explain the relationships between environmental variables and diatom community dynamics. For the whole dataset, chemical and hydrological variables could jointly explain 50.17% of the diatom community variation including chemical variables with 36.45% and hydrological variables with 12.89%. The most important chemical variables were Phosphate-Phosphorus (PO4-P) and Silicon (Si) concentrations, while the most significant hydrological variable was antecedent precipitation index (API), indicating the importance of nutrient and hydrological factor in shaping diatom structure. In general, the relative importance of chemical and hydrological factors to diatom communities varied among seasons (or SOM clusters). Partial RDAs revealed that 3.60%, 11.96%, 7.10%, 10.4% and 7.11% of diatom variation can be explained by hydrological variables from cluster 1 to 5, while 52.71%, 47

  20. Correlated Spatio-Temporal Data Collection in Wireless Sensor Networks Based on Low Rank Matrix Approximation and Optimized Node Sampling

    Directory of Open Access Journals (Sweden)

    Xinglin Piao

    2014-12-01

    Full Text Available The emerging low rank matrix approximation (LRMA method provides an energy efficient scheme for data collection in wireless sensor networks (WSNs by randomly sampling a subset of sensor nodes for data sensing. However, the existing LRMA based methods generally underutilize the spatial or temporal correlation of the sensing data, resulting in uneven energy consumption and thus shortening the network lifetime. In this paper, we propose a correlated spatio-temporal data collection method for WSNs based on LRMA. In the proposed method, both the temporal consistence and the spatial correlation of the sensing data are simultaneously integrated under a new LRMA model. Moreover, the network energy consumption issue is considered in the node sampling procedure. We use Gini index to measure both the spatial distribution of the selected nodes and the evenness of the network energy status, then formulate and resolve an optimization problem to achieve optimized node sampling. The proposed method is evaluated on both the simulated and real wireless networks and compared with state-of-the-art methods. The experimental results show the proposed method efficiently reduces the energy consumption of network and prolongs the network lifetime with high data recovery accuracy and good stability.

  1. Metagenomic analysis of viral diversity in respiratory samples from patients with respiratory tract infections in Kuwait.

    Science.gov (United States)

    Madi, Nada; Al-Nakib, Widad; Mustafa, Abu Salim; Habibi, Nazima

    2018-03-01

    A metagenomic approach based on target independent next-generation sequencing has become a known method for the detection of both known and novel viruses in clinical samples. This study aimed to use the metagenomic sequencing approach to characterize the viral diversity in respiratory samples from patients with respiratory tract infections. We have investigated 86 respiratory samples received from various hospitals in Kuwait between 2015 and 2016 for the diagnosis of respiratory tract infections. A metagenomic approach using the next-generation sequencer to characterize viruses was used. According to the metagenomic analysis, an average of 145, 019 reads were identified, and 2% of these reads were of viral origin. Also, metagenomic analysis of the viral sequences revealed many known respiratory viruses, which were detected in 30.2% of the clinical samples. Also, sequences of non-respiratory viruses were detected in 14% of the clinical samples, while sequences of non-human viruses were detected in 55.8% of the clinical samples. The average genome coverage of the viruses was 12% with the highest genome coverage of 99.2% for respiratory syncytial virus, and the lowest was 1% for torque teno midi virus 2. Our results showed 47.7% agreement between multiplex Real-Time PCR and metagenomics sequencing in the detection of respiratory viruses in the clinical samples. Though there are some difficulties in using this method to clinical samples such as specimen quality, these observations are indicative of the promising utility of the metagenomic sequencing approach for the identification of respiratory viruses in patients with respiratory tract infections. © 2017 Wiley Periodicals, Inc.

  2. A temporal assessment of nematode community structure and diversity in the rhizosphere of cisgenic Phytophthora infestans-resistant potatoes.

    Science.gov (United States)

    Ortiz, Vilma; Phelan, Sinead; Mullins, Ewen

    2016-12-01

    Nematodes play a key role in soil processes with alterations in the nematode community structure having the potential to considerably influence ecosystem functioning. As a result fluctuations in nematode diversity and/or community structure can be gauged as a 'barometer' of a soil's functional biodiversity. However, a deficit exists in regards to baseline knowledge and on the impact of specific GM crops on soil nematode populations and in particular in regard to the impact of GM potatoes on the diversity of nematode populations in the rhizosphere. The goal of this project was to begin to address this knowledge gap in regards to a GM potato line, cisgenically engineered for resistance to Phytophthora infestans (responsible organism of the Irish potato famine causing late blight disease). For this, a 3 year (2013, 2014, 2015) field experimental study was completed, containing two conventional genotypes (cvs. Desiree and Sarpo Mira) and a cisgenic genotype (cv. Desiree + Rpi-vnt1). Each potato genotype was treated with different disease management strategies (weekly chemical applications and corresponding no spray control). Hence affording the opportunity to investigate the temporal impact of potato genotype, disease management strategy (and their interaction) on the potato rhizosphere nematode community. Nematode structure and diversity were measured through established indices, accounts and taxonomy with factors recording a significant effect limited to the climatic conditions across the three seasons of the study and chemical applications associated with the selected disease management strategy. Based on the metrics studied, the cultivation of the cisgenic potato genotype exerted no significant effect (P > 0.05) on nematode community diversity or structure. The disease management treatments led to a reduction of specific trophic groups (e.g. Predacious c-p = 4), which of interest appeared to be counteracted by a potato genotype with vigorous growth phenotype

  3. Validation of the Sexual Orientation Microaggression Inventory in Two Diverse Samples of LGBTQ Youth.

    Science.gov (United States)

    Swann, Gregory; Minshew, Reese; Newcomb, Michael E; Mustanski, Brian

    2016-08-01

    Critical race theory asserts that microaggressions, or low-level, covert acts of aggression, are commonplace in the lives of people of color. These theorists also assert a taxonomy of microaggressions, which includes "microassaults," "microinsults," and "microinvalidations". The theory of microaggressions has been adopted by researchers of LGBTQ communities. This study investigated the three-factor taxonomy as it relates to a diverse sample of LGBTQ youth using the newly developed Sexual Orientation Microaggression Inventory (SOMI). Exploratory factor analysis was used to determine the number of factors that exist in SOMI in a sample of 206 LGBTQ-identifying youth. Follow up confirmatory factor analyses were conducted in order to compare single-factor, unrestricted four-factor, second-order, and bi-factor models in a separate sample of 363 young men who have sex with men. The best fitting model was used to predict victimization, depressive symptoms, and depression diagnosis in order to test validity. The best fitting model was a bi-factor model utilizing 19 of the original 26 items with a general factor and four specific factors representing anti-gay attitudes ("microinsults"), denial of homosexuality, heterosexism ("microinvalidations"), and societal disapproval ("microassaults"). Reliability analyses found that the majority of reliable variance was accounted for by the general factor. The general factor was a significant predictor of victimization and depressive symptoms, as well as unrelated to social desirability, suggesting convergent, criterion-related, and discriminant validity. SOMI emerged as a scale with evidence of validity for assessing exposure to microaggressions in a diverse sample of LGBTQ youth.

  4. Molecular investigation of the distribution, abundance and diversity of the genus Pseudoalteromonas in marine samples.

    Science.gov (United States)

    Skovhus, Torben L; Holmström, Carola; Kjelleberg, Staffan; Dahllöf, Ingela

    2007-08-01

    The genus Pseudoalteromonas has attracted interest because it has frequently been found in association with eukaryotic hosts, and because many Pseudoalteromonas species produce biologically active compounds. One distinct group of Pseudoalteromonas species is the antifouling subgroup containing Pseudoalteromonas tunicata and Ps. ulvae, which both produce extracellular compounds that inhibit growth and colonization by different marine organisms. PCR primers targeting the 16S rRNA gene of the genus Pseudoalteromonas and the antifouling subgroup were developed and applied in this study. Real-time quantitative PCR (qPCR) was applied to determine the relative bacterial abundance of the genus and the antifouling subgroup, and denaturing gradient gel electrophoresis (DGGE) was applied to study the diversity of the genus in 11 different types of marine samples from Danish coastal waters. The detection of Ps. tunicata that contain the antifouling subgroup was achieved through specific PCR amplification of the antibacterial protein gene (alpP). The Pseudoalteromonas species accounted for 1.6% of the total bacterial abundance across all samples. The Pseudoalteromonas diversity on the three unfouled marine organisms Ciona intestinalis, Ulva lactuca and Ulvaria fusca was found to be low, and Ps. tunicata was only detected on these three hosts, which all contain accessible cellulose polymers in their cell walls.

  5. Enhancing temporal cues to voice pitch in continuous interleaved sampling cochlear implants

    Science.gov (United States)

    Green, Tim; Faulkner, Andrew; Rosen, Stuart

    2004-10-01

    The limited spectral resolution of cochlear implant systems means that voice pitch perception depends on weak temporal envelope cues. Enhancement of such cues was investigated in implant users and in acoustic simulations. Subjects labeled the pitch movement of processed synthetic diphthongal glides. In standard processing, noise carriers (simulations) or pulse trains (implant users) were modulated by 400 Hz low-pass envelopes. In modified processing, carriers were modulated by two components: (1) Slow-rate (pitch cues. Though significant, advantages for modified processing were small, suggesting that the potential for developing strategies delivering enhanced pitch perception is limited. .

  6. Spatio-temporal optimization of sampling for bluetongue vectors (Culicoides) near grazing livestock

    DEFF Research Database (Denmark)

    Kirkeby, Carsten; Stockmarr, Anders; Bødker, Rene

    2013-01-01

    the distance between traps. We found that 18 traps were generally required to reach 90% probability of a true positive catch when sampling just one night. But when sampling over two nights the same probability level was obtained with just three traps per night. The results are useful for the design of vector...... traps to sample specimens from the Culicoides obsoletus species complex on a 14 hectare field during 16 nights in 2009. FINDINGS: The large number of traps and catch nights enabled us to simulate a series of samples consisting of different numbers of traps (1-15) on each night. We also varied the number...... of catch nights when simulating the sampling, and sampled with increasing minimum distances between traps. We used resampling to generate a distribution of different mean and median abundance in each sample. Finally, we used the hypergeometric distribution to estimate the probability of falsely detecting...

  7. Exploring Body Image, Contraceptive Use, and Sexual Health Outcomes Among an Ethnically Diverse Sample of Women.

    Science.gov (United States)

    Ramseyer Winter, Virginia; Ruhr, Lindsay; Pevehouse, Danielle; Pilgrim, Sarah

    2018-01-05

    This cross-sectional study examined the links between body appreciation, contraceptive use, and sexual health outcomes. Body appreciation has been shown to influence contraceptive use in homogenous samples of women. However, a common problem in body image literature is a lack of racial and ethnic diversity with regard to sample; this study was able to take steps toward overcoming that limitation. A sample of 499 women aged 18-56 (M = 26.24; SD = 6.15) was recruited via Reddit.com-White (29.3%, n = 120), Asian (19%, n = 78), Black (17.3%, n = 73), multiracial (13.9%, n = 57), and Latina (13.9%, n = 57). Covariates included race/ethnicity, body size as measured by body mass index, relationship status, age, sexual orientation, and education level. Results indicated that higher levels of body appreciation were related to a higher likelihood of using non-barrier contraception. Regarding the covariates, race, relationship status, age, and education were related to non-barrier contraceptive use and age was related to dual contraceptive use. Further exploration is needed to determine how body appreciation may affect contraceptive use and sexual health outcomes and how these differ by race/ethnicity.

  8. Forgiveness, depression, and suicidal behavior among a diverse sample of college students.

    Science.gov (United States)

    Hirsch, Jameson K; Webb, Jon R; Jeglic, Elizabeth L

    2011-09-01

    Depression and suicide are significant public health concerns for college-age young adults. Meaning-based characteristics, such as forgiveness, a voluntary coping process involving offering, feeling, or seeking a change from negative to positive cognitions, behaviors, and affect toward a transgressor, may buffer such poor mental health outcomes. Utilizing mediation analyses, we examined cross-sectional associations between forgiveness, depression, and suicidal behavior in a diverse student sample reporting mild to severe depressive symptoms. The effect of self-forgiveness on suicidal behavior was fully mediated by depression; self-forgiveness was associated with depression and, in turn, with suicidal behavior. Forgiveness of others was directly associated with suicidal behavior. Prospective research is needed, yet self and other-forgiveness may be appropriate targets for promotion in suicide prevention efforts. © 2011 Wiley Periodicals, Inc.

  9. Diversity of microorganisms isolated from the soil sample surround Chroogomphus rutilus in the Beijing region

    DEFF Research Database (Denmark)

    Wang, P; Liu, Y; Yin, Y

    2011-01-01

    to isolate and classify beneficial microorganisms that could affect its growth, which could be used in future research on artificial cultivation. In total, 342 isolates were isolated from soil samples collected around a C. rutilus colony in the Beijing region. Of these, 22 bacterial and 14 fungal isolates......Artificially cultivating Chroogomphus rutilus is too inefficient to be commercially feasible. Furthermore, isolating C. rutilus mycelia in the wild is difficult. Thus, it is important to de-termine the natural habitat of its fruiting body. This study focused on the ecology of the C. rutilus habitat....... Using internal transcribed spacer (ITS) sequence analysis, fungal isolates were divided into four monophyletic clusters: Penicillium, Trichoderma, Mortierella, and Bionectria. Moreover, the phylogenetic diversity of these isolates was analysed. The results indicated that numerous microorganisms were...

  10. Type II Supernova Spectral Diversity. I. Observations, Sample Characterization, and Spectral Line Evolution

    Science.gov (United States)

    Gutiérrez, Claudia P.; Anderson, Joseph P.; Hamuy, Mario; Morrell, Nidia; González-Gaitan, Santiago; Stritzinger, Maximilian D.; Phillips, Mark M.; Galbany, Lluis; Folatelli, Gastón; Dessart, Luc; Contreras, Carlos; Della Valle, Massimo; Freedman, Wendy L.; Hsiao, Eric Y.; Krisciunas, Kevin; Madore, Barry F.; Maza, José; Suntzeff, Nicholas B.; Prieto, Jose Luis; González, Luis; Cappellaro, Enrico; Navarrete, Mauricio; Pizzella, Alessandro; Ruiz, Maria T.; Smith, R. Chris; Turatto, Massimo

    2017-11-01

    We present 888 visual-wavelength spectra of 122 nearby type II supernovae (SNe II) obtained between 1986 and 2009, and ranging between 3 and 363 days post-explosion. In this first paper, we outline our observations and data reduction techniques, together with a characterization based on the spectral diversity of SNe II. A statistical analysis of the spectral matching technique is discussed as an alternative to nondetection constraints for estimating SN explosion epochs. The time evolution of spectral lines is presented and analyzed in terms of how this differs for SNe of different photometric, spectral, and environmental properties: velocities, pseudo-equivalent widths, decline rates, magnitudes, time durations, and environment metallicity. Our sample displays a large range in ejecta expansion velocities, from ˜9600 to ˜1500 km s-1 at 50 days post-explosion with a median {{{H}}}α value of 7300 km s-1. This is most likely explained through differing explosion energies. Significant diversity is also observed in the absolute strength of spectral lines, characterized through their pseudo-equivalent widths. This implies significant diversity in both temperature evolution (linked to progenitor radius) and progenitor metallicity between different SNe II. Around 60% of our sample shows an extra absorption component on the blue side of the {{{H}}}α P-Cygni profile (“Cachito” feature) between 7 and 120 days since explosion. Studying the nature of Cachito, we conclude that these features at early times (before ˜35 days) are associated with Si II λ 6355, while past the middle of the plateau phase they are related to high velocity (HV) features of hydrogen lines. This paper includes data gathered with the 6.5 m Magellan Telescopes located at Las Campanas Observatory, Chile; and the Gemini Observatory, Cerro Pachon, Chile (Gemini Program GS-2008B-Q-56). Based on observations collected at the European Organisation for Astronomical Research in the Southern Hemisphere

  11. Linking genetic diversity and temporal fluctuations in population abundance of the introduced feral cat (Felis silvestris catus) on the Kerguelen archipelago.

    Science.gov (United States)

    Devillard, S; Santin-Janin, H; Say, L; Pontier, D

    2011-12-01

    Linking temporal variations of genetic diversity, including allelic richness and heterozygosity, and spatio-temporal fluctuations in population abundance has emerged as an important tool for understanding demographic and evolutionary processes in natural populations. This so-called genetic monitoring was conducted across 12 consecutive years (1996-2007) at three sites for the feral cat, introduced onto the Kerguelen archipelago fifty years ago. Temporal changes in allelic richness and heterozygosity at 18 microsatellite DNA loci were compared with temporal changes in the adult population abundance index, obtained by typical demographic monitoring. No association was found at the island spatial scale, but we observed an association between genetic diversity and adult population indices from year to year within each study site. More particularly, the magnitude of successive increases or decreases in the adult population abundance index appeared to be the major factor linking the trajectories of genetic diversity and adult population abundance indices. Natal dispersal and/or local recruitment, both facilitated by high juvenile survival when the adult population size is small, is proposed as the major demographic processes contributing to such an observed pattern. Finally, we suggested avoiding the use of the harmonic mean as an estimator of long-term population size to study the relationships between demographic fluctuations and heterozygosity in populations characterized by strong multiannual density fluctuations. © 2011 Blackwell Publishing Ltd.

  12. The Influence of temporal sampling regime on the WFD classification of catchments within the Eden Demonstration Test Catchment Project

    Science.gov (United States)

    Jonczyk, Jennine; Haygarth, Phil; Quinn, Paul; Reaney, Sim

    2014-05-01

    A high temporal resolution data set from the Eden Demonstration Test Catchment (DTC) project is used to investigate the processes causing pollution and the influence of temporal sampling regime on the WFD classification of three catchments. This data highlights WFD standards may not be fit for purpose. The Eden DTC project is part of a UK government-funded project designed to provide robust evidence regarding how diffuse pollution can be cost-effectively controlled to improve and maintain water quality in rural river catchments. The impact of multiple water quality parameters on ecosystems and sustainable food production are being studied at the catchment scale. Three focus catchments approximately 10 km2 each, have been selected to represent the different farming practices and geophysical characteristics across the Eden catchment, Northern England. A field experimental programme has been designed to monitor the dynamics of agricultural diffuse pollution at multiple scales using state of the art sensors providing continuous real time data. The data set, which includes Total Phosphorus and Total Reactive Phosphorus, Nitrate, Ammonium, pH, Conductivity, Turbidity and Chlorophyll a reveals the frequency and duration of nutrient concentration target exceedance which arises from the prevalence of storm events of increasing magnitude. This data set is sub-sampled at different time intervals to explore how different sampling regimes affects our understanding of nutrient dynamics and the ramification of the different regimes to WFD chemical status. This presentation seeks to identify an optimum temporal resolution of data for effective catchment management and to question the usefulness of the WFD status metric for determining health of a system. Criteria based on high frequency short duration events needs to be accounted for.

  13. Fronto-temporal dysregulation in remitted bipolar patients: an fMRI delayed-non-match-to-sample (DNMS) study

    Science.gov (United States)

    Robinson, Jennifer L; Bearden, Carrie E; Monkul, E Serap; Tordesillas-Gutiérrez, Diana; Velligan, Dawn I; Frangou, Sophia; Glahn, David C

    2014-01-01

    Objectives Bipolar disorder is associated with working memory (WM) impairments that persist during periods of symptomatic remission. However, the neural underpinnings of these deficits are not well understood. Methods Fifteen clinically remitted bipolar patients and 15 demographically matched healthy controls underwent functional magnetic resonance imaging while performing a novel delayed-non-match-to-sample (DNMS) task. This nonverbal DNMS task involves two conditions, one requiring the organization of existing memory traces (‘familiarity’), and one involving the formation of new memory traces (‘novelty’). These processes are thought to differentially engage the prefrontal cortex and medial temporal lobe, respectively. Results Although behavioral performance did not differ between groups, bipolar patients and controls exhibited significantly different patterns of neural activity during task performance. Patients showed relative hyperactivation in the right prefrontal gyrus and relative hypoactivation in visual processing regions compared to healthy subjects across both task conditions. During the novelty condition, patients showed a pattern of hypoactivation relative to controls in medial temporal regions, with relative hyperactivation in the anterior cingulate. Conclusions These findings suggest that disruption in fronto-temporal neural circuitry may underlie memory difficulties frequently observed in patients with bipolar disorder. PMID:19500088

  14. Epidemiology of mixed martial arts and youth violence in an ethnically diverse sample.

    Science.gov (United States)

    Hishinuma, Earl S; Umemoto, Karen N; Nguyen, Toan Gia; Chang, Janice Y; Bautista, Randy Paul M

    2012-01-01

    Mixed martial arts' (MMAs) growing international popularity has rekindled the discussion on the advantages (e.g., exercise) and disadvantages (e.g., possible injury) of contact sports. This study was the first of its kind to examine the psychosocial aspects of MMA and youth violence using an epidemiologic approach with an Asian American and Pacific Islander (AAPI) adolescent sample (N = 881). The results were consistent with the increased popularity of MMA with 52% (adolescent males = 73%, adolescent females = 39%) enjoying watching MMA and 24% (adolescent males = 39%, adolescent females = 13%) practicing professional fight moves with friends. Although statistically significant ethnic differences were found for the two MMA items on a bivariate level, these findings were not statistically significant when considering other variables in the model. The bivariate results revealed a cluster of risk-protective factors. Regarding the multiple regression findings, although enjoying watching MMA remained associated with positive attitudes toward violence and practicing fight moves remained associated with negative out-group orientation, the MMA items were not associated with unique variances of youth violence perpetration and victimization. Implications included the need for further research that includes other diverse samples, more comprehensive and objective MMA and violence measures, and observational and intervention longitudinal studies.

  15. Bacterial Composition and Diversity in Breast Milk Samples from Mothers Living in Taiwan and Mainland China

    Directory of Open Access Journals (Sweden)

    Shiao-Wen Li

    2017-05-01

    Full Text Available Human breast milk is widely recognized as the best source of nutrients for healthy growth and development of infants; it contains a diverse microbiota. Here, we characterized the diversity of the microbiota in the breast milk of East Asian women and assessed whether delivery mode influenced the microbiota in the milk of healthy breast-feeding mothers. We profiled the microbiota in breast milk samples collected from 133 healthy mothers in Taiwan and in six regions of mainland China (Central, East, North, Northeast, South, and Southwest China by using 16S rRNA pyrosequencing. Lactation stage (months postpartum when the milk sample was collected and maternal body mass index did not influence the breast milk microbiota. Bacterial composition at the family level differed significantly among samples from the seven geographical regions. The five most predominant bacterial families were Streptococcaceae (mean relative abundance: 24.4%, Pseudomonadaceae (14.0%, Staphylococcaceae (12.2%, Lactobacillaceae (6.2%, and Oxalobacteraceae (4.8%. The microbial profiles were classified into three clusters, driven by Staphylococcaceae (abundance in Cluster 1: 42.1%, Streptococcaceae (Cluster 2: 48.5%, or Pseudomonadaceae (Cluster 3: 26.5%. Microbial network analysis at the genus level revealed that the abundances of the Gram-positive Staphylococcus, Streptococcus, and Rothia were negatively correlated with those of the Gram-negative Acinetobacter, Bacteroides, Halomonas, Herbaspirillum, and Pseudomonas. Milk from mothers who had undergone Caesarian section (C-section group had a significantly higher abundance of Lactobacillus (P < 0.05 and a higher number of unique unclassified operational taxonomic units (OTUs (P < 0.001 than that from mothers who had undergone vaginal delivery (vaginal group. These findings revealed that (i geographic differences in the microbial profiles were found in breast milk from mothers living in Taiwan and mainland China, (ii the

  16. Temporal variation in earthworm abundance and diversity along hedgerow-to-field transects in contrasting agricultural land uses

    Science.gov (United States)

    Prendergast-Miller, Miranda T.; Jones, David; Hodson, Mark E.

    2017-04-01

    Earthworms are regarded as ecosystem engineers, integral to soil processes such as aggregation, nutrient cycling, water infiltration, plant growth and microbial function. Earthworm surveys were conducted for one year on hedge-to-field transects in arable and pasture fields (Yorkshire, UK). The transects incorporated hedgerow and field margin habitats and extended 60 m into the arable or pasture field. At defined distances, earthworm abundance and biomass were recorded, and earthworms were identified to species and ecological group. Soil density, moisture and temperature were also measured. Additional transects were surveyed on experimental plots with arable-to-ley conversions in the arable fields (wheat crop to grass-clover ley), and tilled plots in the pasture fields (grass-clover ley to wheat crop). The conversion plots were established to determine the benefit of grass-clover leys on soil function; and the tilled pasture plots were established to compare the impact of conventional or minimum tillage practices on earthworm abundance and diversity. A baseline survey was conducted before establishment of the experimental ley and tillage plots. The results showed differences in earthworm abundance, with greater earthworm numbers in the pasture soils compared to arable soils. In both soils, abundance of ecological group was endogeic > epigeic > anecic, and each group was dominated by the same species: Allolobophora chlorotica, Lumbricus castaneus and Apporectodea longa. After one year of treatment, there was some indication of increased earthworm abundance in the arable-to-ley conversion strips. Conversely, tillage in the pasture plots tended to reduce earthworm abundance, and conventional tillage tended to have the greater impact. However, within these major changes, there was also evidence of spatial (distance along transect; field location) and temporal (seasonal) variation on earthworm abundance. Although conversion to ley or tillage did not alter the pattern of

  17. Estimates of marine debris accumulation on beaches are strongly affected by the temporal scale of sampling.

    Science.gov (United States)

    Smith, Stephen D A; Markic, Ana

    2013-01-01

    Marine debris is a global issue with impacts on marine organisms, ecological processes, aesthetics and economies. Consequently, there is increasing interest in quantifying the scale of the problem. Accumulation rates of debris on beaches have been advocated as a useful proxy for at-sea debris loads. However, here we show that past studies may have vastly underestimated the quantity of available debris because sampling was too infrequent. Our study of debris on a small beach in eastern Australia indicates that estimated daily accumulation rates decrease rapidly with increasing intervals between surveys, and the quantity of available debris is underestimated by 50% after only 3 days and by an order of magnitude after 1 month. As few past studies report sampling frequencies of less than a month, estimates of the scale of the marine debris problem need to be critically re-examined and scaled-up accordingly. These results reinforce similar, recent work advocating daily sampling as a standard approach for accurate quantification of available debris in coastal habitats. We outline an alternative approach whereby site-specific accumulation models are generated to correct bias when daily sampling is impractical.

  18. Temporal trends of young-of-year fishes in Lake Erie and comparison of diel sampling periods.

    Science.gov (United States)

    Stapanian, Martin A; Bur, Michael T; Adams, Jean V

    2007-06-01

    We explored temporal trends of young-of-year (YOY) fishes caught in bottom trawl hauls at an established offshore monitoring site in Lake Erie in fall during 1961-2001. Sampling was conducted during morning, afternoon, and night in each year. Catches per hour (CPH) of alewife (Alosa pseudoharengus) YOY were relatively low and exhibited no temporal trend. This result was consistent with the species' intolerance to Lake Erie's adverse winter water temperatures. Gizzard shad (Dorosoma cepedianum) YOY decreased sharply after 1991, which was consistent with recent oligotrophication of the lake. Following the establishment in 1979 and rapid increase of white perch (Morone americana) YOY, white bass (Morone chrysops) and freshwater drum (Aplodinotus grunniens) YOY decreased. Trout-perch (Percopsis omiscomaycus) YOY decreased during 1986-1991, but recovered to previous levels during 1991-2001. The recovery coincided with the resurgence of mayflies (Ephemoptera) in the lake. CPH of spottail shiner (Notropis hudsonius) and emerald shiner (N. atherinoides) YOY exhibited no temporal trend between 1961 and the late 1970s to early 1980s. CPH of yellow perch (Perca flavescens) YOY decreased during 1961-1988, and walleye (Sander vitreum) YOY increased overall during the time series. These observations were consistent with published studies of adults in the region. CPH of 4 of the 10 species of YOY considered were greatest during night. CPH for walleye YOY was higher in the morning than in the afternoon, but there was no significant difference between night and morning abundances. The results suggest that (1) CPH of YOY fishes may be a useful monitoring tool for Lake Erie, and (2) offshore monitoring programs that do not include night sampling periods may underestimate recruitment for several common species.

  19. How taxonomic diversity, community structure, and sample size determine the reliability of higher taxon surrogates.

    Science.gov (United States)

    Neeson, Thomas M; Van Rijn, Itai; Mandelik, Yael

    2013-07-01

    Ecologists and paleontologists often rely on higher taxon surrogates instead of complete inventories of biological diversity. Despite their intrinsic appeal, the performance of these surrogates has been markedly inconsistent across empirical studies, to the extent that there is no consensus on appropriate taxonomic resolution (i.e., whether genus- or family-level categories are more appropriate) or their overall usefulness. A framework linking the reliability of higher taxon surrogates to biogeographic setting would allow for the interpretation of previously published work and provide some needed guidance regarding the actual application of these surrogates in biodiversity assessments, conservation planning, and the interpretation of the fossil record. We developed a mathematical model to show how taxonomic diversity, community structure, and sampling effort together affect three measures of higher taxon performance: the correlation between species and higher taxon richness, the relative shapes and asymptotes of species and higher taxon accumulation curves, and the efficiency of higher taxa in a complementarity-based reserve-selection algorithm. In our model, higher taxon surrogates performed well in communities in which a few common species were most abundant, and less well in communities with many equally abundant species. Furthermore, higher taxon surrogates performed well when there was a small mean and variance in the number of species per higher taxa. We also show that empirically measured species-higher-taxon correlations can be partly spurious (i.e., a mathematical artifact), except when the species accumulation curve has reached an asymptote. This particular result is of considerable practical interest given the widespread use of rapid survey methods in biodiversity assessment and the application of higher taxon methods to taxa in which species accumulation curves rarely reach an asymptote, e.g., insects.

  20. Energy drink use, problem drinking and drinking motives in a diverse sample of Alaskan college students.

    Science.gov (United States)

    Skewes, Monica C; Decou, Christopher R; Gonzalez, Vivian M

    2013-01-01

    Recent research has identified the use of caffeinated energy drinks as a common, potentially risky behavior among college students that is linked to alcohol misuse and consequences. Research also suggests that energy drink consumption is related to other risky behaviors such as tobacco use, marijuana use and risky sexual activity. This research sought to examine the associations between frequency of energy drink consumption and problematic alcohol use, alcohol-related consequences, symptoms of alcohol dependence and drinking motives in an ethnically diverse sample of college students in Alaska. We also sought to examine whether ethnic group moderated these associations in the present sample of White, Alaska Native/American Indian and other ethnic minority college students. A paper-and-pencil self-report questionnaire was completed by a sample of 298 college students. Analysis of covariance (ANCOVA) was used to examine the effects of energy drink use, ethnic group and energy drink by ethnic group interactions on alcohol outcomes after controlling for variance attributed to gender, age and frequency of binge drinking. Greater energy drink consumption was significantly associated with greater hazardous drinking, alcohol consequences, alcohol dependence symptoms, drinking for enhancement motives and drinking to cope. There were no main effects of ethnic group, and there were no significant energy drink by ethnic group interactions. These findings replicate those of other studies examining the associations between energy drink use and alcohol problems, but contrary to previous research we did not find ethnic minority status to be protective. It is possible that energy drink consumption may serve as a marker for other health risk behaviors among students of various ethnic groups.

  1. Energy drink use, problem drinking and drinking motives in a diverse sample of Alaskan college students

    Directory of Open Access Journals (Sweden)

    Monica C. Skewes

    2013-08-01

    Full Text Available Background. Recent research has identified the use of caffeinated energy drinks as a common, potentially risky behaviour among college students that is linked to alcohol misuse and consequences. Research also suggests that energy drink consumption is related to other risky behaviours such as tobacco use, marijuana use and risky sexual activity. Objective. This research sought to examine the associations between frequency of energy drink consumption and problematic alcohol use, alcohol-related consequences, symptoms of alcohol dependence and drinking motives in an ethnically diverse sample of college students in Alaska. We also sought to examine whether ethnic group moderated these associations in the present sample of White, Alaska Native/American Indian and other ethnic minority college students. Design. A paper-and-pencil self-report questionnaire was completed by a sample of 298 college students. Analysis of covariance (ANCOVA was used to examine the effects of energy drink use, ethnic group and energy drink by ethnic group interactions on alcohol outcomes after controlling for variance attributed to gender, age and frequency of binge drinking. Results. Greater energy drink consumption was significantly associated with greater hazardous drinking, alcohol consequences, alcohol dependence symptoms, drinking for enhancement motives and drinking to cope. There were no main effects of ethnic group, and there were no significant energy drink by ethnic group interactions. Conclusion. These findings replicate those of other studies examining the associations between energy drink use and alcohol problems, but contrary to previous research we did not find ethnic minority status to be protective. It is possible that energy drink consumption may serve as a marker for other health risk behaviours among students of various ethnic groups.

  2. Detection of a diverse marine fish fauna using environmental DNA from seawater samples.

    Science.gov (United States)

    Thomsen, Philip Francis; Kielgast, Jos; Iversen, Lars Lønsmann; Møller, Peter Rask; Rasmussen, Morten; Willerslev, Eske

    2012-01-01

    Marine ecosystems worldwide are under threat with many fish species and populations suffering from human over-exploitation. This is greatly impacting global biodiversity, economy and human health. Intriguingly, marine fish are largely surveyed using selective and invasive methods, which are mostly limited to commercial species, and restricted to particular areas with favourable conditions. Furthermore, misidentification of species represents a major problem. Here, we investigate the potential of using metabarcoding of environmental DNA (eDNA) obtained directly from seawater samples to account for marine fish biodiversity. This eDNA approach has recently been used successfully in freshwater environments, but never in marine settings. We isolate eDNA from ½-litre seawater samples collected in a temperate marine ecosystem in Denmark. Using next-generation DNA sequencing of PCR amplicons, we obtain eDNA from 15 different fish species, including both important consumption species, as well as species rarely or never recorded by conventional monitoring. We also detect eDNA from a rare vagrant species in the area; European pilchard (Sardina pilchardus). Additionally, we detect four bird species. Records in national databases confirmed the occurrence of all detected species. To investigate the efficiency of the eDNA approach, we compared its performance with 9 methods conventionally used in marine fish surveys. Promisingly, eDNA covered the fish diversity better than or equal to any of the applied conventional methods. Our study demonstrates that even small samples of seawater contain eDNA from a wide range of local fish species. Finally, in order to examine the potential dispersal of eDNA in oceans, we performed an experiment addressing eDNA degradation in seawater, which shows that even small (100-bp) eDNA fragments degrades beyond detectability within days. Although further studies are needed to validate the eDNA approach in varying environmental conditions, our

  3. Ocular-following responses to white noise stimuli in humans reveal a novel nonlinearity that results from temporal sampling.

    Science.gov (United States)

    Sheliga, Boris M; Quaia, Christian; FitzGibbon, Edmond J; Cumming, Bruce G

    2016-01-01

    White noise stimuli are frequently used to study the visual processing of broadband images in the laboratory. A common goal is to describe how responses are derived from Fourier components in the image. We investigated this issue by recording the ocular-following responses (OFRs) to white noise stimuli in human subjects. For a given speed we compared OFRs to unfiltered white noise with those to noise filtered with band-pass filters and notch filters. Removing components with low spatial frequency (SF) reduced OFR magnitudes, and the SF associated with the greatest reduction matched the SF that produced the maximal response when presented alone. This reduction declined rapidly with SF, compatible with a winner-take-all operation. Removing higher SF components increased OFR magnitudes. For higher speeds this effect became larger and propagated toward lower SFs. All of these effects were quantitatively well described by a model that combined two factors: (a) an excitatory drive that reflected the OFRs to individual Fourier components and (b) a suppression by higher SF channels where the temporal sampling of the display led to flicker. This nonlinear interaction has an important practical implication: Even with high refresh rates (150 Hz), the temporal sampling introduced by visual displays has a significant impact on visual processing. For instance, we show that this distorts speed tuning curves, shifting the peak to lower speeds. Careful attention to spectral content, in the light of this nonlinearity, is necessary to minimize the resulting artifact when using white noise patterns undergoing apparent motion.

  4. Impact of spatially constrained sampling of temporal contact networks on the evaluation of the epidemic risk

    CERN Document Server

    Vestergaard, Christian L; Génois, Mathieu; Poletto, Chiara; Colizza, Vittoria; Barrat, Alain

    2016-01-01

    The ability to directly record human face-to-face interactions increasingly enables the development of detailed data-driven models for the spread of directly transmitted infectious diseases at the scale of individuals. Complete coverage of the contacts occurring in a population is however generally unattainable, due for instance to limited participation rates or experimental constraints in spatial coverage. Here, we study the impact of spatially constrained sampling on our ability to estimate the epidemic risk in a population using such detailed data-driven models. The epidemic risk is quantified by the epidemic threshold of the susceptible-infectious-recovered-susceptible model for the propagation of communicable diseases, i.e. the critical value of disease transmissibility above which the disease turns endemic. We verify for both synthetic and empirical data of human interactions that the use of incomplete data sets due to spatial sampling leads to the underestimation of the epidemic risk. The bias is howev...

  5. Frequency, Antimicrobial Resistance and Genetic Diversity of Klebsiella pneumoniae in Food Samples.

    Directory of Open Access Journals (Sweden)

    Yumei Guo

    Full Text Available This study aimed to assess the frequency of Klebsiella pneumoniae in food samples and to detect antibiotic resistance phenotypes, antimicrobial resistance genes and the molecular subtypes of the recovered isolates. A total of 998 food samples were collected, and 99 (9.9% K. pneumoniae strains were isolated; the frequencies were 8.2% (4/49 in fresh raw seafood, 13.8% (26/188 in fresh raw chicken, 11.4% (34/297 in frozen raw food and 7.5% (35/464 in cooked food samples. Antimicrobial resistance was observed against 16 antimicrobials. The highest resistance rate was observed for ampicillin (92.3%, followed by tetracycline (31.3%, trimethoprim-sulfamethoxazole (18.2%, and chloramphenicol (10.1%. Two K. pneumoniae strains were identified as extended-spectrum β-lactamase (ESBL-one strain had three beta-lactamases genes (blaSHV, blaCTX-M-1, and blaCTX-M-10 and one had only the blaSHV gene. Nineteen multidrug-resistant (MDR strains were detected; the percentage of MDR strains in fresh raw chicken samples was significantly higher than in other sample types (P<0.05. Six of the 18 trimethoprim-sulfamethoxazole-resistant strains carried the folate pathway inhibitor gene (dhfr. Four isolates were screened by PCR for quinolone resistance genes; aac(6'-Ib-cr, qnrB, qnrA and qnrS were detected. In addition, gyrA gene mutations such as T247A (Ser83Ile, C248T (Ser83Phe, and A260C (Asp87Ala and a parC C240T (Ser80Ile mutation were identified. Five isolates were screened for aminoglycosides resistance genes; aacA4, aacC2, and aadA1 were detected. Pulsed-field gel electrophoresis-based subtyping identified 91 different patterns. Our results indicate that food, especially fresh raw chicken, is a reservoir of antimicrobial-resistant K. pneumoniae, and the potential health risks posed by such strains should not be underestimated. Our results demonstrated high prevalence, antibiotic resistance rate and genetic diversity of K. pneumoniae in food in China. Improved

  6. Single blood-Hg samples can result in exposure misclassification: temporal monitoring within the Japanese community (United States

    Directory of Open Access Journals (Sweden)

    Tsuchiya Ami

    2012-06-01

    Full Text Available Abstract Background The most prominent non-occupational source of exposure to methylmercury is the consumption of fish. In this study we examine a fish consuming population to determine the extent of temporal exposure and investigate the extent to which single time estimates of methylmercury exposure based on blood-Hg concentration can provide reliable estimates of longer-term average exposure. Methods Blood-mercury levels were obtained from a portion of the Arsenic Mercury Intake Biometric Study (AMIBS cohort. Specifically, 56 Japanese women residing in the Puget Sound area of Washington State, US were sampled on three occasions across a one-year period. Results An average of 135 days separated samples, with mean blood-mercury levels for the visits being 5.1, 6.6 and 5.0 μg/l and geometric means being 2.7, 4.5 and 3.1 μg/l. The blood-mercury levels in this group exceed national averages with geometric means for two of the visits being between the 90th and 95th percentiles of nationally observed levels and the lowest geometric mean being between the 75th and 90th percentile. Group means were not significantly different across sampling periods suggesting that exposure of combined subjects remained relatively constant. Comparing intra-individual results over time did not reveal a strong correlation among visits (r = 0.19, 0.50, 0.63 between 1st and 2nd, 2nd and 3rd, and 1st and 3rd sample results, respectively. In comparing blood-mercury levels across two sampling interval combinations (1st and 2nd, 2nd and 3rd, and 1st and 3rd visits, respectively, 58% (n = 34, 53% (n = 31 and 29% (n = 17 of the individuals had at least a 100% difference in blood-Hg levels. Conclusions Point estimates of blood-mercury, when compared with three sample averages, may not reflect temporal variability and individual exposures estimated on the basis of single blood samples should be treated with caution as indicators of long-term exposure

  7. Molecular epidemiology of oyster-related human noroviruses and their global genetic diversity and temporal-geographical distribution from 1983 to 2014.

    Science.gov (United States)

    Yu, Yongxin; Cai, Hui; Hu, Linghao; Lei, Rongwei; Pan, Yingjie; Yan, Shuling; Wang, Yongjie

    2015-11-01

    Noroviruses (NoVs) are a leading cause of epidemic and sporadic cases of acute gastroenteritis worldwide. Oysters are well recognized as the main vectors of environmentally transmitted NoVs, and disease outbreaks linked to oyster consumption have been commonly observed. Here, to quantify the genetic diversity, temporal distribution, and circulation of oyster-related NoVs on a global scale, 1,077 oyster-related NoV sequences deposited from 1983 to 2014 were downloaded from both NCBI GenBank and the NoroNet outbreak database and were then screened for quality control. A total of 665 sequences with reliable information were obtained and were subsequently subjected to genotyping and phylogenetic analyses. The results indicated that the majority of oyster-related NoV sequences were obtained from coastal countries and regions and that the numbers of sequences in these regions were unevenly distributed. Moreover, >80% of human NoV genotypes were detected in oyster samples or oyster-related outbreaks. A higher proportion of genogroup I (GI) (34%) was observed for oyster-related sequences than for non-oyster-related outbreaks, where GII strains dominated with an overwhelming majority of >90%, indicating that the prevalences of GI and GII are different in humans and oysters. In addition, a related convergence of the circulation trend was found between oyster-related NoV sequences and human pandemic outbreaks. This suggests that oysters not only act as a vector of NoV through environmental transmission but also serve as an important reservoir of human NoVs. These results highlight the importance of oysters in the persistence and transmission of human NoVs in the environment and have important implications for the surveillance of human NoVs in oyster samples. Copyright © 2015, American Society for Microbiology. All Rights Reserved.

  8. Randomized Controlled Trial of Attention Bias Modification in a Racially Diverse, Socially Anxious, Alcohol Dependent Sample

    Science.gov (United States)

    Clerkin, Elise M.; Magee, Joshua C.; Wells, Tony T.; Beard, Courtney; Barnett, Nancy P.

    2016-01-01

    Objective Attention biases may be an important treatment target for both alcohol dependence and social anxiety. This is the first ABM trial to investigate two (vs. one) targets of attention bias within a sample with co-occurring symptoms of social anxiety and alcohol dependence. Additionally, we used trial-level bias scores (TL-BS) to capture the phenomena of attention bias in a more ecologically valid, dynamic way compared to traditional attention bias scores. Method Adult participants (N=86; 41% Female; 52% African American; 40% White) with elevated social anxiety symptoms and alcohol dependence were randomly assigned to an 8-session training condition in this 2 (Social Anxiety ABM vs. Social Anxiety Control) by 2 (Alcohol ABM vs. Alcohol Control) design. Symptoms of social anxiety, alcohol dependence, and attention bias were assessed across time. Results Multilevel models estimated the trajectories for each measure within individuals, and tested whether these trajectories differed according to the randomized training conditions. Across time, there were significant or trending decreases in all attention TL-BS parameters (but not traditional attention bias scores) and most symptom measures. However, there were not significant differences in the trajectories of change between any ABM and control conditions for any symptom measures. Conclusions These findings add to previous evidence questioning the robustness of ABM and point to the need to extend the effects of ABM to samples that are racially diverse and/or have co-occurring psychopathology. The results also illustrate the potential importance of calculating trial-level attention bias scores rather than only including traditional bias scores. PMID:27591918

  9. Perceptions of care coordination in a population-based sample of diverse breast cancer patients.

    Science.gov (United States)

    Hawley, Sarah T; Janz, Nancy K; Lillie, Sarah E; Friese, Christopher R; Griggs, Jennifer J; Graff, John J; Hamilton, Ann S; Jain, Sarika; Katz, Steven J

    2010-12-01

    To identify factors associated with perceptions of care coordination in a diverse sample of breast cancer patients. Breast cancer patients reported to the metropolitan SEER registries of Detroit or Los Angeles from 6/05 to 2/07 were surveyed after diagnosis (N=2268, RR=72.4%). Outcomes were two dichotomous measures reflecting patient appraisal of care coordination during their treatment experience. Primary independent variables were race/ethnicity (white, African American, Latina-high acculturated, Latina-low acculturated) and health literacy (low, moderate, high). Logistic regression was used to evaluate factors associated with both measures of care coordination. 2148 subjects were included in the analytic dataset. 16.4% of women perceived low care coordination and 12.5% reported low satisfaction. Race/ethnicity was not significantly associated with care coordination. Women with low subjective health literacy were 3-4 times as likely as those with high health literacy to perceive low care coordination and low satisfaction with care coordination (OR=3.88; 95% CI: 2.78-5.41; OR=3.19 95% CI: 2.25-4.52, respectively). Many breast cancer patients positively appraised their care coordination, but patients with low health literacy perceived low care coordination. Providers should be aware of the health literacy deficits that may contribute to their patients' attitudes towards their breast cancer care coordination. Published by Elsevier Ireland Ltd.

  10. Renin gene haplotype diversity and linkage disequilibrium in two Mexican and one German population samples.

    Science.gov (United States)

    Valdez-Velazquez, Laura L; Mendoza-Carrera, Francisco; Perez-Parra, Sandra A; Rodarte-Hurtado, Katia; Sandoval-Ramirez, Lucila; Montoya-Fuentes, Héctor; Quintero-Ramos, Antonio; Delgado-Enciso, Ivan; Montes-Galindo, Daniel A; Gomez-Sandoval, Zeferino; Olivares, Norma; Rivas, Fernando

    2011-09-01

    Renin is the main rate-limiting enzyme in the renin-angiotensin-aldosterone system. Its gene, REN, is a candidate crucial factor in essential hypertension and cardiovascular disease. The aim of this study was to evaluate allele and haplotype distributions of REN polymorphisms, and to estimate normalised linkage disequilibrium (D') in Mexican and German populations. Four groups were studied for the REN single nucleotide polymorphisms (SNPs) 1205C>T, 1303G>A, and 10607G>A, in population samples of Mexican Mestizo (n = 86), Mexican Huichol (n = 49), German (n = 39), and individuals with hypertension diagnosis (n = 66). Polymorphisms were detected by PCR-RFLP. Genotype, allele and haplotype frequencies were estimated. SNP 1205C>T and 10607G>A allele and genotype distribution showed inter-group differences. The 1205T and 10607A allele showed a significance difference in hypertensive population. Haplotype analysis also showed some inter-group differences, especially in 1205C-1303G-10607G, 1205C-1303G-10607A and 1205T-1303G-10607G haplotypes. The segregation analysis disclosed complete linkage disequilibrium between 1205 and 1303 loci. These results provide an example of genetic diversity in related populations and illustrate the convenience of increasing the number of loci in associative studies between diseases and candidate genes.

  11. Diversity of microorganisms isolated from the soil sample surround Chroogomphus rutilus in the Beijing region.

    Science.gov (United States)

    Wang, Peng; Liu, Yu; Yin, Yonggang; Jin, Haojie; Wang, Shouxian; Xu, Feng; Zhao, Shuang; Geng, Xiaoli

    2011-03-02

    Artificially cultivating Chroogomphus rutilus is too inefficient to be commercially feasible. Furthermore, isolating C. rutilus mycelia in the wild is difficult. Thus, it is important to determine the natural habitat of its fruiting body. This study focused on the ecology of the C. rutilus habitat to isolate and classify beneficial microorganisms that could affect its growth, which could be used in future research on artificial cultivation. In total, 342 isolates were isolated from soil samples collected around a C. rutilus colony in the Beijing region. Of these, 22 bacterial and 14 fungal isolates were selected for sequencing and phylogenetic analysis, based on their growth characteristics and colony morphology. Using 16S rRNA gene sequence analysis, the bacterial isolates were divided into two monophyletic clusters which had significant hits to the genera Bacillus and Pseudomonas, respectively. Using internal transcribed spacer (ITS) sequence analysis, fungal isolates were divided into four monophyletic clusters: Penicillium, Trichoderma, Mortierella, and Bionectria. Moreover, the phylogenetic diversity of these isolates was analysed. The results indicated that numerous microorganisms were present in C. rutilus habitat. This was the first reported examination of the microbiological ecology of C. rutilus.

  12. Precuneus proportions and cortical folding: A morphometric evaluation on a racially diverse human sample.

    Science.gov (United States)

    Bruner, Emiliano; Pereira-Pedro, Ana Sofia; Chen, Xu; Rilling, James K

    2017-05-01

    Recent analyses have suggested that the size and proportions of the precuneus are remarkably variable among adult humans, representing a major source of geometrical difference in midsagittal brain morphology. The same area also represents the main midsagittal brain difference between humans and chimpanzees, being more expanded in our species. Enlargement of the upper parietal surface is a specific feature of Homo sapiens, when compared with other fossil hominids, suggesting the involvement of these cortical areas in recent modern human evolution. Here, we provide a survey on midsagittal brain morphology by investigating whether precuneus size represents the largest component of variance within a larger and racially diverse sample of 265 adult humans. Additionally, we investigate the relationship between precuneus shape variation and folding patterns. Precuneus proportions are confirmed to be a major source of human brain variation even when racial variability is considered. Larger precuneus size is associated with additional precuneal gyri, generally in its anterior district. Spatial variation is most pronounced in the dorsal areas, with no apparent differences between hemispheres, between sexes, or among different racial groups. These dorsal areas integrate somatic and visual information together with the lateral elements of the parietal cortex, representing a crucial node for self-centered mental imagery. The histological basis and functional significance of this intra-specific variation in the upper precuneus remains to be evaluated. Copyright © 2017 Elsevier GmbH. All rights reserved.

  13. Prevalence and genetic diversity of Aichi virus strains in stool samples from community and hospitalized patients.

    Science.gov (United States)

    Ambert-Balay, K; Lorrot, M; Bon, F; Giraudon, H; Kaplon, J; Wolfer, M; Lebon, P; Gendrel, D; Pothier, P

    2008-04-01

    Aichi virus has been proposed as a causative agent of gastroenteritis. A total of 457 stool specimens from children hospitalized with acute diarrhea and 566 stool specimens from adults and children involved in 110 gastroenteritis outbreaks were screened for the presence of Aichi virus by reverse transcription-PCR (RT-PCR) amplification of the genomic region of the 3C and 3D (3CD) nonstructural proteins. Our results show a low incidence of Aichi virus in pediatric samples and the existence of mixed infections with other microbiological agents in some cases. From the outbreak survey, it appears that the presence of Aichi virus is an indicator of mixed infections causing gastroenteritis outbreaks and that it could be involved in half of the oyster-associated outbreaks. A second RT-PCR was developed to amplify a part of the VP1 gene. The phylogenetic analysis showed a good correlation between the two classifications based on 3CD and VP1 gene sequences and revealed the prevalence of genotype A in France. It also allowed us to partially describe an Aichi virus strain that could represent a new genotype, thus suggesting the existence of a certain diversity.

  14. Analysis of Regularly and Irregularly Sampled Spatial, Multivariate, and Multi-temporal Data

    DEFF Research Database (Denmark)

    Nielsen, Allan Aasbjerg

    1994-01-01

    This thesis describes different methods that are useful in the analysis of multivariate data. Some methods focus on spatial data (sampled regularly or irregularly), others focus on multitemporal data or data from multiple sources. The thesis covers selected and not all aspects of relevant data...... maximize the variance represented by each component, MAFs maximize the spatial autocorrelation represented by each component, and MNFs maximize a measure of signal-to-noise ratio represented by each component. In the literature MAF/MNF analysis is described for regularly gridded data only. Here...... filtering of MAF/MNFs is suggested. One case study successfully shows the effect of the MNF Fourier restoration. Another case shows the superiority of the MAF/MNF analysis over ordinary non-spatial factor analysis of geochemical data in South Greenland (with a geologist's comment). Also, two examples of MAF...

  15. Compensating for population sampling in simulations of epidemic spread on temporal contact networks

    CERN Document Server

    Génois, Mathieu; Cattuto, Ciro; Barrat, Alain

    2015-01-01

    Data describing human interactions often suffer from incomplete sampling of the underlying population. As a consequence, the study of contagion processes using data-driven models can lead to a severe underestimation of the epidemic risk. Here we present a systematic method to correct this bias and obtain an accurate estimation of the risk in the context of epidemic models informed by high-resolution time-resolved contact data. We consider several such data sets collected in various contexts and perform controlled resampling experiments. We show that the statistical information contained in the resampled data allows us to build surrogate versions of the unknown contacts and that simulations of epidemic processes using these surrogate data sets yield good estimates of the outcome of simulations performed using the complete data set. We discuss limitations and potential improvements of our method.

  16. Spatial and temporal trends of contaminants in mussel sampled around the Icelandic coastline

    Energy Technology Data Exchange (ETDEWEB)

    Sturludottir, Erla, E-mail: erlas@matis.is [Science Institute, University of Iceland, Taeknigardur, Dunhagi 5, 107 Reykjavik (Iceland); Matís ltd., Vínlandsleið 12, 113 Reykjavík (Iceland); Gunnlaugsdottir, Helga; Jorundsdottir, Hronn O. [Matís ltd., Vínlandsleið 12, 113 Reykjavík (Iceland); Magnusdottir, Elin V.; Olafsdottir, Kristin [Dept. Pharmacol. Toxicol, University of Iceland, Hofsvallagata 53, 107 Reykjavík (Iceland); Stefansson, Gunnar [Science Institute, University of Iceland, Taeknigardur, Dunhagi 5, 107 Reykjavik (Iceland)

    2013-06-01

    Contaminants have been determined in blue mussels (Mytilus edulis) at 11 locations around the Icelandic coastline from 1990 to 2010. The aim of the present study was to investigate if there has been a change in concentration of contaminants around the Icelandic coastline for the last two decades and if the concentrations and changes, if present, were consistent between locations. Concentrations of the persistent organic pollutants, p,p′-dichlorodiphenyldichloroethene (p,p′-DDE), hexachlorobenzene (HCB), α-hexachlorocyclohexane (α-HCH), polychlorinated biphenyl (PCB-153) and trans-nonachlor, have decreased at most of the sampling locations in Iceland in recent years. However, an increasing trend was found at a few locations that could be explained by anthropogenic activity. The concentration levels of the persistent organics were much lower than found at the Norwegian, USA and Chinese coasts, especially levels of p,p′-DDE. The concentration of copper and selenium had a consistent pattern of change and concentration between locations over the period which showed a decreasing trend in recent years. The trace elements arsenic, cadmium, mercury and zinc showed more variation in concentration between locations, the concentration of arsenic, mercury and zinc was fairly stable over the period, whereas there were fluctuations in cadmium concentrations. The concentrations of cadmium and zinc were observed to be somewhat higher than found in mussels from Norway, USA and China but values of mercury and lead were much lower in the mussel sampled in Iceland. The higher concentrations of cadmium and zinc can be explained by the volcanic activity in Iceland but no major anthropogenic sources of trace elements are known in Iceland. - Highlights: • Contaminants have been determined in blue mussels around Iceland for 20 years. • Concentrations of POPs have decreased at most locations in recent years. • Concentrations of trace metals were fairly stable except for cadmium

  17. Optimal protein extraction methods from diverse sample types for protein profiling by using Two-Dimensional Electrophoresis (2DE).

    Science.gov (United States)

    Tan, A A; Azman, S N; Abdul Rani, N R; Kua, B C; Sasidharan, S; Kiew, L V; Othman, N; Noordin, R; Chen, Y

    2011-12-01

    There is a great diversity of protein samples types and origins, therefore the optimal procedure for each sample type must be determined empirically. In order to obtain a reproducible and complete sample presentation which view as many proteins as possible on the desired 2DE gel, it is critical to perform additional sample preparation steps to improve the quality of the final results, yet without selectively losing the proteins. To address this, we developed a general method that is suitable for diverse sample types based on phenolchloroform extraction method (represented by TRI reagent). This method was found to yield good results when used to analyze human breast cancer cell line (MCF-7), Vibrio cholerae, Cryptocaryon irritans cyst and liver abscess fat tissue. These types represent cell line, bacteria, parasite cyst and pus respectively. For each type of samples, several attempts were made to methodically compare protein isolation methods using TRI-reagent Kit, EasyBlue Kit, PRO-PREP™ Protein Extraction Solution and lysis buffer. The most useful protocol allows the extraction and separation of a wide diversity of protein samples that is reproducible among repeated experiments. Our results demonstrated that the modified TRI-reagent Kit had the highest protein yield as well as the greatest number of total proteins spots count for all type of samples. Distinctive differences in spot patterns were also observed in the 2DE gel of different extraction methods used for each type of sample.

  18. Genetic diversity and structure found in samples of Eritrean bread wheat

    DEFF Research Database (Denmark)

    Desta, Zeratsion Abera; Orabi, Jihad; Jahoor, Ahmed

    2014-01-01

    Genetic diversity and structure plays a key role in the selection of parents for crosses in plant breeding programmes. The aim of the present study was to analyse the genetic diversity and structure of Eritrean bread wheat accessions. We analysed 284 wheat accessions from Eritrea using 30 simple...... major groups. This is the first report of the genetic diversity and structure of Eritrean bread wheat....

  19. Reduced temporal sampling effect on accuracy of time-domain fluorescence lifetime Förster resonance energy transfer.

    Science.gov (United States)

    Omer, Travis; Zhao, Lingling; Intes, Xavier; Hahn, Juergen

    2014-08-01

    Fluorescence lifetime imaging (FLIM) aims at quantifying the exponential decay rate of fluorophores to yield lifetime maps over the imaged sample. When combined with Förster resonance energy transfer (FRET), the technique can be used to indirectly sense interactions at the nanoscale such as protein–protein interactions, protein–DNA interactions, and protein conformational changes. In the case of FLIM-FRET, the fluorescence intensity decays are fitted to a biexponential model in order to estimate the lifetime and fractional amplitude coefficients of each component of the population of the donor fluorophore (quenched and nonquenched). Numerous time data points, also called temporal or time gates, are typically employed for accurately estimating the model parameters, leading to lengthy acquisition times and significant computational demands. This work investigates the effect of the number and location of time gates on model parameter estimation accuracy. A detailed model of a FLIM-FRET imaging system is used for the investigation, and the simulation outcomes are validated with in vitro and in vivo experimental data. In all cases investigated, it is found that 10 equally spaced time gates allow robust estimation of model-based parameters with accuracy similar to that of full temporal datasets (90 gates).

  20. Detection of a diverse marine fish fauna using environmental DNA from seawater samples.

    Directory of Open Access Journals (Sweden)

    Philip Francis Thomsen

    Full Text Available Marine ecosystems worldwide are under threat with many fish species and populations suffering from human over-exploitation. This is greatly impacting global biodiversity, economy and human health. Intriguingly, marine fish are largely surveyed using selective and invasive methods, which are mostly limited to commercial species, and restricted to particular areas with favourable conditions. Furthermore, misidentification of species represents a major problem. Here, we investigate the potential of using metabarcoding of environmental DNA (eDNA obtained directly from seawater samples to account for marine fish biodiversity. This eDNA approach has recently been used successfully in freshwater environments, but never in marine settings. We isolate eDNA from ½-litre seawater samples collected in a temperate marine ecosystem in Denmark. Using next-generation DNA sequencing of PCR amplicons, we obtain eDNA from 15 different fish species, including both important consumption species, as well as species rarely or never recorded by conventional monitoring. We also detect eDNA from a rare vagrant species in the area; European pilchard (Sardina pilchardus. Additionally, we detect four bird species. Records in national databases confirmed the occurrence of all detected species. To investigate the efficiency of the eDNA approach, we compared its performance with 9 methods conventionally used in marine fish surveys. Promisingly, eDNA covered the fish diversity better than or equal to any of the applied conventional methods. Our study demonstrates that even small samples of seawater contain eDNA from a wide range of local fish species. Finally, in order to examine the potential dispersal of eDNA in oceans, we performed an experiment addressing eDNA degradation in seawater, which shows that even small (100-bp eDNA fragments degrades beyond detectability within days. Although further studies are needed to validate the eDNA approach in varying environmental

  1. Characterizing the temporal dynamics of human papillomavirus DNA detectability using short-interval sampling.

    Science.gov (United States)

    Liu, Su-Hsun; Cummings, Derek A T; Zenilman, Jonathan M; Gravitt, Patti E; Brotman, Rebecca M

    2014-01-01

    Variable detection of human papillomavirus (HPV) DNA can result in misclassification of infection status, but the extent of misclassification has not been quantitatively evaluated. In 2005-2007, 33 women of ages 22 to 53 years self-collected vaginal swabs twice per week for 16 consecutive weeks. Each of the 955 swabs collected was tested for 37 HPV types/subtypes. Assuming that a woman's underlying infection status did not change over the short study period, biases in prevalence estimates obtained from single versus multiple swabs were calculated. Using event history analysis methods, time to recurrent gain and loss of at least one HPV type was determined, separately. Baseline any-type and high risk-type HPV prevalence was 60.6% and 24.2%, respectively. Cumulative any-HPV and high-risk HPV prevalence over the 16-week period was 84.8% and 60.6%, separately. Overall, there were 319 events of detection and 313 events of loss of detection. Median times to a recurrent detection and loss of detection were 11 and seven days, respectively. Neither vaginal sex nor condom use during follow-up was associated with recurrent viral detection or loss of detection. Assuming the cumulative 16-week prevalence reflects the true prevalence of infection, the baseline any-HPV prevalence underestimated infection status by 24.2%, with a bootstrapped mean of 20.2% [95% confidence interval (CI), 8.9%-29.6%]. These findings suggest that a substantial proportion of HPV-infected women are misclassified as being uninfected when using a single-time DNA measurement. Short-term variation in detectable HPV DNA needs to be considered while interpreting the natural history of infections using single samples collected at long intervals.

  2. Enabling synthesis of spatially and temporally diverse data collected from environmental sensors within the Long Term Ecological Research Network

    Science.gov (United States)

    Vande Castle, J. R.; Servilla, M. S.; San Gil, I.; Michener, B. K.; Waide, R. B.; Scuderi, L. A.

    2006-12-01

    The Network Office (LNO) of the 26 site Long Term Ecological Research Network (LTER) is involved in the design and implementation of cyberinfrastructure (CI) that will support and enable synthesis of spatially and temporally diverse sets of environmental sensor data. Funded by the NSF, the LTER and LNO are driven to provide a methodology and a CI that enables researchers, and ultimately society, to share and exploit integrated current and historical observations from sensor data representing twenty-five years of environmental observatory experience for purposes of projecting trends and patterns that will provide knowledge about the our changing ecosystems. An example of this includes the "Biophony Grid Portal", which provides researchers direct access to environmental acoustic data. This project involves aggregation of streaming acoustic data from field microphones sent by Internet to a staging server at Michigan State University. Metadata for the acoustic files are stored at the LNO for discovery and access purposes using the LTER Metacat, a metadata catalog and Internet accessible data repository. An application portal developed with the National Center for Supercomputer Applications (NCSA) integrate these data for analysis and synthesis using high-performance computers located at NCSA. Collaborations with the USGS National Biological Information Infrastructure (NBII) disseminates such information by sharing metadata standards and content within the NBII clearinghouse system a channel to the broader research community. Working with the NBII, the LTER Network has adopted the Ecological Metadata Language (EML) for data documentation. Conforming to FGDC standards, EML supports discovery of these data through both the LTER Metacat and the NBII data search capabilities developed by the Oak Ridge National Laboratory Distributed Active Archive Center (ORNL DAAC) for Biogeochemical Dynamics. The (LNO) maintains a rich archive of historical remote sensing data, documented

  3. Variation in spatial and temporal incidence of the crustacean pathogen Hematodinium perezi in environmental samples from Atlantic Coastal Bays.

    Science.gov (United States)

    Hanif, Ammar W; Dyson, Whitney D; Bowers, Holly A; Pitula, Joseph S; Messick, Gretchen A; Jagus, Rosemary; Schott, Eric J

    2013-05-04

    Hematodinium perezi, a parasitic dinoflagellate, infects and kills blue crabs, Callinectes sapidus, along the Atlantic and Gulf coasts of the United States. The parasite proliferates within host hemolymph and tissues, and also produces free-swimming biflagellated dinospores that emerge from infected crabs. Infections in C. sapidus recur annually, and it is not known if biotic or environmental reservoirs contribute to reinfection and outbreaks. To address this data gap, a quantitative PCR assay based on the internal transcribed spacer 2 (ITS2) region of H. perezi rRNA genes was developed to asses the temporal and spatial incidence of the parasite in Delaware and Maryland coastal bays. A previously-used PCR assay for H. perezi, based on the small subunit rRNA gene sequence, was found to lack adequate species specificity to discriminate non-Hematodinium sp. dinoflagellate species in environmental samples. A new ITS2-targeted assay was developed and validated to detect H. perezi DNA in sediment and water samples using E. coli carrying the H. perezi rDNA genes. Application of the method to environmental samples identified potential hotspots in sediment in Indian River Inlet, DE and Chincoteague Bay, MD and VA. H. perezi DNA was not detected in co-occurring shrimp or snails, even during an outbreak of the parasite in C. sapidus. H. perezi is present in water and sediment samples in Maryland and Delaware coastal bays from April through November with a wide spatial and temporal variability in incidence. Sampling sites with high levels of H. perezi DNA in both bays share characteristics of silty, organic sediments and low tidal currents. The environmental detection of H. perezi in spring, ahead of peak prevalence in crabs, points to gaps in our understanding of the parasite's life history prior to infection in crabs as well as the mode of environmental transmission. To better understand the H. perezi life cycle will require further monitoring of the parasite in habitats as

  4. Automated on-line liquid–liquid extraction system for temporal mass spectrometric analysis of dynamic samples

    Energy Technology Data Exchange (ETDEWEB)

    Hsieh, Kai-Ta; Liu, Pei-Han [Department of Applied Chemistry, National Chiao Tung University, 1001 University Rd, Hsinchu, 300, Taiwan (China); Urban, Pawel L. [Department of Applied Chemistry, National Chiao Tung University, 1001 University Rd, Hsinchu, 300, Taiwan (China); Institute of Molecular Science, National Chiao Tung University, 1001 University Rd, Hsinchu, 300, Taiwan (China)

    2015-09-24

    Most real samples cannot directly be infused to mass spectrometers because they could contaminate delicate parts of ion source and guides, or cause ion suppression. Conventional sample preparation procedures limit temporal resolution of analysis. We have developed an automated liquid–liquid extraction system that enables unsupervised repetitive treatment of dynamic samples and instantaneous analysis by mass spectrometry (MS). It incorporates inexpensive open-source microcontroller boards (Arduino and Netduino) to guide the extraction and analysis process. Duration of every extraction cycle is 17 min. The system enables monitoring of dynamic processes over many hours. The extracts are automatically transferred to the ion source incorporating a Venturi pump. Operation of the device has been characterized (repeatability, RSD = 15%, n = 20; concentration range for ibuprofen, 0.053–2.000 mM; LOD for ibuprofen, ∼0.005 mM; including extraction and detection). To exemplify its usefulness in real-world applications, we implemented this device in chemical profiling of pharmaceutical formulation dissolution process. Temporal dissolution profiles of commercial ibuprofen and acetaminophen tablets were recorded during 10 h. The extraction-MS datasets were fitted with exponential functions to characterize the rates of release of the main and auxiliary ingredients (e.g. ibuprofen, k = 0.43 ± 0.01 h{sup −1}). The electronic control unit of this system interacts with the operator via touch screen, internet, voice, and short text messages sent to the mobile phone, which is helpful when launching long-term (e.g. overnight) measurements. Due to these interactive features, the platform brings the concept of the Internet-of-Things (IoT) to the chemistry laboratory environment. - Highlights: • Mass spectrometric analysis normally requires sample preparation. • Liquid–liquid extraction can isolate analytes from complex matrices. • The proposed system automates

  5. Temporal Sampling of White Band Disease Infected Corals Reveals Complex and Dynamic Bacterial Communities

    Science.gov (United States)

    Gignoux-Wolfsohn, S.; Vollmer, S. V.; Aronson, F. M.

    2016-02-01

    White band disease (WBD) is a coral disease that is currently decimating populations of the endangered staghorn coral, Acropora cervicornis and elkhorn coral, A. palmata across the Caribbean. Since it was first reported in 1979, WBD has killed 95% of these critical reef-building Caribbean corals. WBD is infectious; it can be transmitted through the water column or by a corallivorous snail. While previous research shows that WBD is likely caused by bacteria, identification of a specific pathogen or pathogens has remained elusive. Much of the difficulty of understanding the etiology of the disease comes from a lack of information about how existing bacterial communities respond to disease and separating initial from secondary colonizers. In order to address this lack of information, we performed a fully-crossed tank infection experiment. We exposed healthy corals from two different sites to disease and healthy (control) homogenates from both sites, replicating genotype across tanks. We sampled every coral at three time points: before inoculation with the homogenate, after inoculation, and when the coral showed signs of disease. We then performed 16S rRNA gene sequencing on the Illumina HiSeq 2000. We saw significant differences between time points and disease state. Interestingly, at the first time point (time one) we observed differences between genotypes: every fragment from some genotypes was dominated by Endozoicomonas, while other genotypes were not dominated by one family. At time two we saw an increase in abundance of Alteromonadaceae and Flavobacteriaceae in all corals, and a larger increase in disease-exposed corals. At time three, we saw another increase in Flavobacteriaceae abundance in diseased corals, as well as an introduction of Francisella to diseased corals. While Flavobacteriaceae and Francisella were proposed as potential pathogens, their increase at time three suggests they may be secondary colonizers or opportunists. In genotypes that were

  6. Point process models for spatio-temporal distance sampling data from a large-scale survey of blue whales

    KAUST Repository

    Yuan, Yuan

    2017-12-28

    Distance sampling is a widely used method for estimating wildlife population abundance. The fact that conventional distance sampling methods are partly design-based constrains the spatial resolution at which animal density can be estimated using these methods. Estimates are usually obtained at survey stratum level. For an endangered species such as the blue whale, it is desirable to estimate density and abundance at a finer spatial scale than stratum. Temporal variation in the spatial structure is also important. We formulate the process generating distance sampling data as a thinned spatial point process and propose model-based inference using a spatial log-Gaussian Cox process. The method adopts a flexible stochastic partial differential equation (SPDE) approach to model spatial structure in density that is not accounted for by explanatory variables, and integrated nested Laplace approximation (INLA) for Bayesian inference. It allows simultaneous fitting of detection and density models and permits prediction of density at an arbitrarily fine scale. We estimate blue whale density in the Eastern Tropical Pacific Ocean from thirteen shipboard surveys conducted over 22 years. We find that higher blue whale density is associated with colder sea surface temperatures in space, and although there is some positive association between density and mean annual temperature, our estimates are consistent with no trend in density across years. Our analysis also indicates that there is substantial spatially structured variation in density that is not explained by available covariates.

  7. Spatio-temporal variability of solid, total dissolved and labile metal: passive vs. discrete sampling evaluation in river metal monitoring.

    Science.gov (United States)

    Priadi, Cindy; Bourgeault, Adeline; Ayrault, Sophie; Gourlay-Francé, Catherine; Tusseau-Vuillemin, Marie-Hélène; Bonté, Philippe; Mouchel, Jean-Marie

    2011-05-01

    In order to obtain representative dissolved and solid samples from the aquatic environment, a spectrum of sampling methods are available, each one with different advantages and drawbacks. This article evaluates the use of discrete sampling and time-integrated sampling in illustrating medium-term spatial and temporal variation. Discrete concentration index (CI) calculated as the ratio between dissolved and solid metal concentrations in grab samples are compared with time-integrated concentration index (CI) calculated from suspended particulate matter (SPM) collected in sediment traps and labile metals measured by the diffusive gel in thin films (DGT) method, collected once a month during one year at the Seine River, upstream and downstream of the Greater Paris Region. Discrete CI at Bougival was found to be significantly higher than at Triel for Co, Cu, Mn, Ni and Zn, while discrete metal partitioning at Marnay was found to be similar to Bougival and Triel. However, when using time-integrated CI, not only was Bougival CI significantly higher than Triel CI, CI at Marnay was also found to be significantly higher than CI at Triel which was not observed for discrete CI values. Since values are time-averaged, dramatic fluctuations were smoothed out and significant medium-term trends were enhanced. As a result, time-integrated concentration index (CI) was able to better illustrate urbanization impact between sites when compared to discrete CI. The impact of significant seasonal phenomenon such as winter flood, low flow and redox cycles was also, to a certain extent, visible in time-integrated CI values at the upstream site. The use of time-integrated concentration index may be useful for medium- to long-term metal studies in the aquatic environment.

  8. Species diversity and persistence in restored and remnant tallgrass prairies of North America: a function of species' life history, habitat type, or sampling bias?

    Science.gov (United States)

    Summerville, Keith S

    2008-05-01

    1. The re-assembly of native animal communities in restored landscapes is a relatively unexplored phenomenon for many taxa. Specifically, ecologists lack the ability to generalize about how species traits, habitat size, habitat type (here, remnant prairie vs. restored grassland), and temporal variation interact to affect species diversity or species' persistence probabilities. 2. To investigate these relationships, moth communities from 10 prairie remnants and restorations were sampled over a 3-year interval and a combination of NMDS ordination, logistic regression, and repeated measures anova were used to test hypotheses regarding how life history variables and habitat characteristics determine the degree to which restored habitats develop a moth fauna similar to remnants. 3. Within sampling years, restored tallgrass prairies that were >or= 7 years old possessed lepidopteran species assemblages that were generally similar to those in prairie remnants. Community similarity, however, was driven by common moth species likely to also occur in the surrounding agricultural habitat. Species persistence was significantly influenced by a series of trait combinations identified using principal components analysis. Temporal variation independent of habitat type or patch size was the most significant determination of variation in species composition among sites. 4. These results suggest that lepidopteran persistence in restored landscapes is at least partially determined by species' life history attributes. The correlation between sampling year and species richness suggests that both weather effects on species voltinism and interannual differences in sampling bias may make it difficult for land managers to detect changes in species abundance following disturbance or habitat management. 5. Species may not necessarily possess specific life history traits that reduce extinction risk or enhance recolonization probabilities in the highly modified agricultural landscape of the

  9. Enhanced Spatial & Temporal Sampling of Air/Sea Interaction with the NASA CYGNSS MicroSat Constellation

    Science.gov (United States)

    Ruf, C. S.; Ridley, A. J.; O'Brien, A.; Johnson, J.; Yi, Y.

    2013-12-01

    The NASA Cyclone Global Navigation Satellite System (CYGNSS) is a new spaceborne mission to address the deficiencies with current tropical cyclone (TC) intensity forecasts related to inadequate observations and modeling of the inner core. The inadequacy results from two causes: 1) much of the inner core ocean surface is obscured from conventional remote sensing instruments by intense precipitation in the eye wall and inner rain bands; and 2) the rapidly evolving (genesis and intensification) stages of the TC life cycle are poorly sampled by conventional polar-orbiting imagers. CYGNSS is specifically designed to address these two limitations by combining the all-weather performance of GNSS-R bistatic ocean surface scatterometry with the enhanced sampling properties of a constellation of satellites. CYGNSS will provide surface wind measurements of the TC inner core that could not previously be measured from space. Mission simulations predict a median(mean) revisit time of 2(5) hours. The CYGNSS wind fields, when combined with as-frequent precipitation fields (e.g. produced by the upcoming Global Precipitation Measurement mission), will resolve the evolution of both the precipitation and underlying wind fields throughout the TC life cycle. They will provide near simultaneous and continuous observations and enable new insights into TC inner core dynamics and energetics. The use of a dense constellation of GNSS-R microsats results in spatial and temporal sampling properties that are markedly different from previous wide swath polar imagers. In particular, revisit times in the tropics are characterized by a probability distribution rather than a single, deterministic number of hours. The asymmetric shape of the probability distribution results in median revisit times that are less than half that of the mean, and mean revisit times that are less than half that of current polar orbiting imagers. CYGNSS is currently in Phase B project development. In parallel with the

  10. How does host ecology influence sampling effort in parasite diversity estimates? A case study using Neotropical freshwater fishes.

    Science.gov (United States)

    Yamada, Fábio Hideki; Takemoto, Ricardo Massato

    2017-06-01

    Accurately estimating biodiversity is fundamental to ecological understanding and prediction. Helminthes are often neglected in biodiversity estimates and when included are often underestimated. Here we examine how sampling effort affects estimates of parasite diversity in an assemblage of freshwater fish from a floodplain in Brazil. We also examine how ecological and behavioral factors influence the sampling effort necessary to accurately estimate the parasite diversity associated with a fish species. We use our dataset to suggest that host species with wide geographic distribution (i.e., long migrations), gregarious behavior (i.e., shoal), larger body size, higher population density, wide diet breadth (i.e., omnivorous), and autochthonous origin, increase the effort necessary to estimate the total diversity of parasites. However, estimating this parasitic fauna has several restrictions and limitations, due to the highly complex of the floodplain ecosystems, with non-linear and non-random responses.

  11. The effects of forest conversion to oil palm on ground-foraging ant communities depend on beta diversity and sampling grain.

    Science.gov (United States)

    Wang, Wendy Y; Foster, William A

    2015-08-01

    Beta diversity - the variation in species composition among spatially discrete communities - and sampling grain - the size of samples being compared - may alter our perspectives of diversity within and between landscapes before and after agricultural conversion. Such assumptions are usually based on point comparisons, which do not accurately capture actual differences in total diversity. Beta diversity is often not rigorously examined. We investigated the beta diversity of ground-foraging ant communities in fragmented oil palm and forest landscapes in Sabah, Malaysia, using diversity metrics transformed from Hill number equivalents to remove dependences on alpha diversity. We compared the beta diversities of oil palm and forest, across three hierarchically nested sampling grains. We found that oil palm and forest communities had a greater percentage of total shared species when larger samples were compared. Across all grains and disregarding relative abundances, there was higher beta diversity of all species among forest communities. However, there were higher beta diversities of common and very abundant (dominant) species in oil palm as compared to forests. Differences in beta diversities between oil palm and forest were greatest at the largest sampling grain. Larger sampling grains in oil palm may generate bigger species pools, increasing the probability of shared species with forest samples. Greater beta diversity of all species in forest may be attributed to rare species. Oil palm communities may be more heterogeneous in common and dominant species because of variable community assembly events. Rare and also common species are better captured at larger grains, boosting differences in beta diversity between larger samples of forest and oil palm communities. Although agricultural landscapes support a lower total diversity than natural forests, diversity especially of abundant species is still important for maintaining ecosystem stability. Diversity in

  12. Demonstration/Validation of Incremental Sampling at Two Diverse Military Ranges and Development of an Incremental Sampling Tool

    Science.gov (United States)

    2010-06-01

    characterize ten decision units $62,725 $39,500 $18,900 E2S2 - June 20102 2 –40National Defense Center for Energy and Environment Validation of EVC Soil...Stick • EVC Soil Stick used in Fort Lewis to collect eight replicate samples (0-2.5 cm depth) of 100 increments each • Same decision unit as...Energy and Environment Fort Lewis Live-Fire Laboratory Replicates NG Results Using EVC Tool (mg/kg) Sample Type Replicates Mean Std Dev % RSD 1 2 3

  13. The Effects of Dating Violence, Substance Use and Risky Sexual Behavior among a Diverse Sample of Illinois Youth

    Science.gov (United States)

    Alleyne, Binta; Coleman-Cowger, Victoria H.; Crown, Laurel; Gibbons, Maya A.; Vines, Linda N.

    2011-01-01

    This study examines the relationship between dating violence, forced sexual intercourse (FSI), and four measures of sexual risk taking (i.e., age at first sex, number of recent (within the last three months) sex partners, alcohol/drug use at last sex, and condom use at last sex) among a sample of 1124 ethnically diverse sexually active adolescents…

  14. Understanding Differences in College Persistence: A Longitudinal Examination of Financial Circumstances, Family Obligations, and Discrimination in an Ethnically Diverse Sample

    Science.gov (United States)

    Witkow, Melissa R.; Huynh, Virginia; Fuligni, Andrew J.

    2015-01-01

    Ethnic and generational differences in motivation and achievement have been well-established. However, minimal research has examined the role of social factors on educational outcomes among individuals from diverse backgrounds. With a longitudinal sample of 408 Latino, Asian, and European-American students, we examine family, discrimination, and…

  15. "Do You Trust Him?" Children's Trust Beliefs and Developmental Trajectories of Aggressive Behavior in an Ethnically Diverse Sample

    Science.gov (United States)

    Malti, Tina; Averdijk, Margit; Ribeaud, Denis; Rotenberg, Ken J.; Eisner, Manuel P.

    2013-01-01

    This study investigated the role of trust beliefs (i.e., trustworthiness, trustfulness) on aggression trajectories in a four-wave longitudinal study using an ethnically diverse sample of 8- to 11-year-old children (N = 1,028), as well as the risk profiles of low trust beliefs and low socioeconomic status on aggression trajectories. At Time 1 to…

  16. Impact of habitat diversity on the sampling effort required for the assessment of river fish communities and IBI

    NARCIS (Netherlands)

    Van Liefferinge, C.; Simoens, I.; Vogt, C.; Cox, T.J.S.; Breine, J.; Ercken, D.; Goethals, P.; Belpaire, C.; Meire, P.

    2010-01-01

    The spatial variation in the fish communities of four small Belgian rivers with variable habitat diversity was investigated by electric fishing to define the minimum sampling distance required for optimal fish stock assessment and determination of the Index of Biotic Integrity. This study shows that

  17. Feeding Practices and Styles Used by a Diverse Sample of Low-Income Parents of Preschool-age Children

    Science.gov (United States)

    Ventura, Alison K.; Gromis, Judy C.; Lohse, Barbara

    2010-01-01

    Objective: To describe the feeding practices and styles used by a diverse sample of low-income parents of preschool-age children. Design: Thirty- to 60-minute meetings involving a semistructured interview and 2 questionnaires administered by the interviewer. Setting: Low-income communities in Philadelphia, PA. Participants: Thirty-two parents of…

  18. Propionibacterium acnes: disease-causing agent or common contaminant? Detection in diverse patient samples by next generation sequencing

    DEFF Research Database (Denmark)

    Mollerup, Sarah; Friis-Nielsen, Jens; Vinner, Lasse

    2016-01-01

    Propionibacterium acnes is the most abundant bacterium on human skin, particularly in sebaceous areas. P. acnes is suggested to be an opportunistic pathogen involved in the development of diverse medical conditions, but is also a proven contaminant of human samples and surgical wounds. Its...... significance as a pathogen is consequently a matter of debate.In the present study we investigated the presence of P. acnes DNA in 250 next generation sequencing datasets generated from 180 samples of 20 different sample types, mostly of cancerous origin. The samples were either subjected to microbial...... enrichment, involving nuclease treatment to reduce the amount of host nucleic acids, or shotgun-sequenced.We detected high proportions of P. acnes in enriched samples, particularly skin derived and other tissue samples, with levels being higher in enriched compared to shotgun-sequenced samples. P. acnes...

  19. Propionibacterium acnes: disease-causing agent or common contaminant? Detection in diverse patient samples by next generation sequencing

    DEFF Research Database (Denmark)

    Mollerup, Sarah; Friis-Nielsen, Jens; Vinner, Lasse

    2016-01-01

    Propionibacterium acnes is the most abundant bacterium on human skin, particularly in sebaceous areas. P. acnes is suggested to be an opportunistic pathogen involved in the development of diverse medical conditions, but is also a proven contaminant of human samples and surgical wounds. Its...... significance as a pathogen is consequently a matter of debate.In the present study we investigated the presence of P. acnes DNA in 250 next generation sequencing datasets generated from 180 samples of 20 different sample types, mostly of cancerous origin. The samples were either subjected to microbial...... reads were detected in most samples analysed, though the proportions in most shotgun-sequenced samples were low.Our results show that P. acnes can be detected in practically all sample types when employing molecular methods such as next generation sequencing. The possibility of contamination from...

  20. Reductions in genetic diversity of Schistosoma mansoni populations under chemotherapeutic pressure: the effect of sampling approach and parasite population definition.

    Science.gov (United States)

    French, Michael D; Churcher, Thomas S; Basáñez, María-Gloria; Norton, Alice J; Lwambo, Nicholas J S; Webster, Joanne P

    2013-11-01

    Detecting potential changes in genetic diversity in schistosome populations following chemotherapy with praziquantel (PZQ) is crucial if we are to fully understand the impact of such chemotherapy with respect to the potential emergence of resistance and/or other evolutionary outcomes of interventions. Doing so by implementing effective, and cost-efficient sampling protocols will help to optimise time and financial resources, particularly relevant to a disease such as schistosomiasis currently reliant on a single available drug. Here we explore the effect on measures of parasite genetic diversity of applying various field sampling approaches, both in terms of the number of (human) hosts sampled and the number of transmission stages (miracidia) sampled per host for a Schistosoma mansoni population in Tanzania pre- and post-treatment with PZQ. In addition, we explore population structuring within and between hosts by comparing the estimates of genetic diversity obtained assuming a 'component population' approach with those using an 'infrapopulation' approach. We found that increasing the number of hosts sampled, rather than the number of miracidia per host, gives more robust estimates of genetic diversity. We also found statistically significant population structuring (using Wright's F-statistics) and significant differences in the measures of genetic diversity depending on the parasite population definition. The relative advantages, disadvantages and, hence, subsequent reliability of these metrics for parasites with complex life-cycles are discussed, both for the specific epidemiological and ecological scenario under study here and for their future application to other areas and schistosome species. Copyright © 2012 Elsevier B.V. All rights reserved.

  1. Fungi associated with chimney and sulfide samples from a South Mid-Atlantic Ridge hydrothermal site: Distribution, diversity and abundance

    Science.gov (United States)

    Xu, Wei; Guo, Shuangshuang; Pang, Ka-Lai; Luo, Zhu-Hua

    2017-05-01

    Deep-sea hydrothermal vent ecosystems are known to support remarkably diverse microbial communities, ranging from chemoautotrophic prokaryotes to heterotrophic prokaryotes and microeukaryotes. While fungi have generally been identified as an important component of various microbial communities in the environment, little is known about the species richness and abundance of such microorganisms in deep-sea hydrothermal vent ecosystems. In this study, a combined culture-dependent and culture-independent sequence-based approach was used to investigate fungal distribution and diversity at a deep-sea hydrothermal vent site located at the Mid-Atlantic Ridge of the South Atlantic Ocean. Sequence analyses showed that the fungal community was dominated by members of the Ascomycota and the Basidiomycota. Several new phylotypes (28 of 65 total fungal OTUs and 2 of 19 culturable fungal phylotypes) were identified, contributing to the literally unknown diversity of fungi in this understudied habitat. The fungal community structures in the chimney samples were distinct from those in three sulfide samples. The qPCR results revealed that fungal LSU rRNA gene copy numbers ranged from 5.88×105 to 6.77×106 copies/gram rock (wet weight), and the Ascomycota was significantly more abundant 2-3 orders) than the Basidiomycota. Our findings provide new insights into the diversity and abundance of fungi in deep-sea hydrothermal vent ecosystems, which increases our knowledge and understanding of the fungal diversity in deep-sea environments.

  2. Feasibility of recruiting a diverse sample of men who have sex with men: observation from Nanjing, China.

    Directory of Open Access Journals (Sweden)

    Weiming Tang

    Full Text Available Respondent-driven-sampling (RDS has well been recognized as a method for sampling from most hard-to-reach populations like commercial sex workers, drug users and men who have sex with men. However the feasibility of this sampling strategy in terms of recruiting a diverse spectrum of these hidden populations has not been understood well yet in developing countries.In a cross sectional study in Nanjing city of Jiangsu province of China, 430 MSM were recruited including 9 seeds in 14 weeks of study period using RDS. Information regarding socio-demographic characteristics and sexual risk behavior were collected and testing was done for HIV and syphilis. Duration, completion, participant characteristics and the equilibrium of key factors were used for assessing feasibility of RDS. Homophily of key variables, socio-demographic distribution and social network size were used as the indicators of diversity.In the study sample, adjusted HIV and syphilis prevalence were 6.6% and 14.6% respectively. Majority (96.3% of the participants were recruited by members of their own social network. Although there was a tendency for recruitment within the same self-identified group (homosexuals recruited 60.0% homosexuals, considerable cross-group recruitment (bisexuals recruited 52.3% homosexuals was also seen. Homophily of the self-identified sexual orientations was 0.111 for homosexuals. Upon completion of the recruitment process, participant characteristics and the equilibrium of key factors indicated that RDS was feasible for sampling MSM in Nanjing. Participants recruited by RDS were found to be diverse after assessing the homophily of key variables in successive waves of recruitment, the proportion of characteristics after reaching equilibrium and the social network size. The observed design effects were nearly the same or even better than the theoretical design effect of 2.RDS was found to be an efficient and feasible sampling method for recruiting a diverse

  3. Diversity of spore-forming bacteria in cattle manure, slaughterhouse waste and samples from biogas plants

    National Research Council Canada - National Science Library

    Bagge, E; Persson, M; Johansson, K-E

    2010-01-01

    .... In this study, the effect of the biogas process on Bacillus spp. and Clostridium spp. was investigated. We analysed 97 faecal samples, 20 slaughterhouse waste samples and 60 samples collected at different stages in the biogas process...

  4. Diversity and resilience of the wood-feeding higher termiteMironasutitermes shangchengensisgut microbiota in response to temporal and diet variations.

    Science.gov (United States)

    Wang, Ying; Su, Lijuan; Huang, Shi; Bo, Cunpei; Yang, Sen; Li, Yan; Wang, Fengqin; Xie, Hui; Xu, Jian; Song, Andong

    2016-11-01

    Termites are considered among the most efficient bioreactors, with high capacities for lignocellulose degradation and utilization. Recently, several studies have characterized the gut microbiota of diverse termites. However, the temporal dynamics of the gut microbiota within a given termite with dietary diversity are poorly understood. Here, we employed 16S rDNA barcoded pyrosequencing analysis to investigate temporal changes in bacterial diversity and richness of the gut microbiota of wood-feeding higher termite Mironasutitermes shangchengensis under three lignocellulose content-based diets that feature wood, corn stalks, and filter paper. Compositions of the predominant termite gut residents were largely constant among the gut microbiomes under different diets, but each diet caused specific changes in the bacterial composition over time. Notably, microbial communities exhibited an unexpectedly strong resilience during continuous feeding on both corn stalks and filter paper. Members of five bacterial phyla, that is, Spirochaetes, Firmicutes, Actinobacteria, Tenericutes, and Acidobacteria, were strongly associated with the resilience. These findings provide insights into the stability of the gut microbiota in higher termites and have important implications for the future design of robust bioreactors for lignocellulose degradation and utilization.

  5. Multiple health behaviors in an ethnically diverse sample of adults with risk factors for cardiovascular disease.

    Science.gov (United States)

    Heinrich, Katie M; Maddock, Jay

    2011-01-01

    Health behaviors of adults living with cardiovascular disease (CVD) risk factors affect additional risk, where lifestyle behavioral choices become even more important in controlling disease and preventing additional negative health outcomes. In addition, both lifestyle behaviors and CVD risk factor prevalence can vary by ethnicity. We compared multiple health behaviors of adults with diabetes, hypertension, high cholesterol, and obesity to the behaviors of adults without those conditions in a diverse ethnic sample to determine if significant differences existed between groups. Data were obtained from 30-minute random-digit-dial telephone surveys in 2007 (n = 3607). All data were self-reports. Healthy behaviors included meeting recommendations for intake of fruits and vegetables; consuming low or very low amounts of dietary fat; eating breakfast six or seven days per week; having a healthy diet; and meeting recommendations for walking, moderate, and vigorous physical activity. Unhealthy behaviors included frequent consumption of soda and fast food, smoking, binge drinking, and high stress. More than 6% of respondents had diabetes, 15.9% had hypertension, 16.4% had high cholesterol, and 18.5% were obese. Significantly fewer healthy and more unhealthy behaviors were reported for those who had CVD risk factors than were reported by those who did not have such conditions. Ethnic differences in CVD risk factor prevalence and health behaviors existed as well (p eating a healthy diet (odds ratio [OR] = 1.82) was a significant predictor for diabetes; not eating a healthy diet (OR = 1.52) and not doing vigorous physical activity (OR = 1.79) were significant predictors for hypertension; consumption of high amounts of dietary fat (OR = 1.70) and of fast food (OR = 1.51) were significant predictors for high cholesterol levels; and not eating a healthy diet (OR = 1.52), high consumption of dietary fat (OR = 2.20), not eating breakfast (OR = 1.33) and not performing vigorous

  6. Temporal variability of pyrethroid metabolite levels in bedtime, morning, and 24-h urine samples for 50 adults in North Carolina.

    Science.gov (United States)

    Morgan, Marsha K; Sobus, Jon R; Barr, Dana Boyd; Croghan, Carry W; Chen, Fu-Lin; Walker, Richard; Alston, Lillian; Andersen, Erik; Clifton, Matthew S

    2016-01-01

    Pyrethroid insecticides are widely used to control insects in both agricultural and residential settings worldwide. Few data are available on the temporal variability of pyrethroid metabolites in the urine of non-occupationally exposed adults. In this work, we describe the study design and sampling methodology for the Pilot Study to Estimate Human Exposures to Pyrethroids using an Exposure Reconstruction Approach (Ex-R study). Two major objectives were to quantify the concentrations of several pyrethroid metabolites in bedtime, first morning void (FMV), and 24-h urine samples as concentration (wet weight), specific-gravity (SG) corrected, creatinine (CR) corrected, and excretion rate values for 50 Ex-R adults over a six-week monitoring period and to determine if these correction approaches for urine dilution reduced the variability of the biomarker levels. The Ex-R study was conducted at the United States Environmental Protection Agency's Human Studies Facility in Chapel Hill, North Carolina USA and at participants' homes within a 40-mile radius of this facility. Recruitment of participants and field activities occurred between October 2009 and May 2011. Participants, ages 19-50 years old, provided daily food, activity, and pesticide-use diaries and collected their own urine samples (bedtime, FMV, and 24-h) during weeks 1, 2, and 6 of a six-week monitoring period. A total of 2503 urine samples were collected from the study participants. These samples were analyzed for the pyrethroid metabolites 3-phenoxybenzoic acid (3-PBA), cis/trans-3-(2,2-dichlorovinyl)-2,2-dimethyl-cyclopropane carboxylic acid (cis/trans-DCCA), and 2-methyl-3-phenylbenzoic acid (MPA) using high performance liquid chromatography/tandem mass spectrometry. Only 3-PBA was frequently detected (>50%) in the adult urine samples. Median urinary 3-PBA levels were 0.88 ng/mL, 0.96 ng/mL-SG, 1.04 ng/mg, and 1.04 ng/min for concentration, SG-corrected, CR-corrected, and excretion rate values, respectively

  7. Assessing genetic diversity of wild and hatchery samples of the Chinese sucker (Myxocyprinus asiaticus) by the mitochondrial DNA control region.

    Science.gov (United States)

    Wu, Jiayun; Wu, Bo; Hou, Feixia; Chen, Yongbai; Li, Chong; Song, Zhaobin

    2016-01-01

    To restore the natural populations of Chinese sucker (Myxocyprinus asiaticus), a hatchery release program has been underway for nearly 10 years. Using DNA sequences of the mitochondrial control region, we assessed the genetic diversity and genetic structure among samples collected from three sites of the wild population as well as from three hatcheries. The haplotype diversity of the wild samples (h = 0.899-0.975) was significantly higher than that of the hatchery ones (h = 0.296-0.666), but the nucleotide diversity was almost identical between them (π = 0.0170-0.0280). Relatively high gene flow was detected between the hatchery and wild samples. Analysis of effective population size indicated that M. asiaticus living in the Yangtze River has been expanding following a bottleneck in the recent past. Our results suggest the hatchery release programs for M. asiaticus have not reduced the genetic diversity, but have influenced the genetic structure of the species in the upper Yangtze River.

  8. Use of respondent driven sampling (RDS generates a very diverse sample of men who have sex with men (MSM in Buenos Aires, Argentina.

    Directory of Open Access Journals (Sweden)

    Alex Carballo-Diéguez

    Full Text Available Prior research focusing on men who have sex with men (MSM conducted in Buenos Aires, Argentina, used convenience samples that included mainly gay identified men. To increase MSM sample representativeness, we used Respondent Driven Sampling (RDS for the first time in Argentina. Using RDS, under certain specified conditions, the observed estimates for the percentage of the population with a specific trait are asymptotically unbiased. We describe, the diversity of the recruited sample, from the point of view of sexual orientation, and contrast the different subgroups in terms of their HIV sexual risk behavior.500 MSM were recruited using RDS. Behavioral data were collected through face-to-face interviews and Web-based CASI.In contrast with prior studies, RDS generated a very diverse sample of MSM from a sexual identity perspective. Only 24.5% of participants identified as gay; 36.2% identified as bisexual, 21.9% as heterosexual, and 17.4% were grouped as "other." Gay and non-gay identified MSM differed significantly in their sexual behavior, the former having higher numbers of partners, more frequent sexual contacts and less frequency of condom use. One third of the men (gay, 3%; bisexual, 34%, heterosexual, 51%; other, 49% reported having had sex with men, women and transvestites in the two months prior to the interview. This population requires further study and, potentially, HIV prevention strategies tailored to such diversity of partnerships. Our results highlight the potential effectiveness of using RDS to reach non-gay identified MSM. They also present lessons learned in the implementation of RDS to recruit MSM concerning both the importance and limitations of formative work, the need to tailor incentives to circumstances of the less affluent potential participants, the need to prevent masking, and the challenge of assessing network size.

  9. Microbial diversity in firework chemical exposed soil and water samples collected in Virudhunagar district, Tamil Nadu, India

    OpenAIRE

    Dhasarathan, P.; Theriappan, P.; Ashokraja, C.

    2009-01-01

    Microbial diversity of soil and water samples collected from pyrochemicals exposed areas of Virdhunagar district (Tamil Nadu, India) was studied. Soil and water samples from cultivable area, waste land and city area of the same region were also studied for a comparative acount. There is a remarkable reduction in total heterotrophic bacterial population (THB) in pyrochemicals exposed soil and water samples (42 × 104 CFU/g and 5.6 × 104 CFU/ml respectively), compared to the THB of cultivable ar...

  10. Genetic diversity of lake whitefish in lakes Michigan and Huron: sampling, standardization, and research priorities

    Science.gov (United States)

    Stott, Wendylee; VanDeHey, Justin A.; Sloss, Brian L.

    2010-01-01

    We combined data from two laboratories to increase the spatial extent of a genetic data set for lake whitefish Coregonus clupeaformis from lakes Huron and Michigan and saw that genetic diversity was greatest between lakes, but that there was also structuring within lakes. Low diversity among stocks may be a reflection of relatively recent colonization of the Great Lakes, but other factors such as recent population fluctuation and localized stresses such as lamprey predation or heavy exploitation may also have a homogenizing effect. Our data suggested that there is asymmetrical movement of lake whitefish between Lake Huron and Lake Michigan; more genotypes associated with Lake Michigan were observed in Lake Huron. Adding additional collections to the calibrated set will allow further examination of diversity in other Great Lakes, answer questions regarding movement among lakes, and estimate contributions of stocks to commercial yields. As the picture of genetic diversity and population structure of lake whitefish in the Great Lakes region emerges, we need to develop methods to combine data types to help identify important areas for biodiversity and thus conservation. Adding genetic data to existing models will increase the precision of predictions of the impacts of new stresses and changes in existing pressures on an ecologically and commercially important species.

  11. Molecular method to assess the diversity of Burkholderia species in environmental samples

    NARCIS (Netherlands)

    Salles, J.F.; De Souza, F.A.; Van Elsas, J.D.

    2002-01-01

    In spite of the importance of many members of the genus Burkholderia in the soil microbial community, no direct method to assess the diversity of this genus has been developed so far. The aim of this work was the development of soil DNA-based PCR-denaturing gradient get electrophoresis (DGGE), a

  12. Molecular method to assess the diversity of Burkholderia species in environmental samples

    NARCIS (Netherlands)

    Salles, J.; Souza, de F.A.; Elsas, van J.D.

    2002-01-01

    In spite of the importance of many members of the genus Burkholderia in the soil microbial community, no direct method to assess the diversity of this genus has been developed so far. The aim of this work was the development of soil DNA-based PCR-denaturing gradient gel electrophoresis (DGGE), a

  13. Sampling and estimation procedures for the vegetation diversity and structure indicator

    Science.gov (United States)

    Bethany K. Schulz; William A. Bechtold; Stanley J. Zarnoch

    2009-01-01

    The Vegetation Diversity and Structure Indicator (VEG) is an extensive inventory of vascular plants in the forests of the United States. The VEG indicator provides baseline data to assess trends in forest vascular plant species richness and composition, and the relative abundance and spatial distribution of those species, including invasive and introduced species. The...

  14. Habitat-associated and temporal patterns of bat activity in a diverse forest landscape of southern New England, USA

    Science.gov (United States)

    Robert T. Brooks

    2009-01-01

    The development and use of acoustic recording technology, surveys have revealed the composition, relative levels of activity, and preliminary habitat use of bat communities of various forest locations. However, detailed examinations of acoustic surveys results to investigate temporal patterns of bat activity are rare. Initial active acoustic surveys of bat activity on...

  15. Temporal lobe sulcal pattern and the bony impressions in the middle cranial fossa: the case of the el Sidrón (Spain) neandertal sample.

    Science.gov (United States)

    Rosas, Antonio; Peña-Melián, Angel; García-Tabernero, Antonio; Bastir, Markus; De La Rasilla, Marco

    2014-12-01

    Correspondence between temporal lobe sulcal pattern and bony impressions on the middle cranial fossae (MCF) was analyzed. MCF bone remains (SD-359, SD-315, and SD-1219) from the El Sidrón (Spain) neandertal site are analyzed in this context. Direct comparison of the soft and hard tissues from the same individual was studied by means of: 1) dissection of two human heads; 2) optic (white light) surface scans; 3) computed tomography and magnetic resonance of the same head. The inferior temporal sulcus and gyrus are the features most strongly influencing MCF bone surface. The Superior temporal sulcus and middle temporal and fusiform gyri also leave imprints. Temporal lobe form differs between Homo sapiens and neandertals. A wider and larger post-arcuate fossa (posterior limit of Brodmann area 20 and the anterior portion of area 37) is present in modern humans as compared to neandertals. However other traits of the MCF surface are similar in these two large-brained human groups. A conspicuous variation is appreciated in the more vertical location of the inferior temporal gyrus in H. sapiens. In parallel, structures of the lower surface of the temporal lobe are more sagittally orientated. Grooves accommodating the fusiform and the lower temporal sulci become grossly parallel to the temporal squama. These differences can be understood within the context of a supero-lateral deployment of the lobe in H. sapiens, a pattern previously identified (Bastir et al., Nat Commun 2 (2011) 588-595). Regarding dural sinus pattern, a higher incidence of petrosquamous sinus is detected in neandertal samples. © 2014 Wiley Periodicals, Inc.

  16. Diversity of sainfoin (Onobrychis Mill. collection samples according to the spectra of storage proteins

    Directory of Open Access Journals (Sweden)

    Bulatova Kulpash

    2015-01-01

    Full Text Available Sainfoin (Onobrychis Mill. is a valuable forage plant of the legume family (Fabaceae. In Kazakhstan the sainfoin introduced as field fodder in the 50s of the XX century and because of its biological features widely spread as a promising crop for forage resources increasing. The electrophoresis of seed storage proteins of Onobrychis viciifolia, Onobrychis arenaria and Onobrychis transcaucasica species was carried out. Considerable diversity of the number, mobility and intensity of components was determined.

  17. Parent Rated Symptoms of Inattention in Childhood Predict High School Academic Achievement Across Two Culturally and Diagnostically Diverse Samples

    Directory of Open Access Journals (Sweden)

    Astri J. Lundervold

    2017-08-01

    Full Text Available Objective: To investigate parent reports of childhood symptoms of inattention as a predictor of adolescent academic achievement, taking into account the impact of the child’s intellectual functioning, in two diagnostically and culturally diverse samples.Method: Samples: (a an all-female sample in the U.S. predominated by youth with ADHD (Berkeley Girls with ADHD Longitudinal Study [BGALS], N = 202, and (b a mixed-sex sample recruited from a Norwegian population-based sample (the Bergen Child Study [BCS], N = 93. Inattention and intellectual function were assessed via the same measures in the two samples; academic achievement scores during and beyond high school and demographic covariates were country-specific.Results: Childhood inattention predicted subsequent academic achievement in both samples, with a somewhat stronger effect in the BGALS sample, which included a large subgroup of children with ADHD. Intellectual function was another strong predictor, but the effect of early inattention remained statistically significant in both samples when intellectual function was covaried.Conclusion: The effect of early indicators of inattention on future academic success was robust across the two samples. These results support the use of remediation procedures broadly applied. Future longitudinal multicenter studies with pre-planned common inclusion criteria should be performed to increase our understanding of the importance of inattention in primary school children for concurrent and prospective functioning.

  18. Exploring the determinants of phylogenetic diversity and assemblage structure in conifers across temporal, spatial, and taxonomic scales

    DEFF Research Database (Denmark)

    Eiserhardt, Wolf L.; Borchsenius, Finn; Sandel, Brody Steven

    -environmental models are important elements in this framework. Here, we integrate both types of data in order to explore the determinants of forest tree diversity using the conifers as a model group. Conifers are an old, diverse (ca. 650 spp. in 6 families) and widespread group of woody plants of high ecological...... and economic importance. They are better studied than most other globally distributed groups of forest trees, allowing integrative studies with high phylogenetic and spatial resolution. We analyse phylogenetic diversity, assemblage structure, and diversification rates for regional conifer assemblages...... throughout the natural range of the group (269 TDWG3 “botanical countries”) to infer the effects of current and past climate . To explore the effects of taxonomic and spatial scale, we deconstruct the overall pattern into families and perform a fine-scale analysis for one particular lineage (the genus Pinus...

  19. Diversity of nuclear short tandem repeat loci in representative sample of North-eastern Bosnian and Herzegovina population

    Directory of Open Access Journals (Sweden)

    Hadžiavdić Vesna

    2012-01-01

    Full Text Available Diversity of nuclear microsatellite markers were analyzed in a reference sample of the population of northeast Bosnia and Herzegovina. 437 samples taken from unrelated individuals were processed and three samples of paternity proof were shown. Detection effectiveness profile of the research, points to a valid choice of method of extraction, amplification and genotyping short tandem repeat (STR loci with PowerPlextm16 kit. Genetic analysis of allelic variants of the 15 STR loci PowerPlextm16 kit detected 17 samples determined as rare allelic variants or microvariants. Samples were divided into 15 different allelic variants at 7 different loci, and are: in locus D7S820, D16S539, D3S1358, D18S51, PENTA D, PENTA E and in locus vWA. Genetic analysis of mutations in cases of paternity determined three examples of single-step mutations in the loci FGA, Penta D and D3S1358. Genetic analysis of observed STR loci detected three allelic variant of genotype combination 7/10/11.3 in locus D7S820 Type II. Population genetic analysis of STR loci in a representative sample of the population of northeast Bosnia and Herzegovina included the application of the assessment tests of within-population genetic diversity and interpopulation diversity, as well as genetic differentiation between populations: North-eastern Bosnia and Herzegovina (BH and BH general reference, then the Croatian population, Macedonian, Serbian and Slovenian. Based on the result analysis of specific forensic parameters, it can be assumed that the most informative marker is PENTA E for population genetic analysis and forensic testing in the population of northeast Bosnia and Herzegovina. Research results fit regional STR database of this part of Europe.

  20. Deep COI sequencing of standardized benthic samples unveils overlooked diversity of Jordanian coral reefs in the northern Red Sea.

    Science.gov (United States)

    Al-Rshaidat, Mamoon M D; Snider, Allison; Rosebraugh, Sydney; Devine, Amanda M; Devine, Thomas D; Plaisance, Laetitia; Knowlton, Nancy; Leray, Matthieu

    2016-09-01

    High-throughput sequencing (HTS) of DNA barcodes (metabarcoding), particularly when combined with standardized sampling protocols, is one of the most promising approaches for censusing overlooked cryptic invertebrate communities. We present biodiversity estimates based on sequencing of the cytochrome c oxidase subunit 1 (COI) gene for coral reefs of the Gulf of Aqaba, a semi-enclosed system in the northern Red Sea. Samples were obtained from standardized sampling devices (Autonomous Reef Monitoring Structures (ARMS)) deployed for 18 months. DNA barcoding of non-sessile specimens >2 mm revealed 83 OTUs in six phyla, of which only 25% matched a reference sequence in public databases. Metabarcoding of the 2 mm - 500 μm and sessile bulk fractions revealed 1197 OTUs in 15 animal phyla, of which only 4.9% matched reference barcodes. These results highlight the scarcity of COI data for cryptobenthic organisms of the Red Sea. Compared with data obtained using similar methods, our results suggest that Gulf of Aqaba reefs are less diverse than two Pacific coral reefs but much more diverse than an Atlantic oyster reef at a similar latitude. The standardized approaches used here show promise for establishing baseline data on biodiversity, monitoring the impacts of environmental change, and quantifying patterns of diversity at regional and global scales.

  1. Spatio-temporal Analysis of the Genetic Diversity of Arctic Rabies Viruses and Their Reservoir Hosts in Greenland

    DEFF Research Database (Denmark)

    Hanke, Dennis; Freuling, Conrad M.; Fischer, Susanne

    2016-01-01

    There has been limited knowledge on spatio-temporal epidemiology of zoonotic arctic fox rabies among countries bordering the Arctic, in particular Greenland. Previous molecular epidemiological studies have suggested the occurrence of one particular arctic rabies virus (RABV) lineage (arctic-3...... of RABV in different arctic fox lineages. These data are invaluable to support future initiatives for arctic fox rabies control and elimination in Greenland....

  2. Are affluent youth truly “at risk”? Vulnerability and resilience across three diverse samples

    OpenAIRE

    Luthar, Suniya S.; BARKIN, SAMUEL H.

    2012-01-01

    Building upon prior findings of elevated problems among East Coast suburban youth through the 11th grade, this study establishes disproportionately high incidence of maladjustment across three disparate samples: East Coast Suburban youth at the end of their senior year in high school, and 11th and 12th graders in (a) a Northwest suburb and (b) an East Coast city. Both East Coast samples showed pronounced elevations in substance use, whereas the Northwest suburban sample showed marked vulnerab...

  3. Dietary Behaviors of a Racially and Ethnically Diverse Sample of Overweight and Obese Californians

    Science.gov (United States)

    Sorkin, Dara H.; Billimek, John

    2012-01-01

    Objectives: To examine racial/ethnic differences in the dietary behaviors of overweight or obese adults using the 2007 California Health Interview Survey. Method: Data were obtained from the 2007 California Health Interview Survey, a population-based sample of noninstitutionalized adults in California. The sample included 26,721 adults aged 18…

  4. Abundance, distribution and diversity of gelatinous predators along the northern Mid-Atlantic Ridge: A comparison of different sampling methodologies.

    Science.gov (United States)

    Hosia, Aino; Falkenhaug, Tone; Baxter, Emily J; Pagès, Francesc

    2017-01-01

    The diversity and distribution of gelatinous zooplankton were investigated along the northern Mid-Atlantic Ridge (MAR) from June to August 2004.Here, we present results from macrozooplankton trawl sampling, as well as comparisons made between five different methodologies that were employed during the MAR-ECO survey. In total, 16 species of hydromedusae, 31 species of siphonophores and four species of scyphozoans were identified to species level from macrozooplankton trawl samples. Additional taxa were identified to higher taxonomic levels and a single ctenophore genus was observed. Samples were collected at 17 stations along the MAR between the Azores and Iceland. A divergence in the species assemblages was observed at the southern limit of the Subpolar Frontal Zone. The catch composition of gelatinous zooplankton is compared between different sampling methodologies including: a macrozooplankton trawl; a Multinet; a ringnet attached to bottom trawl; and optical platforms (Underwater Video Profiler (UVP) & Remotely Operated Vehicle (ROV)). Different sampling methodologies are shown to exhibit selectivity towards different groups of gelatinous zooplankton. Only ~21% of taxa caught during the survey were caught by both the macrozooplankton trawl and the Multinet when deployed at the same station. The estimates of gelatinous zooplankton abundance calculated using these two gear types also varied widely (1.4 ± 0.9 individuals 1000 m-3 estimated by the macrozooplankton trawl vs. 468.3 ± 315.4 individuals 1000 m-3 estimated by the Multinet (mean ± s.d.) when used at the same stations (n = 6). While it appears that traditional net sampling can generate useful data on pelagic cnidarians, comparisons with results from the optical platforms suggest that ctenophore diversity and abundance are consistently underestimated, particularly when net sampling is conducted in combination with formalin fixation. The results emphasise the importance of considering sampling methodology

  5. Abundance, distribution and diversity of gelatinous predators along the northern Mid-Atlantic Ridge: A comparison of different sampling methodologies.

    Directory of Open Access Journals (Sweden)

    Aino Hosia

    Full Text Available The diversity and distribution of gelatinous zooplankton were investigated along the northern Mid-Atlantic Ridge (MAR from June to August 2004.Here, we present results from macrozooplankton trawl sampling, as well as comparisons made between five different methodologies that were employed during the MAR-ECO survey. In total, 16 species of hydromedusae, 31 species of siphonophores and four species of scyphozoans were identified to species level from macrozooplankton trawl samples. Additional taxa were identified to higher taxonomic levels and a single ctenophore genus was observed. Samples were collected at 17 stations along the MAR between the Azores and Iceland. A divergence in the species assemblages was observed at the southern limit of the Subpolar Frontal Zone. The catch composition of gelatinous zooplankton is compared between different sampling methodologies including: a macrozooplankton trawl; a Multinet; a ringnet attached to bottom trawl; and optical platforms (Underwater Video Profiler (UVP & Remotely Operated Vehicle (ROV. Different sampling methodologies are shown to exhibit selectivity towards different groups of gelatinous zooplankton. Only ~21% of taxa caught during the survey were caught by both the macrozooplankton trawl and the Multinet when deployed at the same station. The estimates of gelatinous zooplankton abundance calculated using these two gear types also varied widely (1.4 ± 0.9 individuals 1000 m-3 estimated by the macrozooplankton trawl vs. 468.3 ± 315.4 individuals 1000 m-3 estimated by the Multinet (mean ± s.d. when used at the same stations (n = 6. While it appears that traditional net sampling can generate useful data on pelagic cnidarians, comparisons with results from the optical platforms suggest that ctenophore diversity and abundance are consistently underestimated, particularly when net sampling is conducted in combination with formalin fixation. The results emphasise the importance of considering

  6. Analysis of the temporal relationship between human immunodeficiency virus type 1 quasispecies in sequential blood samples and various organs obtained at autopsy

    NARCIS (Netherlands)

    van't Wout, A. B.; Ran, L. J.; Kuiken, C. L.; Kootstra, N. A.; Pals, S. T.; Schuitemaker, H.

    1998-01-01

    We studied the temporal relationship between human immunodeficiency type 1 (HIV-1) quasispecies in tissues and in peripheral blood mononuclear cells (PBMC) of infected individuals. Sequential PBMC and tissue samples from various organs obtained at autopsy from three patients who died of AIDS-related

  7. Culture-dependent and culture-independent diversity surveys target different bacteria: a case study in a freshwater sample.

    Science.gov (United States)

    Vaz-Moreira, Ivone; Egas, Conceição; Nunes, Olga C; Manaia, Célia M

    2011-08-01

    Compared with culture-independent approaches, traditionally used culture-dependent methods have a limited capacity to characterize water microbiota. Nevertheless, for almost a century the latter have been optimized to detect and quantify relevant bacteria. A pertinent question is if culture-independent diversity surveys give merely an extended perspective of the bacterial diversity or if, even with a higher coverage, focus on a different set of organisms. We compared the diversity and phylogeny of bacteria in a freshwater sample recovered by currently used culture-dependent and culture-independent methods (DGGE and 454 pyrosequencing). The culture-dependent diversity survey presented lower coverage than the other methods. However, it allowed bacterial identifications to the species level, in contrast with the other procedures that rarely produced identifications below the order. Although the predominant bacterial phyla detected by both approaches were the same (Proteobacteria, Actinobacteria, Bacteroidetes), sequence similarity analysis showed that, in general, different operational taxonomical units were targeted by each method. The observation that culture-dependent and independent approaches target different organisms has implications for the use of the latter for studies in which taxonomic identification has a predictive value. In comparison to DGGE, 454 pyrosequencing method had a higher capacity to explore the bacterial richness and to detect cultured organisms, being also less laborious.

  8. Y-STR diversity and ethnic admixture in White and Mulatto Brazilian population samples

    Directory of Open Access Journals (Sweden)

    Luzitano Brandão Ferreira

    2006-01-01

    Full Text Available We investigated 50 Mulatto and 120 White Brazilians for the Y-chromosome short tandem repeat (Y-STR markers (DYS19, DYS390, DYS391, DYS392 and DYS393 and found 79 different haplotypes in the White and 35 in the Mulatto sample. Admixture estimates based on allele frequencies showed that the admixture of the white sample was 89% European, 6% African and 5% Amerindian while the Mulatto sample was 93% European and 7% African. Results were consistent with historical records of the directional mating between European males and Amerindian or African females.

  9. Effects of Fertilization and Sampling Time on Composition and Diversity of Entire and Active Bacterial Communities in German Grassland Soils

    Science.gov (United States)

    Herzog, Sarah; Wemheuer, Franziska; Wemheuer, Bernd; Daniel, Rolf

    2015-01-01

    Soil bacteria are major players in driving and regulating ecosystem processes. Thus, the identification of factors shaping the diversity and structure of these communities is crucial for understanding bacterial-mediated processes such as nutrient transformation and cycling. As most studies only target the entire soil bacterial community, the response of active community members to environmental changes is still poorly understood. The objective of this study was to investigate the effect of fertilizer application and sampling time on structure and diversity of potentially active (RNA-based) and the entire (DNA-based) bacterial communities in German grassland soils. Analysis of more than 2.3 million 16S rRNA transcripts and gene sequences derived from amplicon-based sequencing of 16S rRNA genes revealed that fertilizer application and sampling time significantly altered the diversity and composition of entire and active bacterial communities. Although the composition of both the entire and the active bacterial community was correlated with environmental factors such as pH or C/N ratio, the active community showed a higher sensitivity to environmental changes than the entire community. In addition, functional analyses were performed based on predictions derived from 16S rRNA data. Genes encoding the uptake of nitrate/nitrite, nitrification, and denitrification were significantly more abundant in fertilized plots compared to non-fertilized plots. Hence, this study provided novel insights into changes in dynamics and functions of soil bacterial communities as response to season and fertilizer application. PMID:26694644

  10. Diversity of Microbial Carbohydrate-Active enZYmes (CAZYmes) Associated with Freshwater and Soil Samples from Caatinga Biome.

    Science.gov (United States)

    Andrade, Ana Camila; Fróes, Adriana; Lopes, Fabyano Álvares Cardoso; Thompson, Fabiano L; Krüger, Ricardo Henrique; Dinsdale, Elizabeth; Bruce, Thiago

    2017-07-01

    Semi-arid and arid areas occupy about 33% of terrestrial ecosystems. However, little information is available about microbial diversity in the semi-arid Caatinga, which represents a unique biome that extends to about 11% of the Brazilian territory and is home to extraordinary diversity and high endemism level of species. In this study, we characterized the diversity of microbial genes associated with biomass conversion (carbohydrate-active enzymes, or so-called CAZYmes) in soil and freshwater of the Caatinga. Our results showed distinct CAZYme profiles in the soil and freshwater samples. Glycoside hydrolases and glycosyltransferases were the most abundant CAZYme families, with glycoside hydrolases more dominant in soil (∼44%) and glycosyltransferases more abundant in freshwater (∼50%). The abundances of individual glycoside hydrolase, glycosyltransferase, and carbohydrate-binding module subfamilies varied widely between soil and water samples. A predominance of glycoside hydrolases was observed in soil, and a higher contribution of enzymes involved in carbohydrate biosynthesis was observed in freshwater. The main taxa associated with the CAZYme sequences were Planctomycetia (relative abundance in soil, 29%) and Alphaproteobacteria (relative abundance in freshwater, 27%). Approximately 5-7% of CAZYme sequences showed low similarity with sequences deposited in non-redundant databases, suggesting putative homologues. Our findings represent a first attempt to describe specific microbial CAZYme profiles for environmental samples. Characterizing these enzyme groups associated with the conversion of carbohydrates in nature will improve our understanding of the significant roles of enzymes in the carbon cycle. We identified a CAZYme signature that can be used to discriminate between soil and freshwater samples, and this signature may be related to the microbial species adapted to the habitat. The data show the potential ecological roles of the CAZYme repertoire and

  11. Molecular diversity of methanogens in fecal samples from Bactrian camels (Camelus bactrianus) at two zoos.

    Science.gov (United States)

    Turnbull, Kathryn L; Smith, Rachel P; St-Pierre, Benoit; Wright, André-Denis G

    2012-08-01

    Animals are dependent on mutualistic microbial communities that reside in their gastrointestinal track for essential physiological functions such as nutrition and pathogen resistance. The composition of microbial communities in an animal is influenced by various factors, including species, diet and geographical location. In this preliminary study, the population structure of fecal methanogens in Bactrian camels (Camelus bactrianus) from two zoos was studied using separate 16S rRNA gene libraries for each zoo. While methanogen sequences belonging to the genus Methanobrevibacter were dominant in both libraries, they showed significant differences in diversity (p=0.05) and structure (pZoo library and seven OTUs were unique to the Potter Park Zoo library. These preliminary results highlight how methanogen population structures can vary greatly between animals of the same species maintained in captivity at different locations. Copyright © 2011 Elsevier Ltd. All rights reserved.

  12. Genotyping of Leptospira directly in urine samples of cattle demonstrates a diversity of species and strains in Brazil.

    Science.gov (United States)

    Hamond, C; Pestana, C P; Medeiros, M A; Lilenbaum, W

    2016-01-01

    The aim of this study was to identify Leptospira in urine samples of cattle by direct sequencing of the secY gene. The validity of this approach was assessed using ten Leptospira strains obtained from cattle in Brazil and 77 DNA samples previously extracted from cattle urine, that were positive by PCR for the genus-specific lipL32 gene of Leptospira. Direct sequencing identified 24 (31·1%) interpretable secY sequences and these were identical to those obtained from direct DNA sequencing of the urine samples from which they were recovered. Phylogenetic analyses identified four species: L. interrogans, L. borgpetersenii, L. noguchii, and L. santarosai with the most prevalent genotypes being associated with L. borgpetersenii. While direct sequencing cannot, as yet, replace culturing of leptospires, it is a valid additional tool for epidemiological studies. An unexpected finding from this study was the genetic diversity of Leptospira infecting Brazilian cattle.

  13. A Note on Two-Sample Tests for Comparing Intra-Individual Genetic Sequence Diversity between Populations

    Science.gov (United States)

    Giorgi, E. E.; Bhattacharya, T.

    2013-01-01

    Summary present four U-statistic based tests to compare genetic diversity between different samples. The proposed tests improved upon previously used methods by accounting for the correlations in the data. We find, however, that the same correlations introduce an unacceptable bias in the sample estimators used for the variance and covariance of the inter-sequence genetic distances for modest sample sizes. Here, we compute unbiased estimators for these and test the resulting improvement using simulated data. We also show that, contrary to the claims in Gilbert et al., it is not always possible to apply the Welch–Satterthwaite approximate t-test, and we provide explicit formulas for the degrees of freedom to be used when, on the other hand, such approximation is indeed possible. PMID:23004569

  14. The Chemical Diversity of Lantana camara: Analyses of Essential Oil Samples from Cuba, Nepal, and Yemen.

    Science.gov (United States)

    Satyal, Prabodh; Crouch, Rebecca A; Monzote, Lianet; Cos, Paul; Awadh Ali, Nasser A; Alhaj, Mehdi A; Setzer, William N

    2016-03-01

    The aerial parts of Lantana camara L. were collected from three different geographical locations: Artemisa (Cuba), Biratnagar (Nepal), and Sana'a (Yemen). The essential oils were obtained by hydrodistillation and analyzed by gas chromatography/mass spectrometry. A cluster analysis of 39 L. camara essential oil compositions revealed eight major chemotypes: β-caryophyllene, germacrene D, ar-curcumene/zingiberene, γ-curcumen-15-al/epi-β-bisabolol, (E)-nerolidol, davanone, eugenol/alloaromadendrene, and carvone. The sample from Cuba falls into the group dominated by (E)-nerolidol, the sample from Nepal is a davanone chemotype, and the sample from Yemen belongs to the β-caryophyllene chemotype. The chemical composition of L. camara oil plays a role in the biological activity; the β-caryophyllene and (E)-nerolidol chemotypes showed antimicrobial and cytotoxic activities. © 2016 Verlag Helvetica Chimica Acta AG, Zürich.

  15. Advancing Research on Racial–Ethnic Health Disparities: Improving Measurement Equivalence in Studies with Diverse Samples

    Science.gov (United States)

    Landrine, Hope; Corral, Irma

    2014-01-01

    To conduct meaningful, epidemiologic research on racial–ethnic health disparities, racial–ethnic samples must be rendered equivalent on other social status and contextual variables via statistical controls of those extraneous factors. The racial–ethnic groups must also be equally familiar with and have similar responses to the methods and measures used to collect health data, must have equal opportunity to participate in the research, and must be equally representative of their respective populations. In the absence of such measurement equivalence, studies of racial–ethnic health disparities are confounded by a plethora of unmeasured, uncontrolled correlates of race–ethnicity. Those correlates render the samples, methods, and measures incomparable across racial–ethnic groups, and diminish the ability to attribute health differences discovered to race–ethnicity vs. to its correlates. This paper reviews the non-equivalent yet normative samples, methodologies and measures used in epidemiologic studies of racial–ethnic health disparities, and provides concrete suggestions for improving sample, method, and scalar measurement equivalence. PMID:25566524

  16. Depression and Racial/Ethnic Variations within a Diverse Nontraditional College Sample

    Science.gov (United States)

    Hudson, Richard; Towey, James; Shinar, Ori

    2008-01-01

    The study's objective was to ascertain whether rates of depression were significantly higher for Dominican, Puerto Rican, South and Central American and Jamaican/Haitian students than for African American and White students. The sample consisted of 987 predominantly nontraditional college students. The depression rate for Dominican students was…

  17. Are affluent youth truly “at risk”? Vulnerability and resilience across three diverse samples

    Science.gov (United States)

    LUTHAR, SUNIYA S.; BARKIN, SAMUEL H.

    2015-01-01

    Building upon prior findings of elevated problems among East Coast suburban youth through the 11th grade, this study establishes disproportionately high incidence of maladjustment across three disparate samples: East Coast Suburban youth at the end of their senior year in high school, and 11th and 12th graders in (a) a Northwest suburb and (b) an East Coast city. Both East Coast samples showed pronounced elevations in substance use, whereas the Northwest suburban sample showed marked vulnerability in serious internalizing and externalizing symptoms. Across all samples, parents’ low perceived containment for substance use (lax repercussions on discovering use) was a major vulnerability factor, followed by parents’ knowledge of their teens’ activities. Overall, adolescents’ symptom levels were more strongly related to their relationships with mothers than with fathers. An exception was boys’ apparent vulnerability to fathers’, but not mothers’, perceived depressive symptoms. As with affluent eighth graders, we found that “overscheduling” in extracurriculars is not a critical vulnerability factor among these high school students. Finally, youth reports suggested that most affluent parents do not indiscriminately bail their children out of all problem situations (although a small subset, apparently, do). Results are discussed along with the implications for practice and for future research. PMID:22559123

  18. Diversity and abundance of mosquitoes (Diptera:Culicidae) in an urban park: larval habitats and temporal variation.

    Science.gov (United States)

    Medeiros-Sousa, Antônio R; Ceretti-Júnior, Walter; de Carvalho, Gabriela C; Nardi, Marcello S; Araujo, Alessandra B; Vendrami, Daniel P; Marrelli, Mauro T

    2015-10-01

    Urban parks are areas designated for human recreation but also serve as shelter and refuge for populations of several species of native fauna, both migratory and introduced. In Brazil, the effect of annual climate variations on Aedes aegypti and dengue epidemics in large cities like São Paulo is well known, but little is known about how such variations can affect the diversity of mosquito vectors in urban parks and the risk of disease transmission by these vectors. This study investigates the influence of larval habitats and seasonal factors on the diversity and abundance of Culicidae fauna in Anhanguera Park, one of the largest remaining green areas in the city of São Paulo. Species composition and richness and larval habitats were identified. Seasonality (cold-dry and hot-rainy periods) and year were considered as explanatory variables and the models selection approach was developed to investigate the relationship of these variables with mosquito diversity and abundance. A total of 11,036 specimens from 57 taxa distributed in 13 genera were collected. Culex nigripalpus, Cx. quinquefasciatus and Aedes albopictus were the most abundant species. Bamboo internodes and artificial breeding sites showed higher abundance, while ponds and puddles showed greater richness. Significant relationships were observed between abundance and seasonality, with a notable increase in the mosquitos abundance in the warm-rainy periods. The Shannon and Berger-Parker indices were related with interaction between seasonality and year, however separately these predictors showed no relationship with ones. The increased abundance of mosquitoes in warm-rainy months and the fact that some of the species are epidemiologically important increase not only the risk of pathogen transmission to people who frequent urban parks but also the nuisance represented by insect bites. The findings of this study highlight the importance of knowledge of culicid ecology in green areas in urban environments

  19. Temporal Trends in Percutaneous Coronary Intervention Associated Acute Cerebrovascular Accident (From the 1998–2008 Nationwide Inpatient Sample [NIS] Database)

    Science.gov (United States)

    Shivaraju, Anupama; Yu, Changhong; Kattan, Michael W.; Xie, Hui; Shroff, Adhir R.; Vidovich, Mladen I.

    2014-01-01

    Acute cerebrovascular accident (CVA) after percutaneous coronary intervention (PCI) for acute coronary syndrome (ACS) and coronary artery disease (CAD) is associated with high morbidity and mortality. Nationwide Inpatient Sample from 1998 to 2008 was utilized to identify 1,552,602 PCIs performed for ACS and CAD. We assessed temporal trends in the incidence, predictors and prognostic impact of CVA in a broad range of patients undergoing PCI. The overall incidence of CVA was 0.56% (95% confidence interval (CI), 0.55%–0.57%). The incidence of CVA remained unchanged over the study period (adjusted p for trend = 0.2271). The overall mortality in the CVA group was 10.76% (95% CI, 10.1%–11.4%). The adjusted odds ratio (OR) of CVA for in-hospital mortality was 7.74 (95% CI, 7.00–8.57; p<0.0001); this remained high but decreased over the study period (adjusted p for trend <0.0001). Independent predictors of CVA included older age (OR, 1.03, 95% CI, 1.02–1.03; p<0.0001), disorder of lipid metabolism (OR, 1.31, 95% CI, 1.24–1.38; p<0.001), history of tobacco use (OR, 1.21, 95% CI, 1.10–1.34; p=0.0002), coronary atherosclerosis (OR 1.56, 95% CI, 1.43–1.71; p<0.0001), and IABP use (OR 1.39, 95% CI, 1.09–1.77; p=0.0073). A nomogram for predicting the probability of CVA achieved a concordance index of 0.73 and was well calibrated. In conclusion, the incidence of CVA associated with PCI has remained unchanged from 1998–2008 in face of improved equipment, techniques and adjunctive pharmacology. The risk of CVA associated in-hospital mortality is high; however, this risk has declined over the study period. PMID:24952927

  20. The CubeSat Infrared Atmospheric Sounder (CIRAS): Demonstrating key technologies for a future constellation to improve temporal sampling

    Science.gov (United States)

    Pagano, T. S.

    2016-12-01

    Hyperspectral infrared sounding of the atmosphere has become a vital element in the observational system for weather forecast prediction at National Weather Prediction (NWP) centers worldwide. The NASA Atmospheric Infrared Sounder (AIRS) instrument was the pathfinder for the hyperspectral infrared observations and was designed to provide accurate atmospheric temperature and water vapor profile information in support of weather prediction. AIRS was launched in 2002 and continues to operate well. The Cross-track Infrared Sounder (CrIS) on the Suomi NPP satellite was launched in 2011 to continue the AIRS measurement record. CrIS also continues to operate well and additional sensors are planned for launch promising to continue the hyperspectral infrared measurements in support of NWP into the late 2030's. The high cost of IR sounders makes it costly to launch them into multiple orbits to improve temporal sampling, or into GEO, although EUMETSAT is planning a GEO IR Sounder to launch in the early 2020's. JPL NASA is offering an alternate hyperspectral IR sounder architecture for the future involving CubeSats. The latest technology in large format focal plane assemblies, wide field optics and active cryocoolers enables a reduction in size, mass and cost of the legacy sounders and offer new configurations. Lessons learned from AIRS and CrIS indicate that temperature and water vapor sounding in the lower troposphere can be achieved with only the MWIR portion of the spectrum. The CubeSat Infrared Atmospheric Sounder (CIRAS) employs only an MWIR spectrometer to achieve lower tropospheric temperature and water vapor profiles, but with comparable spatial, spectral and radiometric sensitivity in this band as AIRS and CrIS. CIRAS operates from 4.08-5.13 µm with 625 channels and spectral resolution of 1.2-2.0 cm-1. CIRAS employs an immersion grating spectrometer making the optics incredibly compact, and HOT-BIRD detectors enabling good uniformity and operability over the large

  1. Diversity of Microorganisms Isolated from the Soil Sample surround Chroogomphus rutilus in the Beijing Region

    OpenAIRE

    Wang, Peng; Liu, Yu; Yin, Yonggang; Jin, Haojie; Wang, Shouxian; Xu, Feng; Zhao, Shuang; Geng, Xiaoli

    2011-01-01

    Artificially cultivating Chroogomphus rutilus is too inefficient to be commercially feasible. Furthermore, isolating C. rutilus mycelia in the wild is difficult. Thus, it is important to determine the natural habitat of its fruiting body. This study focused on the ecology of the C. rutilus habitat to isolate and classify beneficial microorganisms that could affect its growth, which could be used in future research on artificial cultivation. In total, 342 isolates were isolated from soil sampl...

  2. Prevalence, Distribution, and Diversity of Salmonella spp. in Meat Samples Collected from Italian Slaughterhouses.

    Science.gov (United States)

    Carraturo, Federica; Gargiulo, Giuseppe; Giorgio, Antonella; Aliberti, Francesco; Guida, Marco

    2016-10-01

    Recently worldwide food safety authorities indicated the rise of foodborne outbreaks linked to Salmonella: this highlighted the need to intensify monitoring and apply more targeted controls to help manage the spread of the disease. The aim of this study was to assess the prevalence and distribution of Salmonella serotypes in 7 slaughterhouses, located in different areas of Naples province (Regione Campania, Italy). Meat samples collected from the slaughterhouses were submitted for standardized microbiological analysis in 2015. Results of routine testing for Salmonella spp. were analyzed and then compared to biochemical and molecular evaluations. Salmonella spp. were detected in 12% of 320 samples examined (39/320) and the isolation rates ranged from 87% (32 samples) for raw poultry meat to 13% (7 samples) for pork meat. Biochemical serotyping showed that approximately 50% of the isolates belonged to Salmonella enterica serotype Choleraesuis. Rapid detection methods, such as molecular analysis (polymerase chain reaction and gel electrophoresis), able to confirm food matrices contamination, represent a valid support to the fast identification of Salmonella species. A further aspect of the study consisted, indeed, on analyzing isolated strains through molecular evaluations. By amplifying bacterial DNA-using invA primers, selective for Salmonella-it was possible, in less than 3 h, to classify the isolates as Salmonella spp., confirming the results of microbiological outcomes. Results of distribution analysis, supported by rapid molecular approaches, showed the difficulty of reducing Salmonella risk on food chain. This emphasized the importance of periodic surveillance to prevent outbreaks. © 2016 Institute of Food Technologists®.

  3. Zooplankton diversity analysis through single-gene sequencing of a community sample

    Directory of Open Access Journals (Sweden)

    Nishida Mutsumi

    2009-09-01

    Full Text Available Abstract Background Oceans cover more than 70% of the earth's surface and are critical for the homeostasis of the environment. Among the components of the ocean ecosystem, zooplankton play vital roles in energy and matter transfer through the system. Despite their importance, understanding of zooplankton biodiversity is limited because of their fragile nature, small body size, and the large number of species from various taxonomic phyla. Here we present the results of single-gene zooplankton community analysis using a method that determines a large number of mitochondrial COI gene sequences from a bulk zooplankton sample. This approach will enable us to estimate the species richness of almost the entire zooplankton community. Results A sample was collected from a depth of 721 m to the surface in the western equatorial Pacific off Pohnpei Island, Micronesia, with a plankton net equipped with a 2-m2 mouth opening. A total of 1,336 mitochondrial COI gene sequences were determined from the cDNA library made from the sample. From the determined sequences, the occurrence of 189 species of zooplankton was estimated. BLASTN search results showed high degrees of similarity (>98% between the query and database for 10 species, including holozooplankton and merozooplankton. Conclusion In conjunction with the Census of Marine Zooplankton and Barcode of Life projects, single-gene zooplankton community analysis will be a powerful tool for estimating the species richness of zooplankton communities.

  4. Diverse protocols for correlative super-resolution fluorescence imaging and electron microscopy of chemically fixed samples

    Science.gov (United States)

    Kopek, Benjamin G.; Paez-Segala, Maria G.; Shtengel, Gleb; Sochacki, Kem A.; Sun, Mei G.; Wang, Yalin; Xu, C. Shan; van Engelenburg, Schuyler B.; Taraska, Justin W.; Looger, Loren L.; Hess, Harald F.

    2017-01-01

    Our groups have recently developed related approaches for sample preparation for super-resolution imaging within endogenous cellular environments using correlative light and electron microscopy (CLEM). Four distinct techniques for preparing and acquiring super-resolution CLEM datasets on aldehyde-fixed specimens are provided, including Tokuyasu cryosectioning, whole-cell mount, cell unroofing and platinum replication, and resin embedding and sectioning. Choice of the best protocol for a given application depends on a number of criteria that are discussed in detail. Tokuyasu cryosectioning is relatively rapid but is limited to small, delicate specimens. Whole-cell mount has the simplest sample preparation but is restricted to surface structures. Cell unroofing and platinum replica creates high-contrast, 3-dimensional images of the cytoplasmic surface of the plasma membrane, but is more challenging than whole-cell mount. Resin embedding permits serial sectioning of large samples, but is limited to osmium-resistant probes, and is technically difficult. Expected results from these protocols include super-resolution localization (~10–50 nm) of fluorescent targets within the context of electron microscopy ultrastructure, which can help address cell biological questions. These protocols can be completed in 2–7 days, are compatible with a number of super-resolution imaging protocols, and are broadly applicable across biology. PMID:28384138

  5. Diversity of reductive dehalogenase genes from environmental samples and enrichment cultures identified with degenerate primer PCR screens.

    Directory of Open Access Journals (Sweden)

    Laura Audrey Hug

    2013-11-01

    Full Text Available Reductive dehalogenases are the critical enzymes for anaerobic organohalide respiration, a microbial metabolic process that has been harnessed for bioremediation efforts to resolve chlorinated solvent contamination in groundwater and is implicated in the global halogen cycle. Reductive dehalogenase sequence diversity is informative for the dechlorination potential of the site or enrichment culture. A suite of degenerate PCR primers targeting a comprehensive curated set of reductive dehalogenase genes was designed and applied to twelve DNA samples extracted from contaminated and pristine sites, as well as six enrichment cultures capable of reducing chlorinated compounds to non-toxic end-products. The amplified gene products from four environmental sites and two enrichment cultures were sequenced using Illumina HiSeq, and the reductive dehalogenase complement of each sample determined. The results indicate that the diversity of the reductive dehalogenase gene family is much deeper than is currently accounted for: one-third of the translated proteins have less than 70% pairwise amino acid identity to database sequences. Approximately 60% of the sequenced reductive dehalogenase genes were broadly distributed, being identified in four or more samples, and often in previously sequenced genomes as well. In contrast, 17% of the sequenced reductive dehalogenases were unique, present in only a single sample and bearing less than 90% pairwise amino acid identity to any previously identified proteins. Many of the broadly distributed reductive dehalogenases are uncharacterized in terms of their substrate specificity, making these intriguing targets for further biochemical experimentation. Finally, comparison of samples from a contaminated site and an enrichment culture derived from the same site eight years prior allowed examination of the effect of the enrichment process.

  6. Influenza-A viruses in ducks in northwestern Minnesota: fine scale spatial and temporal variation in prevalence and subtype diversity

    Data.gov (United States)

    Department of the Interior — Waterfowl from northwestern Minnesota were sampled by cloacal swabbing for Avian Influenza Virus (AIV) from July – October in 2007 and 2008. AIV was detected in 222...

  7. Social Communication Coaching Smartglasses: Well Tolerated in a Diverse Sample of Children and Adults With Autism.

    Science.gov (United States)

    Keshav, Neha U; Salisbury, Joseph P; Vahabzadeh, Arshya; Sahin, Ned T

    2017-09-21

    Augmented reality (AR) smartglasses are an emerging technology that is under investigation as a social communication aid for children and adults with autism spectrum disorder (ASD) and as a research tool to aid with digital phenotyping. Tolerability of this wearable technology in people with ASD is an important area for research, especially as these individuals may experience sensory, cognitive, and attentional challenges. The aim of this study was to assess the tolerability and usability of a novel smartglasses system that has been designed as a social communication aid for children and adults with autism (the Brain Power Autism System [BPAS]). BPAS runs on Google Glass Explorer Edition and other smartglasses, uses both AR and affective artificial intelligence, and helps users learn key social and emotional skills. A total of 21 children and adults with ASD across a spectrum of severity used BPAS for a coaching session. The user's tolerability to the smartglasses, user being able to wear the smartglasses for 1 minute (initial tolerability threshold), and user being able to wear the smartglasses for the entire duration of the coaching session (whole session tolerability threshold) were determined through caregiver report. Of 21 users, 19 (91%) demonstrated tolerability on all 3 measures. Caregivers reported 21 out of 21 users (100%) as tolerating the experience, while study staff found only 19 out of 21 users managed to demonstrate initial tolerability (91%). Of the 19 users who demonstrated initial tolerability, all 19 (100%) were able to use the smartglasses for the entire session (whole session tolerability threshold). Caregivers reported that 19 out of 21 users (91%) successfully used BPAS, and users surpassed caregiver expectations in 15 of 21 cases (71%). Users who could communicate reported BPAS as being comfortable (94%). This preliminary report suggests that BPAS is well tolerated and usable to a diverse age- and severity-range of people with ASD. This is

  8. Global analysis of population structure, spatial and temporal dynamics of genetic diversity, and evolutionary lineages of Iris yellow spot virus (Tospovirus: Bunyaviridae).

    Science.gov (United States)

    Iftikhar, Romana; Ramesh, Shunmugiah V; Bag, Sudeep; Ashfaq, Muhammad; Pappu, Hanu R

    2014-08-15

    Thrips-transmitted Iris yellow spot virus is an economically important viral pathogen of Allium crops worldwide. A global analysis of known IYSV nucleocapsid gene (N gene) sequences was carried out to determine the comparative population structure, spatial and temporal dynamics with reference to its genetic diversity and evolution. A total of 98 complete N gene sequences (including 8 sequences reported in this study) available in GenBank and reported from 23 countries were characterized by in-silico RFLP analysis. Based on RFLP, 94% of the isolates could be grouped into NL or BR types while the rest belonged to neither group. The relative proportion of NL and BR types was 46% and 48%, respectively. A temporal shift in the IYSV genotypes with a greater incremental incidence of IYSVBR was found over IYSVNL before 2005 compared to after 2005. The virus population had at least one evolutionarily significant recombination event, involving IYSVBR and IYSVNL. Codon substitution studies did not identify any significant differences among the genotypes of IYSV. However, N gene codons were minimally positively selected, moderately negatively selected denoting the action of purifying selection, thus rejecting the theory of neutral mutation in IYSV population. However, one codon position (139) was found to be positively selected in all the genotypes. Population selection statistics in the IYSVBR, IYSVNL genotypes and in the population as a whole also revealed the action of purifying selection or population expansion, whereas IYSVother displayed a decrease in population size. Genetic differentiation studies showed inherent differentiation and infrequent gene flow between IYSVBR and IYSVNL genotypes corroborating the geographical confinement of these genotypes. Taken together the study suggests that the observed diversity in IYSV population and temporal shift in IYSVBR genotype is attributable to genetic recombination, abundance of purifying selection, insignificant positive

  9. Detection of a diverse marine fish fauna using environmental DNA from seawater samples

    DEFF Research Database (Denmark)

    Thomsen, Philip Francis; Kielgast, Jos; Iversen, Lars Lønsmann

    2012-01-01

    eDNA from 15 different fish species, including both important consumption species, as well as species rarely or never recorded by conventional monitoring. We also detect eDNA from a rare vagrant species in the area; European pilchard (Sardina pilchardus). Additionally, we detect four bird species......Marine ecosystems worldwide are under threat with many fish species and populations suffering from human over-exploitation. This is greatly impacting global biodiversity, economy and human health. Intriguingly, marine fish are largely surveyed using selective and invasive methods, which are mostly...... for marine fish biodiversity. This eDNA approach has recently been used successfully in freshwater environments, but never in marine settings. We isolate eDNA from 1/2-litre seawater samples collected in a temperate marine ecosystem in Denmark. Using next-generation DNA sequencing of PCR amplicons, we obtain...

  10. Realistic weight perception and body size assessment in a racially diverse community sample of dieters.

    Science.gov (United States)

    Cachelin, F M; Striegel-Moore, R H; Elder, K A

    1998-01-01

    Recently, a shift in obesity treatment away from emphasizing ideal weight loss goals to establishing realistic weight loss goals has been proposed; yet, what constitutes "realistic" weight loss for different populations is not clear. This study examined notions of realistic shape and weight as well as body size assessment in a large community-based sample of African-American, Asian, Hispanic, and white men and women. Participants were 1893 survey respondents who were all dieters and primarily overweight. Groups were compared on various variables of body image assessment using silhouette ratings. No significant race differences were found in silhouette ratings, nor in perceptions of realistic shape or reasonable weight loss. Realistic shape and weight ratings by both women and men were smaller than current shape and weight but larger than ideal shape and weight ratings. Compared with male dieters, female dieters considered greater weight loss to be realistic. Implications of the findings for the treatment of obesity are discussed.

  11. Urban green spaces and plant diversity at different spatial–temporal scales: A case study from Beijing, China

    Directory of Open Access Journals (Sweden)

    Wang, H. F.

    2015-12-01

    Full Text Available Beijing, the capital city of China, is one of the largest and most rapidly-urbanizing cities in the world. In this work, we present the main results of one decade’s research on urban vegetation and plant diversity changes in different urban structural units. Urban vegetation/plant diversity has been studied at two different levels: at the landscape level (greening percentage, fragmentation degree and at the plant species level (structure, composition, and origin. Finally, concerns with the ability to study Beijing’s plant urban ecology are discussed.Pekín, la capital de China, es una de las urbes más pobladas y a la vez con una de las tasas de expansión urbana más rápidas del mundo. En el presente trabajo, se presentan los principales resultados tras una década de estudio de los cambios en la vegetación y diversidad vegetal urbana a lo largo de las diferentes unidades estructurales urbanas. La vegetación y la diversidad vegetal urbana se han estudiado a dos niveles: a nivel de paisaje (porcentaje de zonas verdes, grado de fragmentación y a nivel de especie (estructura, composición y origen. En último lugar se discuten algunos aspectos relacionados con la metodología de estudio de la ecología urbana en Pekín. [zh] 不同时空尺度上的城市绿地和植物多样性:以北京市为例。— 中国的首都北京是世界上最大且发展最快的城 市之一。本文展示了过去10余年间北京不同城市结构单元中城市绿地和植物多样性变化的主要研究结果。我 们对城市绿地和植物多样性在两个不同的尺度上进行了研究:在景观尺度上(如绿化率,破碎化程度等)和 植物群落尺度上(植物结构,组成和来源等)。最后,我们对未来城市植物学研究谈了几点看法。

  12. The relationships among coping styles and fatigue in an ethnically diverse sample.

    Science.gov (United States)

    Njoku, Mary Gloria C; Jason, Leonard A; Torres-Harding, Susan R

    2005-11-01

    The present study focused on coping strategies among African Americans, Latinos, and European Americans with chronic fatigue syndrome (CFS) and idiopathic chronic fatigue (ICF). The coping strategies examined were measured by using the COPE Scales, which assess Seeking Emotional Social Support, Positive Reinterpretation and Growth, Acceptance, Denial, Turning to Religion, Behavioral Disengagement, and Focusing on and Venting Emotions. In addition, the four coping strategies specifically designed for people with CFS, including maintaining activity, accommodating to the illness, focusing on symptoms, and information-seeking, were used in this study. It was hypothesized that African Americans and Latinos in comparison to European Americans would be more likely to use religious coping, behavioral disengagement, and denial. As predicted, African Americans were significantly more likely to turn to religion than European Americans, and Latinos and African Americans used denial significantly more often than European Americans. An additional finding was that focusing on symptoms was associated with greater fatigue and more physical disability among African Americans. Within the Latino sample, acceptance was related to greater fatigue and less physical disability, and greater optimism predicted less mental disability. Among European American participants, maintaining activity was related to less mental disability, whereas accommodating to the illness predicted more physical disability. These results indicate that coping varies among various ethnic groups with CFS and ICF; however, denial is consistently related to less adaptive outcomes. Therefore, healthcare professionals should find ways to reduce patient use of denial and promote alternative strategies for managing life events.

  13. The geographic diversity of nontuberculous mycobacteria isolated from pulmonary samples: an NTM-NET collaborative study.

    Science.gov (United States)

    Hoefsloot, Wouter; van Ingen, Jakko; Andrejak, Claire; Angeby, Kristian; Bauriaud, Rosine; Bemer, Pascale; Beylis, Natalie; Boeree, Martin J; Cacho, Juana; Chihota, Violet; Chimara, Erica; Churchyard, Gavin; Cias, Raquel; Daza, Rosa; Daley, Charles L; Dekhuijzen, P N Richard; Domingo, Diego; Drobniewski, Francis; Esteban, Jaime; Fauville-Dufaux, Maryse; Folkvardsen, Dorte Bek; Gibbons, Noel; Gómez-Mampaso, Enrique; Gonzalez, Rosa; Hoffmann, Harald; Hsueh, Po-Ren; Indra, Alexander; Jagielski, Tomasz; Jamieson, Frances; Jankovic, Mateja; Jong, Eefje; Keane, Joseph; Koh, Wo-Jung; Lange, Berit; Leao, Sylvia; Macedo, Rita; Mannsåker, Turid; Marras, Theodore K; Maugein, Jeannette; Milburn, Heather J; Mlinkó, Tamas; Morcillo, Nora; Morimoto, Kozo; Papaventsis, Dimitrios; Palenque, Elia; Paez-Peña, Mar; Piersimoni, Claudio; Polanová, Monika; Rastogi, Nalin; Richter, Elvira; Ruiz-Serrano, Maria Jesus; Silva, Anabela; da Silva, M Pedro; Simsek, Hulya; van Soolingen, Dick; Szabó, Nora; Thomson, Rachel; Tórtola Fernandez, Teresa; Tortoli, Enrico; Totten, Sarah E; Tyrrell, Greg; Vasankari, Tuula; Villar, Miguel; Walkiewicz, Renata; Winthrop, Kevin L; Wagner, Dirk

    2013-12-01

    A significant knowledge gap exists concerning the geographical distribution of nontuberculous mycobacteria (NTM) isolation worldwide. To provide a snapshot of NTM species distribution, global partners in the NTM-Network European Trials Group (NET) framework (www.ntm-net.org), a branch of the Tuberculosis Network European Trials Group (TB-NET), provided identification results of the total number of patients in 2008 in whom NTM were isolated from pulmonary samples. From these data, we visualised the relative distribution of the different NTM found per continent and per country. We received species identification data for 20 182 patients, from 62 laboratories in 30 countries across six continents. 91 different NTM species were isolated. Mycobacterium avium complex (MAC) bacteria predominated in most countries, followed by M. gordonae and M. xenopi. Important differences in geographical distribution of MAC species as well as M. xenopi, M. kansasii and rapid-growing mycobacteria were observed. This snapshot demonstrates that the species distribution among NTM isolates from pulmonary specimens in the year 2008 differed by continent and differed by country within these continents. These differences in species distribution may partly determine the frequency and manifestations of pulmonary NTM disease in each geographical location.

  14. Identification of fluency and word-finding difficulty in samples of children with diverse language backgrounds.

    Science.gov (United States)

    Howell, Peter; Tang, Kevin; Tuomainen, Outi; Chan, Sin Kan; Beltran, Kirsten; Mirawdeli, Avin; Harris, John

    2017-09-01

    Stuttering and word-finding difficulty (WFD) are two types of communication difficulty that occur frequently in children who learn English as an additional language (EAL), as well as those who only speak English. The two disorders require different, specific forms of intervention. Prior research has described the symptoms of each type of difficulty. This paper describes the development of a non-word repetition test (UNWR), applicable across languages, that was validated by comparing groups of children identified by their speech and language symptoms as having either stuttering or WFD. To evaluate whether non-word repetition scores using the UNWR test distinguished between children who stutter and those who have a WFD, irrespective of the children's first language. UNWR was administered to ninety-six 4-5-year-old children attending UK schools (20.83% of whom had EAL). The children's speech samples in English were assessed for symptoms of stuttering and WFD. UNWR scores were calculated. Regression models were fitted to establish whether language group (English only/EAL) and symptoms of (1) stuttering and (2) WFD predicted UNWR scores. Stuttering symptoms predicted UNWR, whereas WFD did not. These two findings suggest that UNWR scores dissociate stuttering from WFD. There were no differences between monolingual English-speakers and children who had EAL. UNWR scores distinguish between stuttering and WFD irrespective of language(s) spoken, allowing future evaluation of a range of languages in clinics or schools. © 2016 Royal College of Speech and Language Therapists.

  15. Blind identification of full-field vibration modes of output-only structures from uniformly-sampled, possibly temporally-aliased (sub-Nyquist), video measurements

    Science.gov (United States)

    Yang, Yongchao; Dorn, Charles; Mancini, Tyler; Talken, Zachary; Nagarajaiah, Satish; Kenyon, Garrett; Farrar, Charles; Mascareñas, David

    2017-03-01

    Enhancing the spatial and temporal resolution of vibration measurements and modal analysis could significantly benefit dynamic modelling, analysis, and health monitoring of structures. For example, spatially high-density mode shapes are critical for accurate vibration-based damage localization. In experimental or operational modal analysis, higher (frequency) modes, which may be outside the frequency range of the measurement, contain local structural features that can improve damage localization as well as the construction and updating of the modal-based dynamic model of the structure. In general, the resolution of vibration measurements can be increased by enhanced hardware. Traditional vibration measurement sensors such as accelerometers have high-frequency sampling capacity; however, they are discrete point-wise sensors only providing sparse, low spatial sensing resolution measurements, while dense deployment to achieve high spatial resolution is expensive and results in the mass-loading effect and modification of structure's surface. Non-contact measurement methods such as scanning laser vibrometers provide high spatial and temporal resolution sensing capacity; however, they make measurements sequentially that requires considerable acquisition time. As an alternative non-contact method, digital video cameras are relatively low-cost, agile, and provide high spatial resolution, simultaneous, measurements. Combined with vision based algorithms (e.g., image correlation or template matching, optical flow, etc.), video camera based measurements have been successfully used for experimental and operational vibration measurement and subsequent modal analysis. However, the sampling frequency of most affordable digital cameras is limited to 30-60 Hz, while high-speed cameras for higher frequency vibration measurements are extremely costly. This work develops a computational algorithm capable of performing vibration measurement at a uniform sampling frequency lower than

  16. Self-esteem, diet self-efficacy, body mass index, and eating disorders: modeling effects in an ethnically diverse sample.

    Science.gov (United States)

    Saunders, Jessica F; Frazier, Leslie D; Nichols-Lopez, Kristin A

    2016-09-01

    Disordered eating patterns, particularly binge eating, are prevalent in Hispanic samples, yet the biopsychosocial risk factors remain understudied in minority populations. The relationship between diet self-efficacy and bulimic symptoms has been established in non-Hispanic white samples but not yet in Hispanics. This study sought to identify the direct role of diet self-efficacy on eating disorder risk and symptomology in a multicultural Hispanic sample, and to investigate the potential indirect relations among diet self-efficacy, self-esteem, body mass index (BMI), and eating disorder risk and symptomology in Hispanics and non-Hispanic whites. The present study surveyed 1339 college students from diverse ethnic backgrounds. Participants completed four standardized scales to assess acculturation, diet self-efficacy, global self-esteem, and eating disorder symptomology and risk. Self-reported height and weight were used for BMI calculations, and the data were analyzed in a robust maximum-likelihood structural equation modeling (SEM) framework. The findings highlighted diet self-efficacy as a predictor of eating disorder risk and symptomology. Diet self-efficacy partially explained the covariation between self-esteem and eating disorder risk and symptomology, and between BMI and eating disorder risk and symptomology for the entire sample. Diet self-efficacy emerged as an important construct to consider in developing eating disorder prevention and treatment models.

  17. Bacterial diversity of autotrophic enriched cultures from remote, glacial Antarctic, Alpine and Andean aerosol, snow and soil samples

    Science.gov (United States)

    González-Toril, E.; Amils, R.; Delmas, R. J.; Petit, J.-R.; Komárek, J.; Elster, J.

    2009-01-01

    Four different communities and one culture of autotrophic microbial assemblages were obtained by incubation of samples collected from high elevation snow in the Alps (Mt. Blanc area) and the Andes (Nevado Illimani summit, Bolivia), from Antarctic aerosol (French station Dumont d'Urville) and a maritime Antarctic soil (King George Island, South Shetlands, Uruguay Station Artigas), in a minimal mineral (oligotrophic) media. Molecular analysis of more than 200 16S rRNA gene sequences showed that all cultured cells belong to the Bacteria domain. Phylogenetic comparison with the currently available rDNA database allowed sequences belonging to Proteobacteria Alpha-, Beta- and Gamma-proteobacteria), Actinobacteria and Bacteroidetes phyla to be identified. The Andes snow culture was the richest in bacterial diversity (eight microorganisms identified) and the marine Antarctic soil the poorest (only one). Snow samples from Col du Midi (Alps) and the Andes shared the highest number of identified microorganisms (Agrobacterium, Limnobacter, Aquiflexus and two uncultured Alphaproteobacteria clones). These two sampling sites also shared four sequences with the Antarctic aerosol sample (Limnobacter, Pseudonocardia and an uncultured Alphaproteobacteriaclone). The only microorganism identified in the Antarctica soil (Brevundimonas sp.) was also detected in the Antarctic aerosol. Most of the identified microorganisms had been detected previously in cold environments, marine sediments soils and rocks. Air current dispersal is the best model to explain the presence of very specific microorganisms, like those identified in this work, in environments very distant and very different from each other.

  18. Temporal and spatial regulation of anthocyanin biosynthesis provide diverse flower colour intensities and patterning in Cymbidium orchid.

    Science.gov (United States)

    Wang, Lei; Albert, Nick W; Zhang, Huaibi; Arathoon, Steve; Boase, Murray R; Ngo, Hanh; Schwinn, Kathy E; Davies, Kevin M; Lewis, David H

    2014-11-01

    This study confirmed pigment profiles in different colour groups, isolated key anthocyanin biosynthetic genes and established a basis to examine the regulation of colour patterning in flowers of Cymbidium orchid. Cymbidium orchid (Cymbidium hybrida) has a range of flower colours, often classified into four colour groups; pink, white, yellow and green. In this study, the biochemical and molecular basis for the different colour types was investigated, and genes involved in flavonoid/anthocyanin synthesis were identified and characterised. Pigment analysis across selected cultivars confirmed cyanidin 3-O-rutinoside and peonidin 3-O-rutinoside as the major anthocyanins detected; the flavonols quercetin and kaempferol rutinoside and robinoside were also present in petal tissue. β-carotene was the major carotenoid in the yellow cultivars, whilst pheophytins were the major chlorophyll pigments in the green cultivars. Anthocyanin pigments were important across all eight cultivars because anthocyanin accumulated in the flower labellum, even if not in the other petals/sepals. Genes encoding the flavonoid biosynthetic pathway enzymes chalcone synthase, flavonol synthase, flavonoid 3' hydroxylase (F3'H), dihydroflavonol 4-reductase (DFR) and anthocyanidin synthase (ANS) were isolated from petal tissue of a Cymbidium cultivar. Expression of these flavonoid genes was monitored across flower bud development in each cultivar, confirming that DFR and ANS were only expressed in tissues where anthocyanin accumulated. Phylogenetic analysis suggested a cytochrome P450 sequence as that of the Cymbidium F3'H, consistent with the accumulation of di-hydroxylated anthocyanins and flavonols in flower tissue. A separate polyketide synthase, identified as a bibenzyl synthase, was isolated from petal tissue but was not associated with pigment accumulation. Our analyses show the diversity in flower colour of Cymbidium orchid derives not from different individual pigments but from subtle

  19. Computationally efficient video restoration for Nyquist sampled imaging sensors combining an affine-motion-based temporal Kalman filter and adaptive Wiener filter.

    Science.gov (United States)

    Rucci, Michael; Hardie, Russell C; Barnard, Kenneth J

    2014-05-01

    In this paper, we present a computationally efficient video restoration algorithm to address both blur and noise for a Nyquist sampled imaging system. The proposed method utilizes a temporal Kalman filter followed by a correlation-model based spatial adaptive Wiener filter (AWF). The Kalman filter employs an affine background motion model and novel process-noise variance estimate. We also propose and demonstrate a new multidelay temporal Kalman filter designed to more robustly treat local motion. The AWF is a spatial operation that performs deconvolution and adapts to the spatially varying residual noise left in the Kalman filter stage. In image areas where the temporal Kalman filter is able to provide significant noise reduction, the AWF can be aggressive in its deconvolution. In other areas, where less noise reduction is achieved with the Kalman filter, the AWF balances the deconvolution with spatial noise reduction. In this way, the Kalman filter and AWF work together effectively, but without the computational burden of full joint spatiotemporal processing. We also propose a novel hybrid system that combines a temporal Kalman filter and BM3D processing. To illustrate the efficacy of the proposed methods, we test the algorithms on both simulated imagery and video collected with a visible camera.

  20. Sampling

    CERN Document Server

    Thompson, Steven K

    2012-01-01

    Praise for the Second Edition "This book has never had a competitor. It is the only book that takes a broad approach to sampling . . . any good personal statistics library should include a copy of this book." —Technometrics "Well-written . . . an excellent book on an important subject. Highly recommended." —Choice "An ideal reference for scientific researchers and other professionals who use sampling." —Zentralblatt Math Features new developments in the field combined with all aspects of obtaining, interpreting, and using sample data Sampling provides an up-to-date treat

  1. Dispersal and neutral sampling mediate contingent effects of disturbance on plant beta-diversity: a meta-analysis.

    Science.gov (United States)

    Catano, Christopher P; Dickson, Timothy L; Myers, Jonathan A

    2017-03-01

    A major challenge in ecology, conservation and global-change biology is to understand why biodiversity responds differently to similar environmental changes. Contingent biodiversity responses may depend on how disturbance and dispersal interact to alter variation in community composition (β-diversity) and assembly mechanisms. However, quantitative syntheses of these patterns and processes across studies are lacking. Using null-models and meta-analyses of 22 factorial experiments in herbaceous plant communities across Europe and North America, we show that disturbance diversifies communities when dispersal is limited, but homogenises communities when combined with increased immigration from the species pool. In contrast to the hypothesis that disturbance and dispersal mediate the strength of niche assembly, both processes altered β-diversity through neutral-sampling effects on numbers of individuals and species in communities. Our synthesis suggests that stochastic effects of disturbance and dispersal on community assembly play an important, but underappreciated, role in mediating biotic homogenisation and biodiversity responses to environmental change. © 2017 John Wiley & Sons Ltd/CNRS.

  2. Feeding practices and styles used by a diverse sample of low-income parents of preschool-age children.

    Science.gov (United States)

    Ventura, Alison K; Gromis, Judy C; Lohse, Barbara

    2010-01-01

    To describe the feeding practices and styles used by a diverse sample of low-income parents of preschool-age children. Thirty- to 60-minute meetings involving a semistructured interview and 2 questionnaires administered by the interviewer. Low-income communities in Philadelphia, PA. Thirty-two parents of 2- to 6-year-old children. The feeding practices and styles of low-income parents of preschoolers. Qualitative interviews analyzed iteratively following a thematic approach; quantitative data analyzed using nonparametric and chi-square tests. Qualitative analyses revealed parents used a myriad of feeding practices to accomplish child-feeding goals. Racial/ethnic differences were seen; East Asian parents used more child-focused decision-making processes, whereas black parents used more parent-focused decision-making processes. Quantitative analyses substantiated racial/ethnic differences; black parents placed significantly higher demands on children for the amounts (H = 5.89, 2 df, P = .05; Kruskal-Wallis) and types (H = 8.39, 2 df, P = .01; Kruskal-Wallis) of food eaten compared to parents of other races/ethnicities. In contrast, significantly higher proportions of East Asian parents were classified as having an indulgent feeding style compared to black parents and parents of other races/ethnicities (chi(2)[4, n = 32] = 9.29, P < .05). Findings provide support for tailoring nutrition education programs to meet the diverse needs of this target audience. Copyright 2010 Society for Nutrition Education. Published by Elsevier Inc. All rights reserved.

  3. Spatial and temporal patterns of bird species diversity in the Pantanal of Mato Grosso, Brazil: implications for conservation

    Directory of Open Access Journals (Sweden)

    J. E. C. Figueira

    Full Text Available Analysis of a three-year bird survey in the pantanal of Poconé revealed that most of the resident and seasonal birds are habitat generalists, using two or more habitats. In this study, previously sampled habitats were ranked in relation to species richness and stability (as measured by the ratio of seasonal to resident species. In all, nine habitats were grouped into three categories; results are as follows: 1 forests: more species-rich and more stable; 2 cerrado: intermediate levels; and 3 aquatic: less species-rich and less stable. The number of seasonal species remained relatively constant in forests throughout the year, while increasing in the other habitats during the dry season. The abundance of resident species seems to be related to species use of multiple habitats. Although many species were found to be habitat generalists, we discuss possible consequences of habitat loss and other human impacts on efforts to conserve this important bird community.

  4. Diversity of bacteria producing pigmented colonies in aerosol, snow and soil samples from remote glacial areas (Antarctica, Alps and Andes)

    Science.gov (United States)

    González-Toril, E.; Amils, R.; Delmas, R. J.; Petit, J.-R.; Komárek, J.; Elster, J.

    2008-04-01

    Four different communities and one culture of pigmented microbial assemblages were obtained by incubation in mineral medium of samples collected from high elevation snow in the Alps (Mt. Blanc area) and the Andes (Nevado Illimani summit, Bolivia), from Antarctic aerosol (French station Dumont d'Urville) and a maritime Antarctic soil (King George Island, South Shetlands, Uruguay Station Artigas). Molecular analysis of more than 200 16S rRNA gene sequences showed that all cultured cells belong to the Bacteria domain. The phylogenetic comparison with the currently available rDNA database allowed the identification of sequences belonging to Proteobacteria (Alpha-, Beta- and Gamma-proteobacteria), Actinobacteria and Bacteroidetes phyla. The Andes snow culture was the richest in bacterial diversity (eight microorganisms identified) and the maritime Antarctic soil the poorest (only one). Snow samples from Col du midi (Alps) and the Andes shared the highest number of identified microorganisms (Agrobacterium, Limnobacter, Aquiflexus and two uncultured Alphaproteobacteria clones). These two sampling sites also shared four sequences with the Antarctic aerosol sample (Limnobacter, Pseudonocardia and an uncultured Alphaproteobacteria clone). The only microorganism identified in the maritime Antarctica soil (Brevundimonas sp.) was also detected in the Antarctic aerosol. The two snow samples from the Alps only shared one common microorganism. Most of the identified microorganisms have been detected previously in cold environments (Dietzia kujamenisi, Pseudonocardia Antarctica, Hydrogenophaga palleronii and Brebundimonas sp.), marine sediments (Aquiflexus balticus, Pseudomonas pseudoalkaligenes, Pseudomonas sp. and one uncultured Alphaproteobacteria), and soils and rocks (Pseudonocardia sp., Agrobactrium sp., Limnobacter sp. and two uncultured Alphaproteobacetria clones). Air current dispersal is the best model to explain the presence of very specific microorganisms, like those

  5. Longitudinal Prediction of Suicide Attempts for a Diverse Adolescent Sample of Native Hawaiians, Pacific Peoples, and Asian Americans.

    Science.gov (United States)

    Hishinuma, Earl S; Smith, Myra D; McCarthy, Kayne; Lee, Mark; Goebert, Deborah A; Sugimoto-Matsuda, Jeanelle J; Andrade, Naleen N; Philip, Jacques B; Chung-Do, Jane J; Hamamoto, Reid S; Andrade, Joy K L

    2017-01-10

    The objective of this study was to determine the longitudinal predictors of past-6-month suicide attempts for a diverse adolescent sample of Native Hawaiians, Pacific peoples, and Asian Americans. The study used longitudinal data from the Hawaiian High Schools Health Survey (N = 2,083, 9th to 11th graders, 1992-1993 and 1993-1994 school years). A stepwise multiple logistic regression was conducted. The final model consisted of three statistically significant predictors: (1) Time 1 suicide attempt, odds ratio = 30.6; (2) state anxiety, odds ratio = 4.9; and (3) parent expectations, odds ratio = 1.9. Past suicide attempt was by far the strongest predictor of future suicide attempts. Implications are discussed, including the need for screening of prior suicide attempts and focused interventions after suicide attempts.

  6. DArT, SNP, and SSR analyses of genetic diversity in Lolium perenne L. using bulk sampling.

    Science.gov (United States)

    Liu, Siyang; Feuerstein, Ulf; Luesink, Wilbert; Schulze, Sabine; Asp, Torben; Studer, Bruno; Becker, Heiko C; Dehmer, Klaus J

    2018-01-22

    Lolium perenne L. is the most important forage grass species in temperate regions. It is also considered as a sustainable source of biomass for energy production. However, improvement in biomass yield has been limited by comparison with other major crops. More efficient utilisation of genetic resources and improved breeding schemes are required to advance L. perenne breeding. In an attempt to elucidate the extent of genetic diversity in L. perenne, 1384 DArT, 182 SNP and 48 SSR markers were applied to 297 accessions (Set I) contributed by three German breeding companies and the IPK Genebank. Due to the heterogeneous nature of Lolium accessions, bulk samples were used. Apart from germplasm set I, additional set II and set III was used to determine the reproducibility of marker system and judge the feasibility of bulk strategy in this study. By assessing different bulk sizes, 24 individuals per sample were shown to be a representative number of plants to discriminate different accessions. Among the 297 accessions, all marker types revealed a high polymorphism rate; 1.99, 2.00 and 8.19 alleles, were obtained per locus on average using DArTs, SNPs and SSRs, respectively. The Jaccard distance for DArT markers ranged from 0.00 to 0.73, the Modified Roger's distance (MRD) for SNP markers ranged from 0.03 to 0.52, and for SSR markers from 0.26 to 0.76. Gene diversity for dominant DArT and co-dominant SNP and SSR markers was found to be 0.26, 0.32 and 0.45, respectively. DArT markers showed the highest consistency and reproducibility. The resulting data were evaluated using a number of different classification methods, but none of the methods showed a clear differentiation into distinct genetic pools. With regard to hybrid breeding, this will possibly impede substantial progress towards increased biomass yields of L. perenne by utilising heterosis.

  7. Ultradeep 16S rRNA sequencing analysis of geographically similar but diverse unexplored marine samples reveal varied bacterial community composition.

    Directory of Open Access Journals (Sweden)

    Chairmandurai Aravindraja

    Full Text Available BACKGROUND: Bacterial community composition in the marine environment differs from one geographical location to another. Reports that delineate the bacterial diversity of different marine samples from geographically similar location are limited. The present study aims to understand whether the bacterial community compositions from different marine samples harbour similar bacterial diversity since these are geographically related to each other. METHODS AND PRINCIPAL FINDINGS: In the present study, 16S rRNA deep sequencing analysis targeting V3 region was performed using Illumina bar coded sequencing. A total of 22.44 million paired end reads were obtained from the metagenomic DNA of Marine sediment, Rhizosphere sediment, Seawater and the epibacterial DNA of Seaweed and Seagrass. Diversity index analysis revealed that Marine sediment has the highest bacterial diversity and the least bacterial diversity was observed in Rhizosphere sediment. Proteobacteria, Actinobacteria and Bacteroidetes were the dominant taxa present in all the marine samples. Nearly 62-71% of rare species were identified in all the samples and most of these rare species were unique to a particular sample. Further taxonomic assignment at the phylum and genus level revealed that the bacterial community compositions differ among the samples. CONCLUSION: This is the first report that supports the fact that, bacterial community composition is specific for specific samples irrespective of its similar geographical location. Existence of specific bacterial community for each sample may drive overall difference in bacterial structural composition of each sample. Further studies like whole metagenomic sequencing will throw more insights to the key stone players and its interconnecting metabolic pathways. In addition, this is one of the very few reports that depicts the unexplored bacterial diversity of marine samples (Marine sediment, Rhizosphere sediment, Seawater and the host associated

  8. Ultradeep 16S rRNA sequencing analysis of geographically similar but diverse unexplored marine samples reveal varied bacterial community composition.

    Science.gov (United States)

    Aravindraja, Chairmandurai; Viszwapriya, Dharmaprakash; Karutha Pandian, Shunmugiah

    2013-01-01

    Bacterial community composition in the marine environment differs from one geographical location to another. Reports that delineate the bacterial diversity of different marine samples from geographically similar location are limited. The present study aims to understand whether the bacterial community compositions from different marine samples harbour similar bacterial diversity since these are geographically related to each other. In the present study, 16S rRNA deep sequencing analysis targeting V3 region was performed using Illumina bar coded sequencing. A total of 22.44 million paired end reads were obtained from the metagenomic DNA of Marine sediment, Rhizosphere sediment, Seawater and the epibacterial DNA of Seaweed and Seagrass. Diversity index analysis revealed that Marine sediment has the highest bacterial diversity and the least bacterial diversity was observed in Rhizosphere sediment. Proteobacteria, Actinobacteria and Bacteroidetes were the dominant taxa present in all the marine samples. Nearly 62-71% of rare species were identified in all the samples and most of these rare species were unique to a particular sample. Further taxonomic assignment at the phylum and genus level revealed that the bacterial community compositions differ among the samples. This is the first report that supports the fact that, bacterial community composition is specific for specific samples irrespective of its similar geographical location. Existence of specific bacterial community for each sample may drive overall difference in bacterial structural composition of each sample. Further studies like whole metagenomic sequencing will throw more insights to the key stone players and its interconnecting metabolic pathways. In addition, this is one of the very few reports that depicts the unexplored bacterial diversity of marine samples (Marine sediment, Rhizosphere sediment, Seawater) and the host associated marine samples (Seaweed and Seagrass) at higher depths from

  9. Bacterial diversity of autotrophic enriched cultures from remote, glacial Antarctic, Alpine and Andean aerosol, snow and soil samples

    Directory of Open Access Journals (Sweden)

    E. González-Toril

    2009-01-01

    Full Text Available Four different communities and one culture of autotrophic microbial assemblages were obtained by incubation of samples collected from high elevation snow in the Alps (Mt. Blanc area and the Andes (Nevado Illimani summit, Bolivia, from Antarctic aerosol (French station Dumont d'Urville and a maritime Antarctic soil (King George Island, South Shetlands, Uruguay Station Artigas, in a minimal mineral (oligotrophic media. Molecular analysis of more than 200 16S rRNA gene sequences showed that all cultured cells belong to the Bacteria domain. Phylogenetic comparison with the currently available rDNA database allowed sequences belonging to Proteobacteria Alpha-, Beta- and Gamma-proteobacteria, Actinobacteria and Bacteroidetes phyla to be identified. The Andes snow culture was the richest in bacterial diversity (eight microorganisms identified and the marine Antarctic soil the poorest (only one. Snow samples from Col du Midi (Alps and the Andes shared the highest number of identified microorganisms (Agrobacterium, Limnobacter, Aquiflexus and two uncultured Alphaproteobacteria clones. These two sampling sites also shared four sequences with the Antarctic aerosol sample (Limnobacter, Pseudonocardia and an uncultured Alphaproteobacteriaclone. The only microorganism identified in the Antarctica soil (Brevundimonas sp. was also detected in the Antarctic aerosol. Most of the identified microorganisms had been detected previously in cold environments, marine sediments soils and rocks. Air current dispersal is the best model to explain the presence of very specific microorganisms, like those identified in this work, in environments very distant and very different from each other.

  10. Sexual identity development and self-esteem as predictors of body image in a racially diverse sample of gay men.

    Science.gov (United States)

    Udall-Weiner, Dana

    2009-01-01

    The current study examined the relationship between sexual identity development and body image, as well as the potential mediating effect of self-esteem, in a community sample of gay men. A diverse group of participants (N = 172), recruited through listservs and flyers, completed an online survey. Regression analyses were conducted to assess the relationships between identity development and self-esteem, identity development and body image, self-esteem and body image, and the mediating role of self-esteem. As predicted, significant relationships were identified between each pair of variables, and self-esteem was found to be a mediator when the sample was considered as a whole. When participants of color were compared to those who were White, however, between-group differences emerged; identity stage did not predict self-esteem or body image for participants of color, nor did the mediated relationship exist. Self-esteem did predict body image in both groups. The sociocultural context of these findings is considered.

  11. Diversity in the stellar velocity dispersion profiles of a large sample of Brightest Cluster Galaxies z ≤ 0.3

    Science.gov (United States)

    Loubser, S. I.; Hoekstra, H.; Babul, A.; O'Sullivan, E.

    2018-02-01

    We analyse spatially-resolved deep optical spectroscopy of Brightest Cluster Galaxies (BCGs) located in 32 massive clusters with redshifts of 0.05 ≤z ≤ 0.30, to investigate their velocity dispersion profiles. We compare these measurements to those of other massive early-type galaxies, as well as central group galaxies, where relevant. This unique, large sample extends to the most extreme of massive galaxies, spanning MK between -25.7 to -27.8 mag, and host cluster halo mass M500 up to 1.7 × 1015 M⊙. To compare the kinematic properties between brightest group and cluster members, we analyse similar spatially-resolved long-slit spectroscopy for 23 nearby Brightest Group Galaxies (BGGs) from the Complete Local-Volume Groups Sample (CLoGS). We find a surprisingly large variety in velocity dispersion slopes for BCGs, with a significantly larger fraction of positive slopes, unique compared to other (non-central) early-type galaxies as well as the majority of the brightest members of the groups. We find that the velocity dispersion slopes of the BCGs and BGGs correlate with the luminosity of the galaxies, and we quantify this correlation. It is not clear whether the full diversity in velocity dispersion slopes that we see is reproduced in simulations.

  12. Impacts of organic and conventional crop management on diversity and activity of free-living nitrogen fixing bacteria and total bacteria are subsidiary to temporal effects.

    Science.gov (United States)

    Orr, Caroline H; Leifert, Carlo; Cummings, Stephen P; Cooper, Julia M

    2012-01-01

    A three year field study (2007-2009) of the diversity and numbers of the total and metabolically active free-living diazotophic bacteria and total bacterial communities in organic and conventionally managed agricultural soil was conducted using the Nafferton Factorial Systems Comparison (NFSC) study, in northeast England. Fertility management appeared to have little impact on both diazotrophic and total bacterial communities. However, copy numbers of the nifH gene did appear to be negatively impacted by conventional crop protection measures across all years suggesting diazotrophs may be particularly sensitive to pesticides. Impacts of crop management were greatly overshadowed by the influence of temporal effects with diazotrophic communities changing on a year by year basis and from season to season. Quantitative analyses using qPCR of each community indicated that metabolically active diazotrophs were highest in year 1 but the population significantly declined in year 2 before recovering somewhat in the final year. The total bacterial population in contrast increased significantly each year. It appeared that the dominant drivers of qualitative and quantitative changes in both communities were annual and seasonal effects. Moreover, regression analyses showed activity of both communities was significantly affected by soil temperature and climatic conditions.

  13. Impacts of Organic and Conventional Crop Management on Diversity and Activity of Free-Living Nitrogen Fixing Bacteria and Total Bacteria Are Subsidiary to Temporal Effects

    Science.gov (United States)

    Orr, Caroline H.; Leifert, Carlo; Cummings, Stephen P.; Cooper, Julia M.

    2012-01-01

    A three year field study (2007–2009) of the diversity and numbers of the total and metabolically active free-living diazotophic bacteria and total bacterial communities in organic and conventionally managed agricultural soil was conducted using the Nafferton Factorial Systems Comparison (NFSC) study, in northeast England. Fertility management appeared to have little impact on both diazotrophic and total bacterial communities. However, copy numbers of the nifH gene did appear to be negatively impacted by conventional crop protection measures across all years suggesting diazotrophs may be particularly sensitive to pesticides. Impacts of crop management were greatly overshadowed by the influence of temporal effects with diazotrophic communities changing on a year by year basis and from season to season. Quantitative analyses using qPCR of each community indicated that metabolically active diazotrophs were highest in year 1 but the population significantly declined in year 2 before recovering somewhat in the final year. The total bacterial population in contrast increased significantly each year. It appeared that the dominant drivers of qualitative and quantitative changes in both communities were annual and seasonal effects. Moreover, regression analyses showed activity of both communities was significantly affected by soil temperature and climatic conditions. PMID:23285218

  14. High temporal and spatial diversity in marine RNA viruses implies that they have an important role in mortality and structuring plankton communities

    Directory of Open Access Journals (Sweden)

    Julia Anne Gustavsen

    2014-12-01

    Full Text Available Viruses in the order Picornavirales infect eukaryotes, and are widely distributed in coastal waters. Amplicon deep-sequencing of the RNA dependent RNA polymerase (RdRp revealed diverse and highly uneven communities of picorna-like viruses in the coastal waters of British Columbia (B.C., Canada. Almost 300 000 pyrosequence reads revealed 145 operational taxonomic units (OTUs based on 95% sequence similarity at the amino-acid level. Each sample had between 24 and 71 OTUs and there was little overlap among samples. Phylogenetic analysis revealed that some clades of OTUs were only found at one site; whereas, other groups included OTUs from all sites. Since most of these OTUs are likely from viruses that infect eukaryotic phytoplankton, and viral isolates infecting phytoplankton are strain-specific; each OTU probably arose from the lysis of a specific phytoplankton taxon. Moreover, the patchiness in OTU distribution, and the high turnover of viruses in the mixed layer, implies continuous infection and lysis by RNA viruses of a diverse array of eukaryotic phytoplankton taxa. Hence, these viruses are likely important elements structuring the phytoplankton community, and play a significant role in nutrient cycling and energy transfer.

  15. A high diversity of Eurasian lineage low pathogenicity avian influenza A viruses circulate among wild birds sampled in Egypt.

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    Nancy A Gerloff

    Full Text Available Surveillance for influenza A viruses in wild birds has increased substantially as part of efforts to control the global movement of highly pathogenic avian influenza A (H5N1 virus. Studies conducted in Egypt from 2003 to 2007 to monitor birds for H5N1 identified multiple subtypes of low pathogenicity avian influenza A viruses isolated primarily from migratory waterfowl collected in the Nile Delta. Phylogenetic analysis of 28 viral genomes was performed to estimate their nearest ancestors and identify possible reassortants. Migratory flyway patterns were included in the analysis to assess gene flow between overlapping flyways. Overall, the viruses were most closely related to Eurasian, African and/or Central Asian lineage low pathogenicity viruses and belonged to 15 different subtypes. A subset of the internal genes seemed to originate from specific flyways (Black Sea-Mediterranean, East African-West Asian. The remaining genes were derived from a mixture of viruses broadly distributed across as many as 4 different flyways suggesting the importance of the Nile Delta for virus dispersal. Molecular clock date estimates suggested that the time to the nearest common ancestor of all viruses analyzed ranged from 5 to 10 years, indicating frequent genetic exchange with viruses sampled elsewhere. The intersection of multiple migratory bird flyways and the resulting diversity of influenza virus gene lineages in the Nile Delta create conditions favoring reassortment, as evident from the gene constellations identified by this study. In conclusion, we present for the first time a comprehensive phylogenetic analysis of full genome sequences from low pathogenic avian influenza viruses circulating in Egypt, underscoring the significance of the region for viral reassortment and the potential emergence of novel avian influenza A viruses, as well as representing a highly diverse influenza A virus gene pool that merits continued monitoring.

  16. Bacterial Diversity in Oral Samples of Children in Niger with Acute Noma, Acute Necrotizing Gingivitis, and Healthy Controls

    Science.gov (United States)

    Stadelmann, Benoît; Baratti-Mayer, Denise; Gizard, Yann; Mombelli, Andrea; Pittet, Didier; Schrenzel, Jacques

    2012-01-01

    Background Noma is a gangrenous disease that leads to severe disfigurement of the face with high morbidity and mortality, but its etiology remains unknown. Young children in developing countries are almost exclusively affected. The purpose of the study was to record and compare bacterial diversity in oral samples from children with or without acute noma or acute necrotizing gingivitis from a defined geographical region in Niger by culture-independent molecular methods. Methods and Principal Findings Gingival samples from 23 healthy children, nine children with acute necrotizing gingivitis, and 23 children with acute noma (both healthy and diseased oral sites) were amplified using “universal” PCR primers for the 16 S rRNA gene and pooled according to category (noma, healthy, or acute necrotizing gingivitis), gender, and site status (diseased or control site). Seven libraries were generated. A total of 1237 partial 16 S rRNA sequences representing 339 bacterial species or phylotypes at a 98–99% identity level were obtained. Analysis of bacterial composition and frequency showed that diseased (noma or acute necrotizing gingivitis) and healthy site bacterial communities are composed of similar bacteria, but differ in the prevalence of a limited group of phylotypes. Large increases in counts of Prevotella intermedia and members of the Peptostreptococcus genus are associated with disease. In contrast, no clear-cut differences were found between noma and non-noma libraries. Conclusions Similarities between acute necrotizing gingivitis and noma samples support the hypothesis that the disease could evolve from acute necrotizing gingivitis in certain children for reasons still to be elucidated. This study revealed oral microbiological patterns associated with noma and acute necrotizing gingivitis, but no evidence was found for a specific infection-triggering agent. PMID:22413030

  17. Bacterial diversity in oral samples of children in niger with acute noma, acute necrotizing gingivitis, and healthy controls.

    Directory of Open Access Journals (Sweden)

    Ignacio Bolivar

    Full Text Available Noma is a gangrenous disease that leads to severe disfigurement of the face with high morbidity and mortality, but its etiology remains unknown. Young children in developing countries are almost exclusively affected. The purpose of the study was to record and compare bacterial diversity in oral samples from children with or without acute noma or acute necrotizing gingivitis from a defined geographical region in Niger by culture-independent molecular methods.Gingival samples from 23 healthy children, nine children with acute necrotizing gingivitis, and 23 children with acute noma (both healthy and diseased oral sites were amplified using "universal" PCR primers for the 16 S rRNA gene and pooled according to category (noma, healthy, or acute necrotizing gingivitis, gender, and site status (diseased or control site. Seven libraries were generated. A total of 1237 partial 16 S rRNA sequences representing 339 bacterial species or phylotypes at a 98-99% identity level were obtained. Analysis of bacterial composition and frequency showed that diseased (noma or acute necrotizing gingivitis and healthy site bacterial communities are composed of similar bacteria, but differ in the prevalence of a limited group of phylotypes. Large increases in counts of Prevotella intermedia and members of the Peptostreptococcus genus are associated with disease. In contrast, no clear-cut differences were found between noma and non-noma libraries.Similarities between acute necrotizing gingivitis and noma samples support the hypothesis that the disease could evolve from acute necrotizing gingivitis in certain children for reasons still to be elucidated. This study revealed oral microbiological patterns associated with noma and acute necrotizing gingivitis, but no evidence was found for a specific infection-triggering agent.

  18. Bacterial diversity in oral samples of children in niger with acute noma, acute necrotizing gingivitis, and healthy controls.

    Science.gov (United States)

    Bolivar, Ignacio; Whiteson, Katrine; Stadelmann, Benoît; Baratti-Mayer, Denise; Gizard, Yann; Mombelli, Andrea; Pittet, Didier; Schrenzel, Jacques

    2012-01-01

    Noma is a gangrenous disease that leads to severe disfigurement of the face with high morbidity and mortality, but its etiology remains unknown. Young children in developing countries are almost exclusively affected. The purpose of the study was to record and compare bacterial diversity in oral samples from children with or without acute noma or acute necrotizing gingivitis from a defined geographical region in Niger by culture-independent molecular methods. Gingival samples from 23 healthy children, nine children with acute necrotizing gingivitis, and 23 children with acute noma (both healthy and diseased oral sites) were amplified using "universal" PCR primers for the 16 S rRNA gene and pooled according to category (noma, healthy, or acute necrotizing gingivitis), gender, and site status (diseased or control site). Seven libraries were generated. A total of 1237 partial 16 S rRNA sequences representing 339 bacterial species or phylotypes at a 98-99% identity level were obtained. Analysis of bacterial composition and frequency showed that diseased (noma or acute necrotizing gingivitis) and healthy site bacterial communities are composed of similar bacteria, but differ in the prevalence of a limited group of phylotypes. Large increases in counts of Prevotella intermedia and members of the Peptostreptococcus genus are associated with disease. In contrast, no clear-cut differences were found between noma and non-noma libraries. Similarities between acute necrotizing gingivitis and noma samples support the hypothesis that the disease could evolve from acute necrotizing gingivitis in certain children for reasons still to be elucidated. This study revealed oral microbiological patterns associated with noma and acute necrotizing gingivitis, but no evidence was found for a specific infection-triggering agent.

  19. Mobile acoustic transects miss rare bat species: implications of survey method and spatio-temporal sampling for monitoring bats.

    Science.gov (United States)

    Braun de Torrez, Elizabeth C; Wallrichs, Megan A; Ober, Holly K; McCleery, Robert A

    2017-01-01

    Due to increasing threats facing bats, long-term monitoring protocols are needed to inform conservation strategies. Effective monitoring should be easily repeatable while capturing spatio-temporal variation. Mobile acoustic driving transect surveys ('mobile transects') have been touted as a robust, cost-effective method to monitor bats; however, it is not clear how well mobile transects represent dynamic bat communities, especially when used as the sole survey approach. To assist biologists who must select a single survey method due to resource limitations, we assessed the effectiveness of three acoustic survey methods at detecting species richness in a vast protected area (Everglades National Park): (1) mobile transects, (2) stationary surveys that were strategically located by sources of open water and (3) stationary surveys that were replicated spatially across the landscape. We found that mobile transects underrepresented bat species richness compared to stationary surveys across all major vegetation communities and in two distinct seasons (dry/cool and wet/warm). Most critically, mobile transects failed to detect three rare bat species, one of which is federally endangered. Spatially replicated stationary surveys did not estimate higher species richness than strategically located stationary surveys, but increased the rate at which species were detected in one vegetation community. The survey strategy that detected maximum species richness and the highest mean nightly species richness with minimal effort was a strategically located stationary detector in each of two major vegetation communities during the wet/warm season.

  20. Mobile acoustic transects miss rare bat species: implications of survey method and spatio-temporal sampling for monitoring bats

    Directory of Open Access Journals (Sweden)

    Elizabeth C. Braun de Torrez

    2017-11-01

    Full Text Available Due to increasing threats facing bats, long-term monitoring protocols are needed to inform conservation strategies. Effective monitoring should be easily repeatable while capturing spatio-temporal variation. Mobile acoustic driving transect surveys (‘mobile transects’ have been touted as a robust, cost-effective method to monitor bats; however, it is not clear how well mobile transects represent dynamic bat communities, especially when used as the sole survey approach. To assist biologists who must select a single survey method due to resource limitations, we assessed the effectiveness of three acoustic survey methods at detecting species richness in a vast protected area (Everglades National Park: (1 mobile transects, (2 stationary surveys that were strategically located by sources of open water and (3 stationary surveys that were replicated spatially across the landscape. We found that mobile transects underrepresented bat species richness compared to stationary surveys across all major vegetation communities and in two distinct seasons (dry/cool and wet/warm. Most critically, mobile transects failed to detect three rare bat species, one of which is federally endangered. Spatially replicated stationary surveys did not estimate higher species richness than strategically located stationary surveys, but increased the rate at which species were detected in one vegetation community. The survey strategy that detected maximum species richness and the highest mean nightly species richness with minimal effort was a strategically located stationary detector in each of two major vegetation communities during the wet/warm season.

  1. Temporal variability in urinary phthalate metabolite excretion based on spot, morning, and 24-h urine samples: Considerations for epidemiological studies

    DEFF Research Database (Denmark)

    Frederiksen, Hanne; Kranich, Selma K.; Jørgensen, Niels

    2013-01-01

    Urinary phthalate excretion is used as marker of phthalate exposure in epidemiological studies. Here we examine the reliability of urinary phthalate levels in exposure classification by comparing the inter- and intrasubject variation of urinary phthalate metabolite levels. Thirty-three young...... healthy men each collected two spot, three first-morning, and three 24-h urine samples during a 3-month period. Samples were analyzed for the content of 12 urinary metabolites of 7 different phthalates. Variability was assessed as intraclass correlation coefficients (ICC). For the metabolites of diethyl...

  2. Levels and temporal trend of bisphenol A in composite food samples from Canadian Total Diet Study 2008-2012.

    Science.gov (United States)

    Cao, Xu-Liang; Perez-Locas, Carolina; Robichaud, André; Clement, Genevieve; Popovic, Svetlana; Dufresne, Guy; Dabeka, Robert W

    2015-01-01

    Food composite samples from the Canadian Total Diet Study which was conducted each year from 2008 to 2012 rotating between different cities were analysed for bisphenol A (BPA). The overall levels of BPA in the composite food samples from each of the five years from 2008 to 2012 were similar in general with averages (range) of 7.7 ng/g (0.20-106 ng/g), 7.8 ng/g (0.26-110 ng/g), 6.9 ng/g (0.20-84 ng/g), 7.7 ng/g (0.20-105 ng/g) and 9.0 ng/g (0.15-90 ng/g) for 2008, 2009, 2010, 2011 and 2012, respectively. Levels of BPA in most of the non-canned food composite samples were low and no particular trends were observed. In contrast, the trend of BPA levels in canned food composite samples over the five years (2008-2012) varies. BPA levels in most of the canned food composite samples from 2008 to 2012 were consistent in general (e.g. canned luncheon meat: 10-18 ng/g, canned baked beans: 18-25 ng/g). While BPA levels over the five years were found to decrease for some canned food composite samples (e.g., canned fish: 109 ng/g in 2009 vs. 51 ng/g in 2012), they were also found to increase for some other canned food composite samples (e.g. canned meat soups: 90-104 ng/g in 2011-2012 vs. 29 ng/g in 2008). Thus, recent changes in can coating for food packaging to BPA-free alternatives may have not been fully reflected in all canned food products over the period from 2008 to 2012. Continued monitoring is necessary to more fully assess the potential impact on dietary exposure by the use of BPA alternatives in food contact materials.

  3. Psychometric properties, validity, and reliability of the Temporal Experience of Pleasure Scale state version in an opioid-dependent sample.

    Science.gov (United States)

    Garfield, Joshua B B; Cotton, Sue M; Lubman, Dan I

    2016-04-01

    Individuals with substance dependence commonly experience anhedonia. Theories of anhedonia distinguish between anticipatory and consummatory reward deficits, with the Temporal Experience of Pleasure Scale (TEPS) the first self-report scale to separately measure these two constructs. Several psychometric studies have analysed the trait version of the TEPS, but the state version of the TEPS has not been previously validated. We examined the psychometric properties of the state version of the TEPS in 121 individuals with opiate dependence (81% Australian-born), to confirm its 2-factor structure and examine the internal consistency, convergent and divergent validity, test-retest reliability, and performance as a state measure. Confirmation of the 2-factor solution required removal of two items and allowing correlation between residuals of three pairs of highly-similar items. The resulting consummatory and anticipatory scales correlated strongly with each other (r=.76), suggesting poor divergent validity between them. Nevertheless, the scale showed good internal consistency (Chronbach's α: anticipatory=.90; consummatory=.84; total=.92), convergent (TEPS total and Snaith-Hamilton Pleasure Scale r=-.76) and divergent validity (-.38

  4. An analysis of Apollo lunar soil samples 12070,889, 12030,187 and 12070,891: basaltic diversity at the Apollo 12 landing site and implications for classification of small-sized lunar samples.

    OpenAIRE

    Alexander, Louise; Snape, J. F.; Joy, K.H.; Downes, Hilary; Crawford, Ian

    2016-01-01

    Lunar mare basalts provide insights into the compositional diversity of the Moon's interior. Basalt fragments from the lunar regolith can potentially sample lava flows from regions of the Moon not previously visited, thus, increasing our understanding of lunar geological evolution. As part of a study of basaltic diversity at the Apollo 12 landing site, detailed petrological and geochemical data are provided here for 13 basaltic chips. In addition to bulk chemistry, we have analyzed the major,...

  5. Temporal-spatial analysis of U.S.-Mexico border environmental fine and coarse PM air sample extract activity in human bronchial epithelial cells.

    Science.gov (United States)

    Lauer, Fredine T; Mitchell, Leah A; Bedrick, Edward; McDonald, Jacob D; Lee, Wen-Yee; Li, Wen-Whai; Olvera, Hector; Amaya, Maria A; Berwick, Marianne; Gonzales, Melissa; Currey, Robert; Pingitore, Nicholas E; Burchiel, Scott W

    2009-07-01

    Particulate matter less than 10 microm (PM10) has been shown to be associated with aggravation of asthma and respiratory and cardiopulmonary morbidity. There is also great interest in the potential health effects of PM2.5. Particulate matter (PM) varies in composition both spatially and temporally depending on the source, location and seasonal condition. El Paso County which lies in the Paso del Norte airshed is a unique location to study ambient air pollution due to three major points: the geological land formation, the relatively large population and the various sources of PM. In this study, dichotomous filters were collected from various sites in El Paso County every 7 days for a period of 1 year. The sampling sites were both distant and near border crossings, which are near heavily populated areas with high traffic volume. Fine (PM2.5) and Coarse (PM10-2.5) PM filter samples were extracted using dichloromethane and were assessed for biologic activity and polycyclic aromatic (PAH) content. Three sets of marker genes human BEAS2B bronchial epithelial cells were utilized to assess the effects of airborne PAHs on biologic activities associated with specific biological pathways associated with airway diseases. These pathways included in inflammatory cytokine production (IL-6, IL-8), oxidative stress (HMOX-1, NQO-1, ALDH3A1, AKR1C1), and aryl hydrocarbon receptor (AhR)-dependent signaling (CYP1A1). Results demonstrated interesting temporal and spatial patterns of gene induction for all pathways, particularly those associated with oxidative stress, and significant differences in the PAHs detected in the PM10-2.5 and PM2.5 fractions. Temporally, the greatest effects on gene induction were observed in winter months, which appeared to correlate with inversions that are common in the air basin. Spatially, the greatest gene expression increases were seen in extracts collected from the central most areas of El Paso which are also closest to highways and border crossings.

  6. Everyday Discrimination and Metabolic Syndrome Incidence in a Racially/Ethnically Diverse Sample: Study of Women's Health Across the Nation.

    Science.gov (United States)

    Beatty Moody, Danielle L; Chang, Yuefang; Brown, Charlotte; Bromberger, Joyce T; Matthews, Karen A

    2018-01-01

    Everyday discrimination may contribute to incident metabolic syndrome (MetS) in the United States and related racial/ethnic differences in MetS. The study investigated whether everyday discrimination predicted MetS in a diverse sample. A longitudinal, cohort study of 2132 women (mean [standard deviation] = 45.8 [2.7] years) who self-reported as black (n = 523), white (n = 1065), Chinese (n = 194), Japanese (n = 227), or Hispanic (n = 123) at baseline drawn from seven cities across the United States was conducted. MetS was defined in accordance with the National Cholesterol Education Program Adult Treatment Panel III criteria. The Everyday Discrimination scale was used to assess exposure to and level of everyday discrimination. Everyday discrimination exposure at baseline predicted a 33% greater incidence of MetS during the 13.89-year (standard deviation = 3.83, hazard ratio (HR) = 1.33, 95% confidence interval [CI] = 1.11-1.64, p = .001) follow-up in the full sample and was most pronounced in black, Hispanic, and Japanese women. Each 1-point increase in the continuous everyday discrimination score (HR = 1.03, 95% CI =1.01-1.05, p = .001) predicted a 3% greater incidence of MetS and, specifically, blood pressure (HR = 1.01, 95% CI = 1.00-1.03, p = .04), waist circumference (HR = 1.05, 95% CI =1.03-1.06, p level (HR = 1.02, 95% CI =1.00-1.04, p = .01). These associations were independent of risk factors including physical activity, socioeconomic status, smoking, and alcohol consumption. Everyday discrimination contributes to poorer metabolic health in midlife women in the United States. These findings have clinical implications for the development of MetS and, ultimately, cardiovascular disease and diabetes, and intervention strategies to reduce these outcomes.

  7. Disparities in reported reasons for not initiating or stopping antiretroviral treatment among a diverse sample of persons living with HIV.

    Science.gov (United States)

    Johnson, Mallory O; Chesney, Margaret A; Neilands, Torsten B; Dilworth, Samantha E; Remien, Robert H; Weinhardt, Lance S; Wong, F Lennie; Morin, Stephen F

    2009-02-01

    Disparities in the use of antiretroviral therapy (ART) for HIV disease have been documented across race, gender, and substance use groups. The current analysis compares self-reported reasons for never taking or stopping ART among a diverse sample of men and women living with HIV. Cross-sectional interview. HIV + (N = 3,818) adults, 968 of whom reported discontinuing or never using ART. Computerized self-administered and interviewer-administered self-reported demographic and treatment variables, including gender, race, ethnicity, CD4 count, detectable viral load, and reported reasons for not taking antiretroviral therapy. Despite equivalent use of ART in the current sample, African-American respondents were 1.7 times more likely to report wanting to hide their HIV status and 1.7 times more likely to report a change in doctors/clinics as reasons for stopping ART (p = .049, and p = .042) and had odds 4.5 times those of non-African Americans of reporting waiting for viral marker counts to worsen (p = tendency (OR = 0.4) for women to endorse concerns of keeping their HIV status hidden as a reason for stopping ART compared to men (p = .003). Although those with an IDU history were less likely to be on ART, no differences in reasons for stopping or never initiating ART were found between those with and without an IDU history. A desire to conceal HIV status as well as a change in doctors/clinics as reasons for discontinuing ART were considerably more common among African Americans, suggesting that perceived HIV/AIDS stigma is an obstacle to maintenance of treatment. Findings also indicate differences in reasons for stopping ART by gender and a perceived desire to wait for counts to worsen as a reason for not taking ART by African Americans, regardless of detectable viral load, CD4 count, age, education, employment, sexual orientation, and site.

  8. Body Dissatisfaction in a Diverse Sample of Young Men Who Have Sex With Men: The P18 Cohort Study.

    Science.gov (United States)

    Siconolfi, Daniel E; Kapadia, Farzana; Moeller, Robert W; Eddy, Jessica A; Kupprat, Sandra A; Kingdon, Molly J; Halkitis, Perry N

    2016-07-01

    Young men who have sex with men (YMSM) may be at greater risk for body dissatisfaction, compared to their heterosexual peers. However, differences within YMSM populations are understudied, precluding the identification of YMSM who are at greatest risk. This study examined body dissatisfaction in a racially/ethnically diverse sample of YMSM ages 18-19 in New York City. Using cross-sectional data from the baseline visit of a longitudinal cohort study of YMSM (N = 591), body dissatisfaction was assessed using the Male Body Attitudes Scale. Three outcomes were modeled using linear regression: (1) overall body dissatisfaction, (2) muscularity dissatisfaction, and (3) body fat dissatisfaction. Covariates in the models included race/ethnicity, sexual orientation, BMI, gay community affiliation, and internalized homonegativity. White YMSM experienced greater body dissatisfaction across the three models. Internalized homonegativity was a statistically significant predictor of dissatisfaction across the three models, though its association with body dissatisfaction was relatively small. The findings point to future avenues of research, particularly qualitative research to explore demographic and cultural nuances in body attitudes among YMSM.

  9. Socioenvironmental, Personal, and Behavioral Correlates of Severe Obesity among an Ethnically/Racially Diverse Sample of US Adolescents.

    Science.gov (United States)

    Bauer, Katherine W; Marcus, Marsha D; Larson, Nicole; Neumark-Sztainer, Dianne

    2017-06-26

    Severe obesity among adolescents, also known as class 2 and 3 obesity, is increasing in prevalence, yet, little is known about adolescents with severe obesity. The objective of this study was to identify the socioenvironmental, personal, and behavioral correlates of severe obesity among an ethnically/racially diverse sample of US adolescents. A cross-sectional analysis of data from participants in the EAT 2010 study (n = 2706) was conducted. Adolescents completed in-class surveys, and height and weight were measured. Severe obesity was defined as a BMI ≥120% of the 95th percentile or ≥35 kg/m(2); class 1 obesity as a BMI ≥95th percentile but below severe obesity cut points, overweight as a BMI 5th percentile. General linear models were used to identify differences between adolescents by weight status, adjusted for covariates. Nine percent of adolescents had severe obesity. Compared with peers of other weight statuses, a greater proportion of adolescents with severe obesity reported parental encouragement to diet and peer weight teasing. Adolescents with severe obesity also reported lower self-esteem and body satisfaction. Binge eating was three times as prevalent among adolescents with severe obesity compared with peers of normal weight and twice as prevalent as among peers with class 1 obesity. Adolescents with severe obesity report several unique socioenvironmental, personal, and behavioral concerns that may diminish quality of life and may predict increased weight gain over time.

  10. Predictors of maternal child-feeding practices in an ethnically diverse sample and the relationship to child obesity.

    Science.gov (United States)

    Cachelin, Fary M; Thompson, Doug

    2013-08-01

    To investigate the relationship between maternal child-feeding practices and child adiposity in an ethnically diverse sample by examining three categories of relationships: 1) mothers' weight status; 2) mothers' investment in eating-related issues; and 3) mothers' concerns about child's weight. It was predicted that these variables would be related to mothers' use of restriction, monitoring, and pressure in child feeding, influencing child adiposity. A total of 563 mothers (306 Hispanic, 76 Asian, 36 Black, and 145 White) with children aged 2-11 years completed the Child Feeding Questionnaire and Eating Attitudes Test. Analyses used structural equation modeling. Ethnic differences in the resulting models emerged. Mothers' weight status negatively predicted maternal control over child's eating; heavier mothers reported less control over child's eating. Greater concern about child's weight was associated with more maternal control of child's eating for all groups. Maternal control over child's eating was predictive of child's body mass index only in the White group. Although maternal investment in eating-related issues did predict maternal control over child's eating for White mothers, this relationship did not exist for Hispanics. Different maternal factors influence mothers' control over their child's eating in Hispanic and White groups. In ethnic minorities, maternal control over child's eating may not influence child adiposity. Copyright © 2013 The Obesity Society.

  11. Examining Temporal Sample Scale and Model Choice with Spatial Capture-Recapture Models in the Common Leopard Panthera pardus.

    Science.gov (United States)

    Goldberg, Joshua F; Tempa, Tshering; Norbu, Nawang; Hebblewhite, Mark; Mills, L Scott; Wangchuk, Tshewang R; Lukacs, Paul

    2015-01-01

    Many large carnivores occupy a wide geographic distribution, and face threats from habitat loss and fragmentation, poaching, prey depletion, and human wildlife-conflicts. Conservation requires robust techniques for estimating population densities and trends, but the elusive nature and low densities of many large carnivores make them difficult to detect. Spatial capture-recapture (SCR) models provide a means for handling imperfect detectability, while linking population estimates to individual movement patterns to provide more accurate estimates than standard approaches. Within this framework, we investigate the effect of different sample interval lengths on density estimates, using simulations and a common leopard (Panthera pardus) model system. We apply Bayesian SCR methods to 89 simulated datasets and camera-trapping data from 22 leopards captured 82 times during winter 2010-2011 in Royal Manas National Park, Bhutan. We show that sample interval length from daily, weekly, monthly or quarterly periods did not appreciably affect median abundance or density, but did influence precision. We observed the largest gains in precision when moving from quarterly to shorter intervals. We therefore recommend daily sampling intervals for monitoring rare or elusive species where practicable, but note that monthly or quarterly sample periods can have similar informative value. We further develop a novel application of Bayes factors to select models where multiple ecological factors are integrated into density estimation. Our simulations demonstrate that these methods can help identify the "true" explanatory mechanisms underlying the data. Using this method, we found strong evidence for sex-specific movement distributions in leopards, suggesting that sexual patterns of space-use influence density. This model estimated a density of 10.0 leopards/100 km2 (95% credibility interval: 6.25-15.93), comparable to contemporary estimates in Asia. These SCR methods provide a guide to

  12. Examining Temporal Sample Scale and Model Choice with Spatial Capture-Recapture Models in the Common Leopard Panthera pardus.

    Directory of Open Access Journals (Sweden)

    Joshua F Goldberg

    Full Text Available Many large carnivores occupy a wide geographic distribution, and face threats from habitat loss and fragmentation, poaching, prey depletion, and human wildlife-conflicts. Conservation requires robust techniques for estimating population densities and trends, but the elusive nature and low densities of many large carnivores make them difficult to detect. Spatial capture-recapture (SCR models provide a means for handling imperfect detectability, while linking population estimates to individual movement patterns to provide more accurate estimates than standard approaches. Within this framework, we investigate the effect of different sample interval lengths on density estimates, using simulations and a common leopard (Panthera pardus model system. We apply Bayesian SCR methods to 89 simulated datasets and camera-trapping data from 22 leopards captured 82 times during winter 2010-2011 in Royal Manas National Park, Bhutan. We show that sample interval length from daily, weekly, monthly or quarterly periods did not appreciably affect median abundance or density, but did influence precision. We observed the largest gains in precision when moving from quarterly to shorter intervals. We therefore recommend daily sampling intervals for monitoring rare or elusive species where practicable, but note that monthly or quarterly sample periods can have similar informative value. We further develop a novel application of Bayes factors to select models where multiple ecological factors are integrated into density estimation. Our simulations demonstrate that these methods can help identify the "true" explanatory mechanisms underlying the data. Using this method, we found strong evidence for sex-specific movement distributions in leopards, suggesting that sexual patterns of space-use influence density. This model estimated a density of 10.0 leopards/100 km2 (95% credibility interval: 6.25-15.93, comparable to contemporary estimates in Asia. These SCR methods provide

  13. Spatial and temporal distribution of erosion rates in a sample catchment of Central Italy investigated through digital photogrammetric analysis

    Science.gov (United States)

    Aucelli, Pietro; Alessio Baldassarre, Maurizio; Conforti, Massimo; Della Seta, Marta; di Maggio, Cipriano; Galiano, Mariachiara; Lupia Palmieri, Elvidio; Rosskopf, Carmen Maria; Scarciglia, Fabio; Vergari, Francesca

    2010-05-01

    Soil erosion is a relevant environmental problem worldwide and represents one of the most significant phenomena of land degradation, frequently responsible for irreversible effects on the "soil resource". This problem is becoming even more important, especially in the Mediterranean area, which is affected by several and mostly severe erosive processes due to the action of surface running water and gravity, favored both by climate conditions and intensive, as well as rapidly changing land use. Aim of this presentation is to illustrate the results obtained by the application of digital photogrammetric methodologies to evaluate the rate and spatial-temporal development of denudation processes in a selected test area of Central Italy, the Upper Orcia Valley (Tuscany). The test area coincides with a small catchment extending about 4.4 km2, highly representative of the typical effects of accelerated slope dynamics that widely affects central Italy. This area is characterized by the widespread outcrop of a clayey substratum, thus experiencing the intensive action of surface running water on slopes, generating the typical badland landforms well-known as "calanchi" and "biancane". There is also diffuse evidence of mass wasting, which is mostly represented by soil creep, solifluction and landslide phenomena. A digital photogrammetric analysis of landforms was performed on four series of aerial photos which refer to the period 1954-2003, by using a Z-Map digital photogrammetric workstation. In order to obtain the best image orientation (both in terms of internal and external orientation) a DGPS survey was carried out and about 70 ground control points were located. Four high resolution Digital Elevation Models (DTMs with 2x2m pixels) of the test area were extracted from the aerial photographs dating to 1954, 1976, 1990 and 2003, respectively. The estimation of the sediment loss rate was computed by overlaying these DTMs. Moreover, interpretation of air photos allowed

  14. Sample project: establishing a global forest monitoring capability using multi-resolution and multi-temporal remotely sensed data sets

    Science.gov (United States)

    Hansen, Matt; Stehman, Steve; Loveland, Tom; Vogelmann, Jim; Cochrane, Mark

    2009-01-01

    Quantifying rates of forest-cover change is important for improved carbon accounting and climate change modeling, management of forestry and agricultural resources, and biodiversity monitoring. A practical solution to examining trends in forest cover change at global scale is to employ remotely sensed data. Satellite-based monitoring of forest cover can be implemented consistently across large regions at annual and inter-annual intervals. This research extends previous research on global forest-cover dynamics and land-cover change estimation to establish a robust, operational forest monitoring and assessment system. The approach integrates both MODIS and Landsat data to provide timely biome-scale forest change estimation. This is achieved by using annual MODIS change indicator maps to stratify biomes into low, medium and high change categories. Landsat image pairs can then be sampled within these strata and analyzed for estimating area of forest cleared.

  15. Assessing the sampling effort required to estimate a species diversity in the groundfish assemblages of the North Sea

    NARCIS (Netherlands)

    Greenstreet, S.P.R.; Piet, G.J.

    2008-01-01

    Conserving and restoring biodiversity are key objectives for an ecosystem approach to management in the North Sea, but ecological quality objectives for the groundfish community instead concentrate on restoring size structure. Species richness and diversity estimates are strongly influenced by

  16. Mind-Mindedness as a Multidimensional Construct: Appropriate and Nonattuned Mind-Related Comments Independently Predict Infant-Mother Attachment in a Socially Diverse Sample

    Science.gov (United States)

    Meins, Elizabeth; Fernyhough, Charles; de Rosnay, Marc; Arnott, Bronia; Leekam, Susan R.; Turner, Michelle

    2012-01-01

    In a socially diverse sample of 206 infant-mother pairs, we investigated predictors of infants' attachment security at 15 months, with a particular emphasis on mothers' tendency to comment appropriately or in a non-attuned manner on their 8-month-olds' internal states (so-called mind-mindedness). Multinomial logistic regression analyses showed…

  17. Standardized subsets of the HGDP-CEPH Human Genome Diversity Cell Line Panel, accounting for atypical and duplicated samples and pairs of close relatives.

    Science.gov (United States)

    Rosenberg, Noah A

    2006-11-01

    The HGDP-CEPH Human Genome Diversity Cell Line Panel is a widely-used resource for studies of human genetic variation. Here, pairs of close relatives that have been included in the panel are identified. Together with information on atypical and duplicated samples, the inferred relative pairs suggest standardized subsets of the panel for use in future population-genetic studies.

  18. Temporal shifts in floristic and avian diversity in Mediterranean pine forest ecosystems under different fire pressure: The island of Zakynthos as a case study

    Directory of Open Access Journals (Sweden)

    Konstantinos Poirazidis

    2014-01-01

    Full Text Available We evaluated how fire impacts the ecological coherence of Aleppo pine forests and their biodiversity over a 40-year period. The study area forms part of an insular ecosystem of Zakynthos Island (Zante in western Greece, which forms part of the Ionian Islands. Post-fire effects were studied for both plant and bird diversity at 20 sampling plots, using stratified random sampling, during the summer of 2012. The plots were selected based on the frequency of burning since the 1970s. Sites were categorized as: 1 no burning for >40 years, 2 burnt once in the 1970s, 3 burnt twice, first in the 1970s and again in 2000–2010, 4 burnt three times, first in the 1970s, and twice more in 2000–2010, and 5 burnt four times, first in the1970s, twice more in 2000–2010, and again in 2011. A total of 79 plant species and 26 bird species were recorded at the studied sites. One-way ANOVA analysis showed that fire intensity has a significant impact on alpha floristic diversity. Average plant species richness at sites that burned in 2011 was significantly higher than in those that burned in the 1970s. Detected differences in bird species richness were not significant; however, more species were documented in the forested habitats (unburnt for >40 years, and burnt in the 1970s. The highest Jaccard similarity index was observed between the sites that had not burned for more than 40 years and the sites that burned in the 1970s. The lowest floristic similarity to non-burnt sites was observed between the recently burnt sites in 2011 and the sites that burned in the 1970s. The lowest bird similarity was detected between recently burnt sites in 2011 and sites that had not burned for more than 40 years. DCA ordination showed the presence of a clear fire gradient, from intensively burnt open sites to non-burnt forest sites. We suggest that fire is essential to maintain biodiversity in Aleppo pine forests, but only at intermediate frequency.

  19. Prevalence and Serogroup Diversity of Salmonella for Broiler Neck Skin, Whole Carcass Rinse, and Whole Carcass Enrichment Sampling Methodologies following Air or Immersion Chilling.

    Science.gov (United States)

    Bourassa, D V; Holmes, J M; Cason, J A; Cox, N A; Rigsby, L L; Buhr, R J

    2015-11-01

    The purpose of this study was to evaluate neck skin (NS), whole carcass rinse (WCR), and whole carcass enrichment (WCE) sampling procedures for Salmonella isolation and serogroup identification from the same broiler chicken carcass treated with air or immersion chilling. Commercially processed and eviscerated broiler carcasses were collected from a commercial processing plant, individually bagged, and transported to the pilot processing plant. In experiment 1, carcasses were air chilled to 4°C. In experiment 2, carcasses were immersion chilled with or without chlorine. After air chilling, Salmonella was detected on 78% of NS and 89% of WCE samples. Only one Salmonella serogroup was detected from each of 13 Salmonella-positive NS samples, and two serogroups were detected on 1 Salmonella-positive NS sample. Only one Salmonella serogroup was detected from each of 13 Salmonella-positive WCE samples, and two serogroups were detected from 3 Salmonella-positive WCE samples. After immersion chilling without chlorine, Salmonella was detected on 38% of NS, 45% of WCR, and 100% of WCE samples. Without chlorine, the 15 Salmonella-positive NS samples included 14 samples with one serogroup and 1 sample with two serogroups. Only one Salmonella serogroup was detected from WCR samples after immersion chilling. Of 40 Salmonella-positive WCE samples, 23 had a one, 14 had two, and 3 had three Salmonella serogroups. After immersion chilling with chlorine, Salmonella was detected on 35% of NS, 0% of WCR, and 90% of WCE samples. With chlorine, the 14 Salmonella-positive NS samples included 11 samples with one serogroup and 3 samples with two serogroups. No Salmonella serogroups were detected from WCR samples after immersion chilling with 20 mg/liter free chlorine. The 36 Salmonella-positive WCE samples included 21 samples with one serogroup and 15 samples with two serogroups. NS and WCE sampling methodologies yielded similar prevalence and serogroup diversity after air chilling. However

  20. Spatial patterns of distribution, abundance, and species diversity of small odontocetes estimated using density surface modeling with line transect sampling

    Science.gov (United States)

    Kanaji, Yu; Okazaki, Makoto; Miyashita, Tomio

    2017-06-01

    Spatial patterns of distribution, abundance, and species diversity of small odontocetes including species in the Delphinidae and Phocoenidae families were investigated using long-term dedicated sighting survey data collected between 1983 and 2006 in the North Pacific. Species diversity indices were calculated from abundance estimated using density surface modeling of line-transect data. The estimated abundance ranged from 19,521 individuals in killer whale to 1,886,022 in pantropical spotted dolphin. The predicted density maps showed that the habitats of small odontocetes corresponded well with distinct oceanic domains. Species richness was estimated to be highest between 30 and 40°N where warm- and cold-water currents converge. Simpson's Diversity Index showed latitudinal diversity gradients of decreasing species numbers toward the poles. Higher diversity was also estimated in the coastal areas and the zonal areas around 35-42°N. Coastal-offshore gradients and latitudinal gradients are known for many taxa. The zonal areas around 35°N and 40°N coincide with the Kuroshio Current and its extension and the subarctic boundary, respectively. These results suggest that the species diversity of small odontocetes primarily follows general patterns of latitudinal and longitudinal gradients, while the confluence of faunas originating in distinct water masses increases species diversify in frontal waters around 30-40°N. Population densities tended to be higher for the species inhabiting higher latitudes, but were highest for intermediate latitudes at approximately 35-40°N. According to latitudinal gradients in water temperature and biological productivity, the costs for thermoregulation will decrease in warmer low latitudes, while feeding efficiency will increase in colder high latitudes. These trade-offs could optimize population density in intermediate latitudes.

  1. Assessment of contemporary genetic diversity and inter-taxa/inter-region exchange of avian paramyxovirus serotype 1 in wild birds sampled in North America.

    Science.gov (United States)

    Ramey, Andrew M; Goraichuk, Iryna V; Hicks, Joseph T; Dimitrov, Kiril M; Poulson, Rebecca L; Stallknecht, David E; Bahl, Justin; Afonso, Claudio L

    2017-03-03

    Avian paramyxovirus serotype 1 (APMV-1) viruses are globally distributed, infect wild, peridomestic, and domestic birds, and sometimes lead to outbreaks of disease. Thus, the maintenance, evolution, and spread of APMV-1 viruses are relevant to avian health. In this study we sequenced the fusion gene from 58 APMV-1 isolates recovered from thirteen species of wild birds sampled throughout the USA during 2007-2014. We analyzed sequence information with previously reported data in order to assess contemporary genetic diversity and inter-taxa/inter-region exchange of APMV-1 in wild birds sampled in North America. Our results suggest that wild birds maintain previously undescribed genetic diversity of APMV-1; however, such diversity is unlikely to be pathogenic to domestic poultry. Phylogenetic analyses revealed that APMV-1 diversity detected in wild birds of North America has been found in birds belonging to numerous taxonomic host orders and within hosts inhabiting multiple geographic regions suggesting some level of viral exchange. However, our results also provide statistical support for associations between phylogenetic tree topology and host taxonomic order/region of sample origin which supports restricted exchange among taxa and geographical regions of North America for some APMV-1 sub-genotypes. We identify previously unrecognized genetic diversity of APMV-1 in wild birds in North America which is likely a function of continued viral evolution in reservoir hosts. We did not, however, find support for the emergence or maintenance of APMV-1 strains predicted to be pathogenic to poultry in wild birds of North America outside of the order Suliformes (i.e., cormorants). Furthermore, genetic evidence suggests that ecological drivers or other mechanisms may restrict viral exchange among taxa and regions of North America. Additional and more systematic sampling for APMV-1 in North America would likely provide further inference on viral dynamics for this infectious agent

  2. Assessment of contemporary genetic diversity and inter-taxa/inter-region exchange of avian paramyxovirus serotype 1 in wild birds sampled in North America

    Science.gov (United States)

    Ramey, Andy M.; Goraichuk, Iryna V.; Hicks, Joseph T.; Dimitrov, Kiril M.; Poulson, Rebecca L.; Stallknecht, David E.; Bahl, Justin; Afonso, Claudio L.

    2017-01-01

    BackgroundAvian paramyxovirus serotype 1 (APMV-1) viruses are globally distributed, infect wild, peridomestic, and domestic birds, and sometimes lead to outbreaks of disease. Thus, the maintenance, evolution, and spread of APMV-1 viruses are relevant to avian health.MethodsIn this study we sequenced the fusion gene from 58 APMV-1 isolates recovered from thirteen species of wild birds sampled throughout the USA during 2007–2014. We analyzed sequence information with previously reported data in order to assess contemporary genetic diversity and inter-taxa/inter-region exchange of APMV-1 in wild birds sampled in North America.ResultsOur results suggest that wild birds maintain previously undescribed genetic diversity of APMV-1; however, such diversity is unlikely to be pathogenic to domestic poultry. Phylogenetic analyses revealed that APMV-1 diversity detected in wild birds of North America has been found in birds belonging to numerous taxonomic host orders and within hosts inhabiting multiple geographic regions suggesting some level of viral exchange. However, our results also provide statistical support for associations between phylogenetic tree topology and host taxonomic order/region of sample origin which supports restricted exchange among taxa and geographical regions of North America for some APMV-1 sub-genotypes.ConclusionsWe identify previously unrecognized genetic diversity of APMV-1 in wild birds in North America which is likely a function of continued viral evolution in reservoir hosts. We did not, however, find support for the emergence or maintenance of APMV-1 strains predicted to be pathogenic to poultry in wild birds of North America outside of the order Suliformes (i.e., cormorants). Furthermore, genetic evidence suggests that ecological drivers or other mechanisms may restrict viral exchange among taxa and regions of North America. Additional and more systematic sampling for APMV-1 in North America would likely provide further inference on viral

  3. High-resolution space-time characterization of convective rain cells: implications on spatial aggregation and temporal sampling operated by coarser resolution instruments

    Science.gov (United States)

    Marra, Francesco; Morin, Efrat

    2017-04-01

    Forecasting the occurrence of flash floods and debris flows is fundamental to save lives and protect infrastructures and properties. These natural hazards are generated by high-intensity convective storms, on space-time scales that cannot be properly monitored by conventional instrumentation. Consequently, a number of early-warning systems are nowadays based on remote sensing precipitation observations, e.g. from weather radars or satellites, that proved effective in a wide range of situations. However, the uncertainty affecting rainfall estimates represents an important issue undermining the operational use of early-warning systems. The uncertainty related to remote sensing estimates results from (a) an instrumental component, intrinsic of the measurement operation, and (b) a discretization component, caused by the discretization of the continuous rainfall process. Improved understanding on these sources of uncertainty will provide crucial information to modelers and decision makers. This study aims at advancing knowledge on the (b) discretization component. To do so, we take advantage of an extremely-high resolution X-Band weather radar (60 m, 1 min) recently installed in the Eastern Mediterranean. The instrument monitors a semiarid to arid transition area also covered by an accurate C-Band weather radar and by a relatively sparse rain gauge network ( 1 gauge/ 450 km2). Radar quantitative precipitation estimation includes corrections reducing the errors due to ground echoes, orographic beam blockage and attenuation of the signal in heavy rain. Intense, convection-rich, flooding events recently occurred in the area serve as study cases. We (i) describe with very high detail the spatiotemporal characteristics of the convective cores, and (ii) quantify the uncertainty due to spatial aggregation (spatial discretization) and temporal sampling (temporal discretization) operated by coarser resolution remote sensing instruments. We show that instantaneous rain intensity

  4. Clonal diversity of extended-spectrum beta-lactamase producing Escherichia coli isolates in fecal samples of wild animals.

    Science.gov (United States)

    Cristóvão, Filipe; Alonso, Carla Andrea; Igrejas, Gilberto; Sousa, Margarida; Silva, Vanessa; Pereira, José Eduardo; Lozano, Carmen; Cortés-Cortés, Gerardo; Torres, Carmen; Poeta, Patrícia

    2017-03-01

    The clonal diversity of extended-spectrum-β-lactamase (ESBL)-producing Escherichia coli isolates from nine different species of wild animals from distinct regions of Portugal and Spain and their content in replicon plasmids were analyzed. Among the initial 53 ESBL-producing E. coli isolates that were studied (from previous studies), 28 were selected, corresponding to different animal origins with distinct ESBL types and pulsed-field gel electrophoresis (PFGE) patterns. These 28 isolates produced different ESBLs ascribed to the following families: CTX-M, SHV and TEM. The isolates were classified into three phylogenetic groups: B1 (n = 11), A (n = 10) and D (n = 7). The seven E. coli of phylogroup D were then typed by multilocus sequence typing and ascribed to four distinct sequence types: ST117, ST115, ST2001 and ST69. The clonal diversity and relationship between isolates was studied by PFGE. Lastly, the plasmids were analyzed according to their incompatibility group using the PCR-based-replicon-typing scheme. A great diversity of replicon types was identified, with up to five per isolate. Most of the CTX-M-1 and SHV-12 producing E. coli isolates carried IncI1 or IncN replicons. The diversity of ESBL-producing E. coli isolates in wild animals, which can be disseminated in the environment, emphasizes the environmental and health problems that we face nowadays. © FEMS 2017. All rights reserved. For permissions, please e-mail: journals.permissions@oup.com.

  5. Derivation of two well-behaved theoretical contagion indices and their sampling properties and application for assessing forest landscape diversity

    Science.gov (United States)

    Bernard R. Parresol

    2011-01-01

    Studies of spatial patterns of landscapes are useful to quantify human impact, predict wildlife effects, or describe variability of landscape features. A common approach to identify and quantify landscape structure is with a landscape scale model known as a contagion index. A contagion index quantifies two distinct components of landscape diversity: composition and...

  6. Stress, Mental Health, and Substance Abuse Problems in a Sample of Diversion Program Youths: An Exploratory Latent Class Analysis

    Science.gov (United States)

    Dembo, Richard; Briones, Rhissa; Gulledge, Laura; Karas, Lora; Winters, Ken C.; Belenko, Steven; Greenbaum, Paul E.

    2012-01-01

    Reflective of interest in mental health and substance abuse issues among youths involved with the justice system, we performed a latent class analysis on baseline information collected on 100 youths involved in two diversion programs. Results identified two groups of youths: Group 1: a majority of the youths, who had high levels of delinquency,…

  7. Species richness, but not phylogenetic diversity, influences community biomass production and temporal stability in a re-examination of 16 grassland biodiversity studies

    NARCIS (Netherlands)

    Venail, P.; Gross, K.; Oakley, T.H.; Narwani, A.; Allan, E.; Flombaum, P.; Isbell, F.; Joshi, J.; Reich, P.B.; Tilman, D.; Ruijven, van J.; Cardinale, B.J.

    2015-01-01

    1.Hundreds of experiments have now manipulated species richness of various groups of organisms and examined how this aspect of biological diversity influences ecosystem functioning. Ecologists have recently expanded this field to look at whether phylogenetic diversity among species, often quantified

  8. Species richness, but not phylogenetic diversity, influences community biomass production and temporal stability in a re-examination of 16 grassland biodiversity studies

    NARCIS (Netherlands)

    Venail, P.; Gross, K.; Oakley, T.H.; Narwani, A.; Allan, E.; Flombaum, P.; Isbell, F.; Reich, P.B.; Tilman, D.; Ruijven, van J.; Cardinale, B.J.

    2015-01-01

    1.Hundreds of experiments have now manipulated species richness (SR) of various groups of organisms and examined how this aspect of biological diversity influences ecosystem functioning. Ecologists have recently expanded this field to look at whether phylogenetic diversity (PD) among species, often

  9. Spatio-temporal variations in phytoplankton community structure in ...

    African Journals Online (AJOL)

    OMARI

    2013-09-06

    Sep 6, 2013 ... Spatio-temporal variations of phytoplankton, expressed in terms of species composition and diversity collected at various sampling sites in small water bodies (SWBs) within Lake Victoria basin, Kenya, were investigated monthly from November 2010 to June 2011, in relation to selected physical and.

  10. Spatio-temporal variations in phytoplankton community structure in ...

    African Journals Online (AJOL)

    OMARI

    2013-09-06

    Sep 6, 2013 ... Spatio-temporal variations of phytoplankton, expressed in terms of species composition and diversity collected at various sampling ... chemical and biological properties of water most often lead to the production of .... Persulfate digestion methods, respectively in the laboratory (APHA,. 2000). Data analysis.

  11. Spatio-temporal variations in phytoplankton community structure in ...

    African Journals Online (AJOL)

    Spatio-temporal variations of phytoplankton, expressed in terms of species composition and diversity collected at various sampling sites in small water bodies (SWBs) within Lake Victoria basin, Kenya, were investigated monthly from November 2010 to June 2011, in relation to selected physical and chemical water quality ...

  12. Application of a partitioning procedure based on Rao quadratic entropy index to characterize the temporal evolution of in situ varietal and genetic diversity of bread wheat in France over the period 1981-2006.

    Science.gov (United States)

    Perronne, Rémi; Goldringer, Isabelle

    2017-12-15

    We present and highlight a partitioning procedure based on the Rao quadratic entropy index to assess temporal in situ inter-annual varietal and genetic changes of crop diversity. For decades, Western-European agroecosystems have undergone profound changes, among which a reduction of crop genetic diversity. These changes have been highlighted in numerous studies, but no unified partitioning procedure has been proposed to compute the inter-annual variability in both varietal and genetic diversity. To fill this gap, we tested, adjusted and applied a partitioning procedure based on the Rao quadratic entropy index that made possible to describe the different components of crop diversity as well as to account for the relative acreages of varieties. To emphasize the relevance of this procedure, we relied on a case study focusing on the temporal evolution of bread wheat diversity in France over the period 1981-2006 at both national and district scales. At the national scale, we highlighted a decrease of the weighted genetic replacement indicating that varieties sown in the most recent years were more genetically similar than older ones. At the district scale, we highlighted sudden changes in weighted genetic replacement in some agricultural regions that could be due to fast shifts of successive leading varieties over time. Other regions presented a relatively continuous increase of genetic similarity over time, potentially due to the coexistence of a larger number of co-leading varieties that got closer genetically. Based on the partitioning procedure, we argue that a tendency of in situ genetic homogenization could be compared to some of its potential causes, such as a decrease in the speed of replacement or an increase in between-variety genetic similarity over time.

  13. Increased Sampling Reveals Novel Lineages of Entamoeba: Consequences of Genetic Diversity and Host Specificity for Taxonomy and Molecular Detection

    OpenAIRE

    Stensvold, CR; LEBBAD, M.; Victory, EL; Verweij, JJ; Tannich, E.; Alfellani, M; Legarraga, P; Clark, CG

    2011-01-01

    To expand the representation for phylogenetic analysis, ten additional complete Entamoeba small-subunit rRNA gene sequences were obtained from humans, non-human primates, cattle and a tortoise. For some novel sequences no corresponding morphological data were available, and we suggest that these organisms should be referred to as ribosomal lineages (RL) rather than being assigned species names at present. To investigate genetic diversity and host specificity of selected Entamoeba species, a t...

  14. Microbial diversity in fecal samples depends on DNA extraction method: easyMag DNA extraction compared to QIAamp DNA stool mini kit extraction

    OpenAIRE

    Mirsepasi, Hengameh; Persson,Søren; Struve, Carsten; Andersen, Lee O B; Petersen, Andreas M.; Krogfelt, Karen A.

    2014-01-01

    Background There are challenges, when extracting bacterial DNA from specimens for molecular diagnostics, since fecal samples also contain DNA from human cells and many different substances derived from food, cell residues and medication that can inhibit downstream PCR. The purpose of the study was to evaluate two different DNA extraction methods in order to choose the most efficient method for studying intestinal bacterial diversity using Denaturing Gradient Gel Electrophoresis (DGGE). Findin...

  15. A novel approach to assess temporal sensory perception of muscle foods: application of a time-intensity technique to diverse Iberian meat products.

    Science.gov (United States)

    Lorido, Laura; Estévez, Mario; Ventanas, Sonia

    2014-01-01

    Although dynamic sensory techniques such as time-intensity (TI) have been applied to certain meat products, existing knowledge regarding the temporal sensory perception of muscle foods is still limited. The objective of the present study was to apply TI to the flavour and texture perception of three different Iberian meat products: liver pâté, dry-cured sausages ("salchichon") and dry-cured loin. Moreover, the advantages of using dynamic versus static sensory techniques were explored by subjecting the same products to a quantitative descriptive analysis (QDA). TI was a suitable technique to assess the impact of composition and structure of the three meat products on flavour and texture perception from a dynamic perspective. TI parameters extracted from the TI-curves and related to temporal perception enabled the detection of clear differences in sensory temporal perception between the meat products and provided additional insight on sensory perception compared to the conventional static sensory technique (QDA). © 2013.

  16. Effects of Sample Size and Full Sibs on Genetic Diversity Characterization: A Case Study of Three Syntopic Iberian Pond-Breeding Amphibians.

    Science.gov (United States)

    Sánchez-Montes, Gregorio; Ariño, Arturo H; Vizmanos, José L; Wang, Jinliang; Martínez-Solano, Íñigo

    2017-07-01

    Accurate characterization of genetic diversity is essential for understanding population demography, predicting future trends and implementing efficient conservation policies. For that purpose, molecular markers are routinely developed for nonmodel species, but key questions regarding sampling design, such as calculation of minimum sample sizes or the effect of relatives in the sample, are often neglected. We used accumulation curves and sibship analyses to explore how these 2 factors affect marker performance in the characterization of genetic diversity. We illustrate this approach with the analysis of an empirical dataset including newly optimized microsatellite sets for 3 Iberian amphibian species: Hyla molleri, Epidalea calamita, and Pelophylax perezi. We studied 17-21 populations per species (total n = 547, 652, and 516 individuals, respectively), including a reference locality in which the effect of sample size was explored using larger samples (77-96 individuals). As expected, FIS and tests for Hardy-Weinberg equilibrium and linkage disequilibrium were affected by the presence of full sibs, and most initially inferred disequilibria were no longer statistically significant when full siblings were removed from the sample. We estimated that to obtain reliable estimates, the minimum sample size (potentially including full sibs) was close to 20 for expected heterozygosity, and between 50 and 80 for allelic richness. Our pilot study based on a reference population provided a rigorous assessment of marker properties and the effects of sample size and presence of full sibs in the sample. These examples illustrate the advantages of this approach to produce robust and reliable results for downstream analyses. © The American Genetic Association 2017. All rights reserved. For permissions, please e-mail: journals.permissions@oup.com.

  17. Candida vulturna pro tempore sp. nov., a dimorphic yeast species related to the Candida haemulonis species complex isolated from flowers and clinical sample.

    Science.gov (United States)

    Sipiczki, Matthias; Tap, Ratna Mohd

    2016-10-01

    In a taxonomic study of yeasts isolated from flowers in Cagayan de Oro, Mindenao Island, The Philippines, strains were identified as representing Kabatiella microsticta, Metschnikowia koreensis and a hitherto undescribed dimorphic species. Sequences of the D1/D2 domains of the LSU 26S rRNA genes, the internal transcribed spacer (ITS) regions and the SSU 18S rRNA genes were identical in the strains of the last-named group and differed from the corresponding sequences of the type strain of the closest related species, Candida duobushaemulonii, by 4 % (D1/D2), 7 % (ITS) and 1 % (SSU). In an independent study, a strain with D1/D2 and ITS sequences very similar to those of the Philippine strains was isolated in Malaysia from the blood of a patient dying of aspiration pneumonia. Both groups of isolates were moderately sensitive to anidulafungin, caspofungin, fluconazole, itraconazole and voriconazole but resistant to amphotericin B. Molecular phylogenetic analysis of the sequences placed the Philippine and Malaysian isolates close to the Candida haemulonis complex of Candida species. To reflect the geographical location of the sites of sample collection, the novel species name Candida vulturna pro tempore sp. nov. is proposed to accommodate these strains. The type strain is 11-1170T (=CBS 14366T=CCY 094-001-001T=NCAIM-Y02177T) isolated in Cagayan de Oro, The Philippines. Mycobank: MB 817222.

  18. Grazing Effect on Diversity of Annual Plant Communities in a Semi-Arid Rangeland: Interactions with Small-Scale Spatial and Temporal Variation in Primary Productivity

    National Research Council Canada - National Science Library

    Yagil Osem; Avi Perevolotsky; Jaime Kigel

    2002-01-01

    1 The interactive effect of grazing and small-scale variation in primary productivity on the diversity of an annual plant community was studied in a semiarid Mediterranean rangeland in Israel over 4 years...

  19. Genetic Diversity of Campylobacter jejuni and Campylobacter coli Isolates from Conventional Broiler Flocks and the Impacts of Sampling Strategy and Laboratory Method.

    Science.gov (United States)

    Vidal, A B; Colles, F M; Rodgers, J D; McCarthy, N D; Davies, R H; Maiden, M C J; Clifton-Hadley, F A

    2016-04-01

    The genetic diversity of Campylobacter jejuni and Campylobacter coliisolates from commercial broiler farms was examined by multilocus sequence typing (MLST), with an assessment of the impact of the sample type and laboratory method on the genotypes of Campylobacter isolated. A total of 645C. jejuniand 106C. coli isolates were obtained from 32 flocks and 17 farms, with 47 sequence types (STs) identified. The Campylobacter jejuniisolates obtained by different sampling approaches and laboratory methods were very similar, with the same STs identified at similar frequencies, and had no major effect on the genetic profile of Campylobacter population in broiler flocks at the farm level. ForC. coli, the results were more equivocal. While some STs were widely distributed within and among farms and flocks, analysis of molecular variance (AMOVA) revealed a high degree of genetic diversity among farms forC. jejuni, where farm effects accounted for 70.5% of variance, and among flocks from the same farm (9.9% of variance for C. jejuni and 64.1% forC. coli). These results show the complexity of the population structure of Campylobacterin broiler production and that commercial broiler farms provide an ecological niche for a wide diversity of genotypes. The genetic diversity of C. jejuni isolates among broiler farms should be taken into account when designing studies to understand Campylobacter populations in broiler production and the impact of interventions. We provide evidence that supports synthesis of studies on C. jejuni populations even when laboratory and sampling methods are not identical. Copyright © 2016 Vidal et al.

  20. Genetic Diversity of Campylobacter jejuni and Campylobacter coli Isolates from Conventional Broiler Flocks and the Impacts of Sampling Strategy and Laboratory Method

    Science.gov (United States)

    Colles, F. M.; Rodgers, J. D.; McCarthy, N. D.; Davies, R. H.; Maiden, M. C. J.; Clifton-Hadley, F. A.

    2016-01-01

    The genetic diversity of Campylobacter jejuni and Campylobacter coli isolates from commercial broiler farms was examined by multilocus sequence typing (MLST), with an assessment of the impact of the sample type and laboratory method on the genotypes of Campylobacter isolated. A total of 645 C. jejuni and 106 C. coli isolates were obtained from 32 flocks and 17 farms, with 47 sequence types (STs) identified. The Campylobacter jejuni isolates obtained by different sampling approaches and laboratory methods were very similar, with the same STs identified at similar frequencies, and had no major effect on the genetic profile of Campylobacter population in broiler flocks at the farm level. For C. coli, the results were more equivocal. While some STs were widely distributed within and among farms and flocks, analysis of molecular variance (AMOVA) revealed a high degree of genetic diversity among farms for C. jejuni, where farm effects accounted for 70.5% of variance, and among flocks from the same farm (9.9% of variance for C. jejuni and 64.1% for C. coli). These results show the complexity of the population structure of Campylobacter in broiler production and that commercial broiler farms provide an ecological niche for a wide diversity of genotypes. The genetic diversity of C. jejuni isolates among broiler farms should be taken into account when designing studies to understand Campylobacter populations in broiler production and the impact of interventions. We provide evidence that supports synthesis of studies on C. jejuni populations even when laboratory and sampling methods are not identical. PMID:26873321

  1. Increased sampling reveals novel lineages of Entamoeba: consequences of genetic diversity and host specificity for taxonomy and molecular detection.

    Science.gov (United States)

    Stensvold, C Rune; Lebbad, Marianne; Victory, Emma L; Verweij, Jaco J; Tannich, Egbert; Alfellani, Mohammed; Legarraga, Paulette; Clark, C Graham

    2011-07-01

    To expand the representation for phylogenetic analysis, ten additional complete Entamoeba small-subunit rRNA gene sequences were obtained from humans, non-human primates, cattle and a tortoise. For some novel sequences no corresponding morphological data were available, and we suggest that these organisms should be referred to as ribosomal lineages (RL) rather than being assigned species names at present. To investigate genetic diversity and host specificity of selected Entamoeba species, a total of 91 new partial small subunit rRNA gene sequences were obtained, including 49 from Entamoeba coli, 18 from Entamoeba polecki, and 17 from Entamoeba hartmanni. We propose a new nomenclature for significant variants within established Entamoeba species. Based on current data we propose that the uninucleated-cyst-producing Entamoeba infecting humans is called Entamoeba polecki and divided into four subtypes (ST1-ST4) and that Entamoeba coli is divided into two subtypes (ST1-ST2). New hosts for several species were detected and, while host specificity and genetic diversity of several species remain to be clarified, it is clear that previous reliance on cultivated material has given us a misleading and incomplete picture of variation within the genus Entamoeba. Copyright © 2010 Elsevier GmbH. All rights reserved.

  2. Spatial and temporal variability of biomarkers and microbial diversity reveal metabolic and community flexibility in Streamer Biofilm Communities in the Lower Geyser Basin, Yellowstone National Park.

    Science.gov (United States)

    Schubotz, F; Meyer-Dombard, D R; Bradley, A S; Fredricks, H F; Hinrichs, K-U; Shock, E L; Summons, R E

    2013-11-01

    Detailed analysis of 16S rRNA and intact polar lipids (IPLs) from streamer biofilm communities (SBCs), collected from geochemically similar hot springs in the Lower Geyser Basin, Yellowstone National Park, shows good agreement and affirm that IPLs can be used as reliable markers for the microbial constituents of SBCs. Uncultured Crenarchaea are prominent in SBS, and their IPLs contain both glycosidic and mixed glyco-phospho head groups with tetraether cores, having 0-4 rings. Archaeal IPL contributions increase with increasing temperature and comprise up to one-fourth of the total IPL inventory at >84 °C. At elevated temperatures, bacterial IPLs contain abundant glycosidic glycerol diether lipids. Diether and diacylglycerol (DAG) lipids with aminopentanetetrol and phosphatidylinositol head groups were identified as lipids diagnostic of Aquificales, while DAG glycolipids and glyco-phospholipids containing N-acetylgycosamine as head group were assigned to members of the Thermales. With decreasing temperature and concomitant changes in water chemistry, IPLs typical of phototrophic bacteria, such as mono-, diglycosyl, and sulfoquinovosyl DAG, which are specific for cyanobacteria, increase in abundance, consistent with genomic data from the same samples. Compound-specific stable carbon isotope analysis of IPL breakdown products reveals a large isotopic diversity among SBCs in different hot springs. At two of the hot springs, 'Bison Pool' and Flat Cone, lipids derived from Aquificales are enriched in (13) C relative to biomass and approach values close to dissolved inorganic carbon (DIC) (approximately 0‰), consistent with fractionation during autotrophic carbon fixation via the reversed tricarboxylic acid pathway. At a third site, Octopus Spring, the same Aquificales-diagnostic lipids are 10‰ depleted relative to biomass and resemble stable carbon isotope values of dissolved organic carbon (DOC), indicative of heterotrophy. Other bacterial and archaeal lipids show

  3. Structural and Temporal Variation in Genetic Diversity of European Spring Two-Row Barley Cultivars and Association Mapping of Quantitative Traits

    Directory of Open Access Journals (Sweden)

    Alessandro Tondelli

    2013-07-01

    Full Text Available Two hundred sixteen barley ( L. cultivars were selected to represent the diversity and history of European spring two-row barley breeding and to search for alleles controlling agronomic traits by association genetics. The germplasm was genotyped with 7864 gene-based single nucleotide polymorphism markers and corresponding field trial trait data relating to growth and straw strength were obtained at multiple European sites. Analysis of the marker data by statistical population genetics approaches revealed two important trends in the genetic diversity of European two-row spring barley, namely, i directional selection for approximately 14% of total genetic variation of the population in the last approximately 50 yr and ii highly uneven genomic distribution of genetic diversity. Association analysis of the phenotypic and genotypic data identified multiple loci affecting the traits investigated, some of which co-map with selected regions. Collectively, these data show that the genetic makeup of European two-row spring barley is evolving under breeder selection, with signs of extinction of diversity in some genomic regions, suggesting that “breeding the best with the best” is leading towards fixation of some breeder targets. Nevertheless, modern germplasm also retains many regions of high diversity, suggesting that site-specific genetic approaches for allele identification and crop improvement such as association genetics are likely to be successful.

  4. Structural and temporal variation in the genetic diversity of a European collection of spring two-row barley cultivars and utility for association mapping of quantitative traits

    DEFF Research Database (Denmark)

    Tondelli, Alessandro; Xu, Xin; Moragues, Marc

    2013-01-01

    nucleotide polymorphism markers and corresponding field trial trait data relating to growth and straw strength were obtained at multiple European sites. Analysis of the marker data by statistical population genetics approaches revealed two important trends in the genetic diversity of European two-row spring...... the traits investigated, some of which co-map with selected regions. Collectively, these data show that the genetic makeup of European two-row spring barley is evolving under breeder selection, with signs of extinction of diversity in some genomic regions, suggesting that “breeding the best with the best......” is leading towards fixation of some breeder targets. Nevertheless, modern germplasm also retains many regions of high diversity, suggesting that site-specific genetic approaches for allele identification and crop improvement such as association genetics are likely to be successful....

  5. Sampling a biodiversity hotspot: the orchid-bee fauna (Hymenoptera: Apidae) of Tarapoto, northeastern Peru, the richest and most diverse site of the Neotropics.

    Science.gov (United States)

    Nemésio, A; Rasmussen, C

    2014-08-01

    The orchid-bee fauna of the region of Tarapoto, northeastern Peru, was surveyed using seventeen different scents as baits to attract orchid-bee males. Six hundred and fifty-nine males belonging to 41 species were actively collected with insect nets during 120 hours in late July and early August, 2012. Euglossa dressleri Moure, 1968, Euglossa laurensi Bembé, 2008, and Euglossa maculilabris Moure, 1968, three species belonging to the Euglossa cybelia species-group, are here reported for Peru for the first time. Previous sporadic and unpublished samplings in the area recorded eleven additional species. With 53 species, the region of Tarapoto can be considered the richest single site in the Neotropics for orchid bees. Diversity, estimated with the Shannon-Wiener diversity index (H' = 3.02), was also the highest ever recorded for orchid bees.

  6. Sampling a biodiversity hotspot: the orchid-bee fauna (Hymenoptera: Apidae of Tarapoto, northeastern Peru, the richest and most diverse site of the Neotropics

    Directory of Open Access Journals (Sweden)

    A Nemésio

    Full Text Available The orchid-bee fauna of the region of Tarapoto, northeastern Peru, was surveyed using seventeen different scents as baits to attract orchid-bee males. Six hundred and fifty-nine males belonging to 41 species were actively collected with insect nets during 120 hours in late July and early August, 2012. Euglossa dressleriMoure, 1968, Euglossa laurensiBembé, 2008, and Euglossa maculilabrisMoure, 1968, three species belonging to the Euglossa cybelia species-group, are here reported for Peru for the first time. Previous sporadic and unpublished samplings in the area recorded eleven additional species. With 53 species, the region of Tarapoto can be considered the richest single site in the Neotropics for orchid bees. Diversity, estimated with the Shannon-Wiener diversity index (H′ = 3.02, was also the highest ever recorded for orchid bees.

  7. Assessment of minimum sample sizes required to adequately represent diversity reveals inadequacies in datasets of domestic dog mitochondrial DNA.

    Science.gov (United States)

    Webb, Kristen; Allard, Marc

    2010-02-01

    Evolutionary and forensic studies commonly choose the mitochondrial control region as the locus for which to evaluate the domestic dog. However, the number of dogs that need to be sampled in order to represent the control region variation present in the worldwide population is yet to be determined. Following the methods of Pereira et al. (2004), we have demonstrated the importance of surveying the complete control region rather than only the popular left domain. We have also evaluated sample saturation in terms of the haplotype number and the number of polymorphisms within the control region. Of the most commonly cited evolutionary research, only a single study has adequately surveyed the domestic dog population, while all forensic studies have failed to meet the minimum values. We recommend that future studies consider dataset size when designing experiments and ideally sample both domains of the control region in an appropriate number of domestic dogs.

  8. C15271. The Chemical Diversity of Lantana camara: Analyses of Essential Oil Samples from Cuba, Nepal, and Yemen.

    Science.gov (United States)

    Satyal, Prabodh; Crouch, Rebecca A; Monzote, Lianet; Cos, Paul; Awadh Ali, Nasser A; Alhaj, Mehdi A; Setzer, William N

    2016-02-10

    The aerial parts of Lantana camara L. were collected from three different geographical locations: Artemisa (Cuba), Biratnagar (Nepal), and Sana'a (Yemen). The essential oils were obtained by hydrodistillation and analyzed by gas chromatography - mass spectrometry. A cluster analysis of 39 L. camara essential oil compositions revealed eight major chemotypes: β-caryophyllene, germacrene D, ar-curcumene/zingiberene, γ-curcumen-15-al/epi-β-bisabolol, (E)-nerolidol, davanone, eugenol/alloaromadendrene, and carvone. The sample from Cuba falls into the group dominated by (E)-nerolidol, the sample from Nepal is a davanone chemotype, and the sample from Yemen belongs to the β-caryophyllene chemotype. The chemical composition of L. camara oil plays a role in the biological activity; the β-caryophyllene and (E)-nerolidol chemotypes showed antimicrobial and cytotoxic activities. This article is protected by copyright. All rights reserved. This article is protected by copyright. All rights reserved.

  9. Bacterial contamination of whole-blood-derived platelets: the introduction of sample diversion and prestorage pooling with culture testing in the American Red Cross.

    Science.gov (United States)

    Benjamin, Richard J; Kline, Linda; Dy, Beth A; Kennedy, Jean; Pisciotto, Patricia; Sapatnekar, Suneeti; Mercado, Rachel; Eder, Anne F

    2008-11-01

    Bacterial sepsis following whole blood-derived platelet (WBP) transfusion has remained a substantial patient risk, primarily due to a lack of practical and effective means to limit or detect bacterial contamination. We describe the risk of reported septic reactions to WBPs and the introduction of prestorage-pooled whole blood-derived platelets (PSPs) collected using initial sample diversion and cultured for bacterial contamination. Product qualification and quality control (QC) testing with the Acrodose PL system (Pall Medical) were evaluated in four regional blood centers. Bacterial contamination risk was assessed by review of reported septic transfusion reactions to WBPs and by aerobic QC culture of leukoreduced PSPs utilizing automated microbial detection system cultures (BacT/ALERT 3D, bioMérieux). Before implementing PSPs (January 2003-December 2006), we distributed 2,535,043 WBP units and received 20 reports of septic reactions including 2 fatalities (7.9 per million [1:126,752] reactions and 0.79 per million [1:1,267,522] fatalities). In October 2006, PSPs were effectively implemented with a product qualification success rate of 99.6 percent and a mean yield of 4.0 x 10(11) platelets (PLTs) per pool. Whole blood collection sets with sample diversion technology were introduced during the operational trial and decreased the rate of confirmed-positive bacterial culture of PSPs from 2111 (1:474) to 965 (1:1036) per million (odds ratio, 0.46; 95% confidence interval, 0.22-0.95). No septic reactions to PSPs were reported (25,936 PSP units distributed). Sample diversion and bacterial culture are effective methods to reduce bacterial risk with WBP transfusion. Bacterial contamination of PSPs was assessed at 5.8-fold our current rate for apheresis PLTs utilizing comparable culture protocols.

  10. Sexual diversity in the United States: Results from a nationally representative probability sample of adult women and men.

    Science.gov (United States)

    Herbenick, Debby; Bowling, Jessamyn; Fu, Tsung-Chieh Jane; Dodge, Brian; Guerra-Reyes, Lucia; Sanders, Stephanie

    2017-01-01

    In 2015, we conducted a cross-sectional, Internet-based, U.S. nationally representative probability survey of 2,021 adults (975 men, 1,046 women) focused on a broad range of sexual behaviors. Individuals invited to participate were from the GfK KnowledgePanel®. The survey was titled the 2015 Sexual Exploration in America Study and survey completion took about 12 to 15 minutes. The survey was confidential and the researchers never had access to respondents' identifiers. Respondents reported on demographic items, lifetime and recent sexual behaviors, and the appeal of 50+ sexual behaviors. Most (>80%) reported lifetime masturbation, vaginal sex, and oral sex. Lifetime anal sex was reported by 43% of men (insertive) and 37% of women (receptive). Common lifetime sexual behaviors included wearing sexy lingerie/underwear (75% women, 26% men), sending/receiving digital nude/semi-nude photos (54% women, 65% men), reading erotic stories (57% of participants), public sex (≥43%), role-playing (≥22%), tying/being tied up (≥20%), spanking (≥30%), and watching sexually explicit videos/DVDs (60% women, 82% men). Having engaged in threesomes (10% women, 18% men) and playful whipping (≥13%) were less common. Lifetime group sex, sex parties, taking a sexuality class/workshop, and going to BDSM parties were uncommon (each diverse adult sexual behaviors than has previously been captured in U.S. nationally representative probability surveys. Implications for sexuality educators, clinicians, and individuals in the general population are discussed.

  11. Understanding and supporting women with polycystic ovary syndrome: a qualitative study in an ethnically diverse UK sample.

    Science.gov (United States)

    Hadjiconstantinou, Michelle; Mani, Hamidreza; Patel, Naina; Levy, Miles; Davies, Melanie; Khunti, Kamlesh; Stone, Margaret

    2017-07-01

    Polycystic ovary syndrome (PCOS) is a lifelong condition. Its symptoms have been linked with psychological consequences, but less attention has been given to the daily implications of living with PCOS. We aimed to explore women's experiences living with PCOS, and the potential acceptability of group education sessions for this target group. Women with PCOS were recruited from an ethnically diverse UK community. Twelve semi-structured interviews were conducted. Analysis was underpinned by the constant comparative approach and involved the identification and exploration of key themes. Participants reported a range of symptoms linked with PCOS, including problems relating to menstruation and weight difficulties. Hirsutism was reported as the most distressing symptom. Emergent themes included perceptions about symptoms and delays in receiving a diagnosis; psychological distress; practical implications of living with the condition; coping with PCOS and perceived support needs. Some findings were specific to cultural backgrounds. Participants were supportive of the idea of group education for women with PCOS and suggested a need to provide education within the community and health care providers. Women with PCOS experience high psychological distress and difficulties with coping with their condition. Suggested strategies to reduce the negative psychological impact include education at various levels. © 2017 The authors.

  12. Parental Expectations and Investments: Links to children's academic performance in an ethnically diverse low-income sample

    OpenAIRE

    Byrne, Cristal Lynn

    2013-01-01

    The aim of this short-term longitudinal study was to provide empirical support for the role that parental investments in children's education play in mediating the association between parental expectations and child academic outcomes. Participants were a hetergeneous sample of 426 low-income urban youth, ages 6 through 16 at the first time point of the current study. Results from regression analyses indicated that parental expectations at Time 1 predicted children's academic achievement outco...

  13. Psychometric properties of the intuitive eating scale-2 (IES-2) in a culturally diverse Hispanic American sample.

    Science.gov (United States)

    Saunders, Jessica F; Nichols-Lopez, Kristin A; Frazier, Leslie D

    2017-11-14

    Intuitive eating is an adaptive eating tendency consistently associated with positive physical and mental health outcomes, including lower risk for obesity and eating disorders (EDs). Obesity rates are disproportionately high in Hispanic American populations, yet the properties of intuitive eating remain to be examined in such samples. The current study examined the psychometric properties of the Intuitive Eating Scale-2 (IES-2) in a Hispanic American sample of adult college students (N=482), and related IES-2 scores to levels of disordered eating, body mass index (BMI), fruit and vegetable consumption, and body shape satisfaction. The final confirmatory factor analysis supported a three factor, 11 item measure with the subscales of Eating for Physical Rather Than Emotional Reasons, Reliance on Hunger and Satiety Cues, and Body Food Choice Congruence. The Unconditional Permission to Eat subscale could not be replicated in the current sample. As predicted, scores on the revised measure differed by BMI category and body shape satisfaction, and correlated with disordered eating tendencies and fruit and vegetable consumption. The current findings demonstrate that the modified IES-2 is better tailored to assess the cultural nuances influencing intuitive eating and can advance understanding how intuitive eating is understood and practiced in Hispanic Americans, compared to the original measure. Copyright © 2017. Published by Elsevier Ltd.

  14. Effect of a major highway on the spatial and temporal variation in the structure and diversity of the avifauna of a tropical premontane rain forest

    OpenAIRE

    Ávalos, Gerardo; Bermúdez, Esteban

    2016-01-01

    Roads immersed in conservation areas will increase in number, size, and traffic over the next decade, and thus, understanding their effects on forest-dependent wildlife is crucial for improving current management practices and reducing the negative impacts of roads on sensitive species. We examined the influence of route 32 (a.k.a. Guápiles Highway) on temporal and spatial changes in the structure of the avifauna of Braulio Carrillo National Park, Costa Rica, a site crossed by this road along...

  15. The relationship between family-based adverse childhood experiences and substance use behaviors among a diverse sample of college students.

    Science.gov (United States)

    Forster, Myriam; Grigsby, Timothy J; Rogers, Christopher J; Benjamin, Stephanie M

    2018-01-01

    Research suggests that college students are an especially vulnerable subset of the population for substance use and misuse. However, despite evidence of the high prevalence of adverse childhood experiences (ACE) among students and the link between family-based ACE and substance use among older adults, this relationship remains understudied in college populations. Moreover, whether ACE represents a shared risk across substance use behaviors and ethnic groups is unknown. Data are student responses (n=2953) on the 2015 American College Health Association's National College Health Assessment II (ACHA-NCHA II) administered at one of the largest, most diverse public universities in California. Multivariable logistic and negative binomial regression models tested the association between individual and accumulated ACE and past 30-day alcohol, tobacco, marijuana, and illicit drug use, past 12-month prescription medication misuse and polysubstance use. Between 50% and 75% of students involved in substance use were ACE exposed. There was a significant dose-response relationship between ACE and substance use and polysubstance use. Although accumulated ACE increased risk for substance use, there was considerable ethnic variability in these associations. The graded effects of ACE for substance use underscore the link between family-based stressors and these behaviors in emergent adult college students. Our findings make a compelling case for investing in health initiatives that prioritize ACE screening and access to trauma-informed care in campus communities. Continued research with college populations is needed to replicate findings and clarify the role of ethnicity and culture in trauma response and help seeking behaviors. Copyright © 2017 Elsevier Ltd. All rights reserved.

  16. Sexual diversity in the United States: Results from a nationally representative probability sample of adult women and men.

    Directory of Open Access Journals (Sweden)

    Debby Herbenick

    Full Text Available In 2015, we conducted a cross-sectional, Internet-based, U.S. nationally representative probability survey of 2,021 adults (975 men, 1,046 women focused on a broad range of sexual behaviors. Individuals invited to participate were from the GfK KnowledgePanel®. The survey was titled the 2015 Sexual Exploration in America Study and survey completion took about 12 to 15 minutes. The survey was confidential and the researchers never had access to respondents' identifiers. Respondents reported on demographic items, lifetime and recent sexual behaviors, and the appeal of 50+ sexual behaviors. Most (>80% reported lifetime masturbation, vaginal sex, and oral sex. Lifetime anal sex was reported by 43% of men (insertive and 37% of women (receptive. Common lifetime sexual behaviors included wearing sexy lingerie/underwear (75% women, 26% men, sending/receiving digital nude/semi-nude photos (54% women, 65% men, reading erotic stories (57% of participants, public sex (≥43%, role-playing (≥22%, tying/being tied up (≥20%, spanking (≥30%, and watching sexually explicit videos/DVDs (60% women, 82% men. Having engaged in threesomes (10% women, 18% men and playful whipping (≥13% were less common. Lifetime group sex, sex parties, taking a sexuality class/workshop, and going to BDSM parties were uncommon (each <8%. More Americans identified behaviors as "appealing" than had engaged in them. Romantic/affectionate behaviors were among those most commonly identified as appealing for both men and women. The appeal of particular behaviors was associated with greater odds that the individual had ever engaged in the behavior. This study contributes to our understanding of more diverse adult sexual behaviors than has previously been captured in U.S. nationally representative probability surveys. Implications for sexuality educators, clinicians, and individuals in the general population are discussed.

  17. Candida species diversity and antifungal susceptibility patterns in oral samples of HIV/AIDS patients in Baja California, Mexico.

    Science.gov (United States)

    Clark-Ordóñez, Isadora; Callejas-Negrete, Olga A; Aréchiga-Carvajal, Elva T; Mouriño-Pérez, Rosa R

    2017-04-01

    Candidiasis is the most common opportunistic fungal infection in HIV patients. The aims of this study were to identify the prevalence of carriers of Candida, Candida species diversity, and in vitro susceptibility to antifungal drugs. In 297 HIV/AIDS patients in Baja California, Mexico, Candida strains were identified by molecular methods (PCR-RFLP) from isolates of oral rinses of patients in Tijuana, Mexicali, and Ensenada. 56.3% of patients were colonized or infected with Candida. In Tijuana, there was a significantly higher percentage of carriers (75.5%). Out of the 181 strains that were isolated, 71.8% were Candida albicans and 28.2% were non-albicans species. The most common non-albicans species was Candida tropicalis (12.2%), followed by Candida glabrata (8.3%), Candida parapsilosis (2.2%), Candida krusei (1.7%), and Candida guilliermondii (1.1%). Candida dubliniensis was not isolated. Two associated species were found in 11 patients. In Mexicali and Ensenada, there was a lower proportion of Candida carriers compared to other regions in Mexico and worldwide, however, in Tijuana, a border town with many peculiarities, a higher carrier rate was found. In this population, only a high viral load was associated with oral Candida carriers. Other factors such as gender, use of antiretroviral therapy, CD4+ T-lymphocyte levels, time since diagnosis, and alcohol/ tobacco consumption, were not associated with Candida carriers. © The Author 2016. Published by Oxford University Press on behalf of The International Society for Human and Animal Mycology. All rights reserved. For permissions, please e-mail: journals.permissions@oup.com.

  18. Executive functioning in a racially diverse sample of children who are overweight and at risk for eating disorders.

    Science.gov (United States)

    Goldschmidt, Andrea B; O'Brien, Setareh; Lavender, Jason M; Pearson, Carolyn M; Le Grange, Daniel; Hunter, Scott J

    2017-03-18

    Difficulties with executive functioning may underlie both overweight and loss of control (LOC) eating behavior across the age spectrum, but there is a relative paucity of research in children with both conditions. This study aimed to characterize general executive functioning among children with overweight and LOC eating as compared to their overweight and normal-weight peers. Participants were 75 racially diverse children (58.7% female; 81.3% African-American), aged 9-12y (M age = 10.5 ± 1.1), of whom 26 were overweight/obese and endorsed LOC eating (OW-LOC), 34 were overweight controls (OW-CON), and 15 were normal-weight controls (NW-CON). All children completed interview-based measures of eating pathology, and behavioral measures of executive functioning. Parents reported on behavioral facets of children's executive functioning. Groups were compared across parent-report measures and behavioral tasks using analyses of covariance (ANCOVAs) and multivariate analyses of covariance (MANCOVAs) which adjusted for general intellectual functioning. Significant group differences were revealed on a behavioral measure of planning, the Tower of London task [F (5,65) = 3.52; p = 0.007], and a behavioral measure of working memory, the List Sorting task [F (2,71) = 6.45; p = 0.003]. Post-hoc tests revealed that OW-LOC and OW-CON performed worse than NW-CON on the Tower of London, with relative decrements in accuracy rather than performance time. Further, OW-LOC performed worse than both OW-CON and NW-CON on the List Sorting task. Overweight with or without concomitant LOC eating in children may characterize a unique pattern of executive dysfunction. Interventions for eating- and weight-related problems in youth should address underlying deficits in planning and working memory. Copyright © 2017. Published by Elsevier Ltd.

  19. Sexual diversity in the United States: Results from a nationally representative probability sample of adult women and men

    Science.gov (United States)

    Herbenick, Debby; Bowling, Jessamyn; Fu, Tsung-Chieh (Jane); Guerra-Reyes, Lucia; Sanders, Stephanie

    2017-01-01

    In 2015, we conducted a cross-sectional, Internet-based, U.S. nationally representative probability survey of 2,021 adults (975 men, 1,046 women) focused on a broad range of sexual behaviors. Individuals invited to participate were from the GfK KnowledgePanel®. The survey was titled the 2015 Sexual Exploration in America Study and survey completion took about 12 to 15 minutes. The survey was confidential and the researchers never had access to respondents’ identifiers. Respondents reported on demographic items, lifetime and recent sexual behaviors, and the appeal of 50+ sexual behaviors. Most (>80%) reported lifetime masturbation, vaginal sex, and oral sex. Lifetime anal sex was reported by 43% of men (insertive) and 37% of women (receptive). Common lifetime sexual behaviors included wearing sexy lingerie/underwear (75% women, 26% men), sending/receiving digital nude/semi-nude photos (54% women, 65% men), reading erotic stories (57% of participants), public sex (≥43%), role-playing (≥22%), tying/being tied up (≥20%), spanking (≥30%), and watching sexually explicit videos/DVDs (60% women, 82% men). Having engaged in threesomes (10% women, 18% men) and playful whipping (≥13%) were less common. Lifetime group sex, sex parties, taking a sexuality class/workshop, and going to BDSM parties were uncommon (each <8%). More Americans identified behaviors as “appealing” than had engaged in them. Romantic/affectionate behaviors were among those most commonly identified as appealing for both men and women. The appeal of particular behaviors was associated with greater odds that the individual had ever engaged in the behavior. This study contributes to our understanding of more diverse adult sexual behaviors than has previously been captured in U.S. nationally representative probability surveys. Implications for sexuality educators, clinicians, and individuals in the general population are discussed. PMID:28727762

  20. The intersection of interpersonal and self-directed violence among general adult, college student and sexually diverse samples.

    Science.gov (United States)

    Cramer, Robert J; Desmarais, Sarah L; Johnson, Kiersten L; Gemberling, Tess M; Nobles, Matt R; Holley, Sarah R; Wright, Susan; Van Dorn, Richard

    2017-02-01

    Suicide and interpersonal violence (i.e. victimization and perpetration) represent pressing public health problems, and yet remain mostly addressed as separate topics. To identify the (1) frequency and overlap of suicide and interpersonal violence and (2) characteristics differentiating subgroups of violence-related experiences. A health survey was completed by 2,175 respondents comprised of three groups: college students ( n = 702), adult members of a sexuality special interest organization ( n = 816) and a community adult sample ( n = 657). Latent class analysis was used to identify subgroups characterized by violence experiences; logistic regression was used to identify respondent characteristics differentiating subgroups. Overall rates of violence perpetration were low; perpetration, victimization and self-directed violence all varied by sample. Adults with alternative sexual interests reported high rates of victimization and self-directed violence. Analyses indicated two subgroups: (1) victimization + self-directed violence and (2) self-directed violence only. The victimization + self-directed violence subgroup was characterized by older, White, female and sexual orientation minority persons. The self-directed violence subgroup was characterized by younger, non-White, male and straight counterparts engaging with more sexual partners and more frequent drug use. Findings support the Centers for Disease Control and Prevention (CDC) definition of suicide as self-directed violence. Suicide intervention and prevention should further account for the role of violent victimization by focusing on the joint conceptualization of self-directed and interpersonal violence. Additional prevention implications are discussed.

  1. The impact of conduct disorder and stimulant medication on later substance use in an ethnically diverse sample of individuals with attention-deficit/hyperactivity disorder in childhood.

    Science.gov (United States)

    Harty, Seth C; Ivanov, Iliyan; Newcorn, Jeffrey H; Halperin, Jeffrey M

    2011-08-01

    To examine late adolescent substance use outcomes in relation to childhood conduct disorder (CD) and psychostimulant treatment in urban youth found to have attention-deficit/hyperactivity disorder (ADHD) in childhood. Ninety-seven adolescents, evaluated during childhood, were seen for follow-up on average 9.30 (SD = 1.65) years later along with a well-matched never-ADHD control group. Stimulant treatment history was coded: Never (n = 28), up to 1 year (n = 19), 1 to 5 years (n = 28), and greater than 5 years (n = 22). Substance use at outcome was coded dimensionally for severity (frequency × intensity) and categorically for substance use disorders (SUDs). Individuals with ADHD+CD in childhood had significantly higher rates of SUD and substance use severity than those with childhood ADHD and controls. The ADHD and control groups did not differ significantly. Among those with childhood ADHD, there were no significant differences in SUD status or substance use severity as a function of medication history. Within an ethnically diverse urban sample, the increased rate of substance use associated with ADHD was fully accounted for by the presence of CD. These results extend previous findings indicating little impact of psychostimulant treatment on later substance use to an ethnically diverse urban sample and to individuals who received treatment for up to 12 years.

  2. High acceptability of rapid HIV self-testing among a diverse sample of MSM from Buenos Aires, Argentina.

    Directory of Open Access Journals (Sweden)

    Maria A Pando

    Full Text Available The objective of this study was to explore the acceptability of rapid HIV self-testing (RHST among men who have sex with men (MSM.During 2006-2009, a sample of 500 MSM was recruited through Respondent Driven Sampling for an HIV prevalence/incidence study. Attitude toward RHST was explored among HIV negative MSM. Data were weighted prior to analyses.Participants reported they were likely to buy RHST (74%, test themselves more frequently than they currently do (77%, and that the procedure would simplify testing (70%. Furthermore, 71% reported they would probably use it alone, 66% would use it with a steady partner, and 56% with a friend/partner. While a majority acknowledged that RHST use would deprive them of receiving counseling (61%, 74% declared they would go for help if they tested positive; 57% would use an RHST in order to avoid condoms. Probability of use surpassed 70% among gay and non-gay identified MSM as well as those with and without a previous HIV test. Those likely to buy RHST were older (p = 0.025 and more likely to identify as gay (p = 0.036. A total of 17% said they would think about killing themselves and 9% would attempt suicide if they tested positive. These MSM were more likely to be younger (p<0.001, with lower mood level (p<0.001 and greater feelings of loneliness (p = 0.026.The high acceptability of RHST found among MSM should encourage the authorities to consider the possibility of offering it for self-testing, as it can improve early diagnosis and prevention of future transmissions. However, further research is needed to understand how to best disseminate RHST among MSM who wish to use it and to offer support and linkage to care for those who test HIV-positive.

  3. Interrelationships between LGBT-based victimization, suicide, and substance use problems in a diverse sample of sexual and gender minorities.

    Science.gov (United States)

    Mereish, Ethan H; O'Cleirigh, Conall; Bradford, Judith B

    2014-01-01

    Research has documented significant relationships between sexual and gender minority stress and higher rates of suicidality (i.e. suicidal ideation and attempts) and substance use problems. We examined the potential mediating role of substance use problems on the relationship between sexual and gender minority stress (i.e. victimization based on lesbian, gay, bisexual, or transgender identity [LGBT]) and suicidality. A nonprobability sample of LGBT patients from a community health center (N = 1457) ranged in age from 19-70 years. Participants reported history of lifetime suicidal ideation and attempts, substance use problems, as well as experiences of LGBT-based verbal and physical attacks. Substance use problems were a significant partial mediator between LGBT-based victimization and suicidal ideation and between LGBT-based victimization and suicide attempts for sexual and gender minorities. Nuanced gender differences revealed that substance use problems did not significantly mediate the relationship between victimization and suicide attempts for sexual minority men. Substance use problems may be one insidious pathway that partially mediates the risk effects of sexual and gender minority stress on suicidality. Substances might be a temporary and deleterious coping resource in response to LGBT-based victimization, which have serious effects on suicidal ideation and behaviors.

  4. Valuing health in a racially and ethnically diverse community sample: an analysis using the valuation metrics of money and time

    Science.gov (United States)

    Horvitz-Lennon, Marcela; Chen, Chih-nan; Laderman, Mara; Alegría, Margarita

    2013-01-01

    Purpose Limited research in health valuation analyzes samples with high proportions of racial/ethnic minorities within the United States. The primary objective was to explore patterns of health valuation across race/ethnicity using the Collaborative Psychiatric Epidemiology Surveys. A secondary objective was to analyze whether mental health disorder and immigrant status were associated with these estimates. Methods Health valuation questions using different metrics (time and money) were analyzed. Ordered logit models stratified across poor and moderate health tested differences by race/ethnicity, with mental health disorder and immigrant status as covariates. Results Asians in moderate health and Latinos were willing to pay more for health than non-Latino whites. Asians in moderate health were willing to trade more time for health. Latinos in poor health were less willing to trade time and gave disproportionate zero-trade responses. Lifetime history of anxiety disorder was positively associated with both metrics. Immigrant status confounded money valuation for Asians in moderate health, and time valuation for Latinos in poor health. Conclusions Health valuation estimates vary across race/ethnicity depending upon the metric. Time valuation scenarios appear less feasible for Latinos in poor health. More research is necessary to understand these differences and the role of immigrant status in health valuation. PMID:20680690

  5. Analysis of ASPM in an ethnically diverse cohort of 400 patient samples: perspectives of the molecular diagnostic laboratory.

    Science.gov (United States)

    Tan, C A; del Gaudio, D; Dempsey, M A; Arndt, K; Botes, S; Reeder, A; Das, S

    2014-04-01

    Primary Autosomal Recessive Microcephaly (MCPH) is characterized by congenital microcephaly usually without additional clinical findings. The most common gene implicated in MCPH is ASPM and a large percentage of mutations described have been homozygous and in consanguineous families primarily of East Asian and Middle Eastern origin. ASPM sequencing was performed on 400 patients between the years 2009 and 2012. Seventy of the patient samples were also analyzed for copy number changes in the ASPM gene. Forty protein truncating mutations, including 29 novel mutations, were identified in 39 patients with MCPH. Approximately one third of patients were compound heterozygotes, indicative of non-consanguinity in these patients. In addition, 46 non-synonymous variants were identified and interpreted as variants of uncertain significance. No deletion/duplication in ASPM was identified in the patients analyzed. A wide ethnic distribution was observed, including the first reported patients with ASPM-related MCPH of Hispanic descent. Clinical information was collected for 26 of the ASPM-positive patients and 41 of the ASPM-negative patients. As more individuals are identified with MCPH, we anticipate that we will continue to identify ASPM mutation-positive patients from all ethnic origins supporting the occurrence of this genetic condition beyond that of consanguineous families of certain ethnic populations. © 2013 John Wiley & Sons A/S. Published by John Wiley & Sons Ltd.

  6. Microbial diversity in fecal samples depends on DNA extraction method: easyMag DNA extraction compared to QIAamp DNA stool mini kit extraction.

    Science.gov (United States)

    Mirsepasi, Hengameh; Persson, Søren; Struve, Carsten; Andersen, Lee O B; Petersen, Andreas M; Krogfelt, Karen A

    2014-01-21

    There are challenges, when extracting bacterial DNA from specimens for molecular diagnostics, since fecal samples also contain DNA from human cells and many different substances derived from food, cell residues and medication that can inhibit downstream PCR. The purpose of the study was to evaluate two different DNA extraction methods in order to choose the most efficient method for studying intestinal bacterial diversity using Denaturing Gradient Gel Electrophoresis (DGGE). In this study, a semi-automatic DNA extraction system (easyMag®, BioMérieux, Marcy I'Etoile, France) and a manual one (QIAamp DNA Stool Mini Kit, Qiagen, Hilden, Germany) were tested on stool samples collected from 3 patients with Inflammatory Bowel disease (IBD) and 5 healthy individuals. DNA extracts obtained by the QIAamp DNA Stool Mini Kit yield a higher amount of DNA compared to DNA extracts obtained by easyMag® from the same fecal samples. Furthermore, DNA extracts obtained using easyMag® seemed to contain inhibitory compounds, since in order to perform a successful PCR-analysis, the sample should be diluted at least 10 times. DGGE performed on PCR from DNA extracted by QIAamp DNA Stool Mini Kit DNA was very successful. QIAamp DNA Stool Mini Kit DNA extracts are optimal for DGGE runs and this extraction method yields a higher amount of DNA compared to easyMag®.

  7. A descriptive study of beverage consumption among an ethnically diverse sample of public school students in Texas.

    Science.gov (United States)

    Evans, Alexandra E; Springer, Andrew E; Evans, Martin H; Ranjit, Nalini; Hoelscher, Deanna M

    2010-08-01

    The purpose of this study was to examine prevalence rates of 5 types of beverage consumption by sociodemographic factors among 4th-, 8th-, and 11th-grade public school students in Texas. This study is based on secondary analyses of cross-sectional data from the 2004-2005 School Physical Activity and Nutrition study, a comprehensive surveillance study of energy balance-related behaviors and behavioral antecedents in a state-representative sample of 4th-, 8th-, and 11th-grade public school students in Texas (N = 23,190). Previous-day beverage consumption prevalence estimates were calculated for 5 types of beverages (i.e., fruit-flavored drinks, regular sodas, diet sodas, milk, and 100% fruit juice) by grade level, gender, ethnicity, school-level socioeconomic status, and metropolitan status. Logistic regression estimates of consumption prevalence were obtained for important sociodemographic indicators, including sex, grade, and ethnicity. Adjusted Wald tests were used to derive significance tests for sex differences in consumption, as sex emerged as a key determinant of consumption prevalence and varied systematically by type of beverage. The most commonly consumed beverage by all participants was milk. However, more than 50% of students also reported regular soda and fruit-flavored drink consumption during the previous day. Milk and fruit juice consumption showed a steady decline with grade level, while consumption of regular soda increased with grade level. By 11th grade, the prevalence of any beverage consumption, including milk and juice, was significantly greater among boys. Ethnic differences in sugar-sweetened beverage consumption were most prevalent in 8th and 11th grades, with the highest estimated prevalence of sugar-sweetened beverages (i.e., fruit-flavored drink and regular soda) consumption among African Americans. Differences in beverage consumption by school-level socioeconomic status and metropolitan status were small. These findings indicate that a

  8. Selective inferior petrosal sinus sampling without venous outflow diversion in the detection of a pituitary adenoma in Cushing's syndrome

    Energy Technology Data Exchange (ETDEWEB)

    Andereggen, Lukas [Bern University Hospital, University Institute of Diagnostic and Interventional Neuroradiology, Bern (Switzerland); Bern University Hospital, Department of Neurosurgery, Bern (Switzerland); Schroth, Gerhard; Gralla, Jan; Ozdoba, Christoph [Bern University Hospital, University Institute of Diagnostic and Interventional Neuroradiology, Bern (Switzerland); Seiler, Rolf; Mariani, Luigi; Beck, Juergen; Widmer, Hans-Rudolf; Andres, Robert H. [Bern University Hospital, Department of Neurosurgery, Bern (Switzerland); Christ, Emanuel [Bern University Hospital, Division of Endocrinology, Diabetology and Clinical Nutrition, Bern (Switzerland)

    2012-05-15

    Conventional MRI may still be an inaccurate method for the non-invasive detection of a microadenoma in adrenocorticotropin (ACTH)-dependent Cushing's syndrome (CS). Bilateral inferior petrosal sinus sampling (BIPSS) with ovine corticotropin-releasing hormone (oCRH) stimulation is an invasive, but accurate, intervention in the diagnostic armamentarium surrounding CS. Until now, there is a continuous controversial debate regarding lateralization data in detecting a microadenoma. Using BIPSS, we evaluated whether a highly selective placement of microcatheters without diversion of venous outflow might improve detection of pituitary microadenoma. We performed BIPSS in 23 patients that met clinical and biochemical criteria of CS and with equivocal MRI findings. For BIPSS, the femoral veins were catheterized bilaterally with a 6-F catheter and the inferior petrosal sinus bilaterally with a 2.7-F microcatheter. A third catheter was placed in the right femoral vein. Blood samples were collected from each catheter to determine ACTH blood concentration before and after oCRH stimulation. In 21 patients, a central-to-peripheral ACTH gradient was found and the affected side determined. In 18 of 20 patients where transsphenoidal partial hypophysectomy was performed based on BIPSS findings, microadenoma was histologically confirmed. BIPSS had a sensitivity of 94% and a specificity of 67% after oCRH stimulation in detecting a microadenoma. Correct localization of the adenoma was achieved in all Cushing's disease patients. BIPSS remains the gold standard in the detection of a microadenoma in CS. Our findings show that the selective placement of microcatheters without venous outflow diversion might further enhance better recognition to localize the pituitary tumor. (orig.)

  9. Temporal Photon Differentials

    DEFF Research Database (Denmark)

    Schjøth, Lars; Frisvad, Jeppe Revall; Erleben, Kenny

    2010-01-01

    , constituting a temporal smoothing of rapidly changing illumination. In global illumination temporal smoothing can be achieved with distribution ray tracing (Cook et al., 1984). Unfortunately, this, and resembling methods, requires a high temporal resolution as samples has to be drawn from in-between frames. We...... present a novel method which is able to produce high quality temporal smoothing for indirect illumination without using in-between frames. Our method is based on ray differentials (Igehy, 1999) as it has been extended in (Sporring et al., 2009). Light rays are traced as bundles creating footprints, which......The finite frame rate also used in computer animated films is cause of adverse temporal aliasing effects. Most noticeable of these is a stroboscopic effect that is seen as intermittent movement of fast moving illumination. This effect can be mitigated using non-zero shutter times, effectively...

  10. Temporal trends of brominated flame retardants in coastal waters of Japan and South China: retrospective monitoring study using archived samples from es-Bank, Ehime University, Japan.

    Science.gov (United States)

    Tanabe, Shinsuke

    2008-01-01

    The present paper is a summary of studies conducted at the Center for Marine Environmental Studies, Ehime University, on temporal trends of brominated flame retardants (BFRs) in coastal waters of Japan and South China. Archived marine mammal fat tissues and dated sediment cores were used to evaluate temporal trends of polybrominated diphenyl ethers (PBDEs) and hexabromocyclododecanes (HBCDs) in relation to their usage in the region. The results indicate that environmental concentrations of these BFRs in Japan and South China increased significantly during the last several decades. Temporal trends in the contaminant concentrations were consistent with historical consumption of the corresponding BFRs. PBDE levels in marine mammals and sediments from Japan, after showing peak concentrations in the 1990s, appear to be leveling off in recent years, in accordance with the discontinued usage of Tetra- and Octa-BDEs in Japan from the 1990s. The change in concentration levels was also accompanied by changes in PBDE congener profiles, i.e. shift towards increased proportion of higher brominated BDEs. Furthermore, in recent years HBCD concentrations in marine mammals from Japan appear to exceed those of PBDEs, presumably reflecting increasing usage of HBCDs over PBDEs. In finless porpoises from the South China Sea, PBDE levels were much higher than HBCD concentrations both in the past and recent years, implying consumption of HBCDs was not as high as that of PBDEs in China. In dated sediment cores from Tokyo Bay, concentrations increased exponentially with doubling times of 4.6-7.9 years, 6.1-12 years and 7.1-12 years for BDE-209, SigmaPBDEs and HBCDs, respectively.

  11. TEMPORAL-SPATIAL ANALYSIS OF U.S.- MEXICO BORDER ENVIRONMENTAL FINE AND COARSE PM AIR SAMPLE EXTRACT ACTIVITY IN HUMAN BRONCHIAL EPITHELIAL CELLS

    OpenAIRE

    Lauer, Fredine T.; Mitchell, Leah A.; Bedrick, Edward,; Jacob D. McDonald; Lee, Wen-Yee; Li, Wen-Whai; Olvera, Hector; Amaya, Maria A.; Berwick, Marianne; Gonzales, Melissa; Currey, Robert; Nicholas E Pingitore; Burchiel, Scott W.

    2009-01-01

    Particulate matter less than 10 μm (PM10) has been shown to be associated with aggravation of asthma and respiratory and cardiopulmonary morbidity. There is also great interest in the potential health effects of PM 2.5. Particulate matter (PM) varies in composition both spatially and temporally depending on the source, location and seasonal condition. El Paso County which lies in the Paso del Norte airshed is a unique location to study ambient air pollution due to three major points: the geol...

  12. Validation of the WMS-III Facial Memory subtest with the Graduate Hospital Facial Memory Test in a sample of right and left anterior temporal lobectomy patients.

    Science.gov (United States)

    Chiaravalloti, Nancy D; Tulsky, David S; Glosser, Guila

    2004-06-01

    A number of studies have shown visuospatial memory deficits following anterior temporal lobectomy (ATL) in the right, nondominant temporal lobe (RATL). The current study examines 26 patients with intractable temporal lobe epilepsy who underwent ATL in either the right (RATL, n = 16) or left temporal lobe (LATL, n = 10) on two tests of facial memory abilities, the Wechsler Memory Scale-III (WMS-III) Faces subtest and the Graduate Hospital Facial Memory Test (FMT). Repeated measures ANOVA on the FMT indicated a significant main effect of side of surgery. The RATL group performed significantly below the LATL group overall. Both groups showed a slight, but non-significant, improvement in performance from pre- to postsurgery on the FMT immediate memory, likely due to practice effects. Repeated measures ANOVA on the WMS-III Faces subtest revealed a significant interaction of group (RATL vs. LATL) by delay (immediate vs. delayed). Overall, the LATL group showed an improvement in recognition scores from immediate to delayed memory, whereas the RATL group performed similarly at both immediate and delayed testing. No effects of surgery were noted on the WMS-III. Following initial data analysis the WMS-III Faces I and II data were re-scored using the scoring suggested by Holdnack and Delis (2003), earlier in this issue. Repeated measures ANOVA revealed a trend toward significance in the three-way interaction of group (RATL vs. LATL) x time of testing (pre- versus postop) x delay (immediate vs. delayed memory). On the Faces I subtest, both the RATL and LATL groups showed a decline from preoperative to postoperative testing. However, on Faces II the LATL group showed an increase in performance from preoperative to postoperative testing, while the RALT group showed a decline in performance from preoperative to postoperative testing. While the FMT appears to be superior to the WMS-III Faces subtest in identifying deficits in facial memory prior to and following RATL, the

  13. Modified RNA-seq method for microbial community and diversity analysis using rRNA in different types of environmental samples

    Science.gov (United States)

    Yan, Yong-Wei; Zou, Bin; Zhu, Ting; Hozzein, Wael N.

    2017-01-01

    RNA-seq-based SSU (small subunit) rRNA (ribosomal RNA) analysis has provided a better understanding of potentially active microbial community within environments. However, for RNA-seq library construction, high quantities of purified RNA are typically required. We propose a modified RNA-seq method for SSU rRNA-based microbial community analysis that depends on the direct ligation of a 5’ adaptor to RNA before reverse-transcription. The method requires only a low-input quantity of RNA (10–100 ng) and does not require a DNA removal step. The method was initially tested on three mock communities synthesized with enriched SSU rRNA of archaeal, bacterial and fungal isolates at different ratios, and was subsequently used for environmental samples of high or low biomass. For high-biomass salt-marsh sediments, enriched SSU rRNA and total nucleic acid-derived RNA-seq datasets revealed highly consistent community compositions for all of the SSU rRNA sequences, and as much as 46.4%-59.5% of 16S rRNA sequences were suitable for OTU (operational taxonomic unit)-based community and diversity analyses with complete coverage of V1-V2 regions. OTU-based community structures for the two datasets were also highly consistent with those determined by all of the 16S rRNA reads. For low-biomass samples, total nucleic acid-derived RNA-seq datasets were analyzed, and highly active bacterial taxa were also identified by the OTU-based method, notably including members of the previously underestimated genus Nitrospira and phylum Acidobacteria in tap water, members of the phylum Actinobacteria on a shower curtain, and members of the phylum Cyanobacteria on leaf surfaces. More than half of the bacterial 16S rRNA sequences covered the complete region of primer 8F, and non-coverage rates as high as 38.7% were obtained for phylum-unclassified sequences, providing many opportunities to identify novel bacterial taxa. This modified RNA-seq method will provide a better snapshot of diverse

  14. Utility of Green's Word Memory Test Free Recall Subtest as a Measure of Verbal Memory: Initial Evidence from a Temporal Lobe Epilepsy Clinical Sample.

    Science.gov (United States)

    Soble, Jason R; Osborn, Katie E; Mattingly, Michelle L; Vale, Fernando L; Benbadis, Selim R; Rodgers-Neame, Nancy T; Schoenberg, Mike R

    2016-02-01

    This study investigated the Word Memory Test (WMT) Free Recall (FR) subtest as a conventional memory measure. Nineteen participants with pharmacoresistant left temporal lobe epilepsy (LTLE) and 16 with right temporal lobe epilepsy (RTLE) completed the WMT, Rey Auditory Verbal Learning Test (RAVLT), and Wechsler Memory Scale-Fourth Edition Logical Memory (LM) subtest during presurgical evaluation. LTLE participants performed significantly worse on FR subtest (p < .05, [Formula: see text]) and RAVLT Trial 7 (p < .01, [Formula: see text]), but not on LM subtest. Age was a significant covariate for FR (p < .01, [Formula: see text]). Logistic regression revealed FR plus age and RAVLT age-adjusted T-scores both yielded 77.1% classification accuracy and respective diagnostic odds ratios of 11.36 and 11.84. Receiver operating characteristic curves to classify seizure laterality found that RAVLT and FR were significant (area under the curve [AUC] = 0.82 and 0.74), whereas LM was nonsignificant (AUC = 0.67). Cut scores and positive/negative predictive values were established for improved clinical classification. © The Author 2015. Published by Oxford University Press. All rights reserved. For permissions, please e-mail: journals.permissions@oup.com.

  15. Vitamins A and E in liver, kidney, and whole blood of East Greenland polar bears sampled 1994–2008: reference values and temporal trends

    DEFF Research Database (Denmark)

    Bechshoft, T.; Sonne, C.; Jakobsen, Jette

    2015-01-01

    Vitamins A (retinol) and E (α-tocopherol) are dietary vitamins, essential for, e.g., growth and development, reproduction, and immune function. Persistent organic pollutants (POPs) have been found to be related to vitamin A and E metabolism. However, few investigations have been published...... on this health issue in polar bears (Ursus maritimus). The aim of this study was thus to provide reference values for concentrations of vitamin A in liver, kidney cortex, and whole blood and vitamin E in kidney cortex and whole blood from 166 East Greenland polar bears, as well as to assess the relationship...... between POPs and vitamin concentrations. In addition, vitamin concentrations were analyzed for temporal trends (1994–2008). Results showed vitamin A in liver to be higher in adult bears and the concentrations of vitamin E in kidney and blood to likewise be generally higher in adult bears. In addition, all...

  16. Diversity and spatial and temporal variation of benthic macroinvertebrates with respect to the trophic state of Lake Figueira in the South of Brazil

    Directory of Open Access Journals (Sweden)

    Fernanda Blauth de Lima

    2013-12-01

    Full Text Available Benthic macroinvertebrates are widely used in evaluations of environmental impact and recommended in biomonitoring, but little used in Brazilian lentic environments. One of the main objectives has been to explain and predict the distribution of those species according to environmental characteristics. Thus, the study aims to characterize the predominant fauna of the Lake Figueira sediment and its relationship with organic matter and depth, analyzing seasonal variation in communities and aiming to select bioindicators of the trophic state. Sampling was carried out from January 2008 to January 2009, along the lagoon fetch, with an Ekmann-Birge dredge (area 225 cm². Taxon richness was not significantly related with depth and organic matter content, but those variables were highly correlated (r = 0.962; r² = 0.926 and p < 0.001. The constant oxygenation of the whole water column allows the occurrence of organisms, independent of depth and organic matter content. Chironomidae was the most abundant taxon and from the frequency of occurrence, abundance and clustering analysis it was possible to select Larsia sp. , Goeldichironomus maculatus, Xenochironomus sp. , Aedokritus sp. Cladopelma forcipis, Cryptochironomus brasiliensis, Nilothauma sp.1 and Caladomyia sp. C, Tanytarsus sp. , Tanytarsus rhabdomantis and Chironomus gr. salinarius as potential indicators related with the spatiotemporal faunal distribution of Lake Figueira.

  17. Collection of normative data for spatial and temporal gait parameters in a sample of French children aged between 6 and 12.

    Science.gov (United States)

    Thevenon, A; Gabrielli, F; Lepvrier, J; Faupin, A; Allart, E; Tiffreau, V; Wieczorek, V

    2015-06-01

    Normative data on gait is essential for clinical practice - especially in children whose gait pattern changes over time. Sets of normative gait data in healthy children vary significantly from one country to another. We decided to generate a specific reference database of gait parameters for French children. Three hundred and eighty-two children (228 boys and 154 girls, aged between 6 and 12) were asked to walk as naturally as possible and at a self-selected speed on a GAITRite track. Velocity, step count, cadence, step time, step length, cycle time, stride length, base width, swing time, stance time, single support time and double support time were recorded. Parameters were analyzed by age group, height group and BMI. Velocity, step and stride length increased regularly with advancing age and height. Cadence decreased with height. All temporal parameters (except for double support) differed significantly (Pcycle time and stance time) differed significantly when comparing 7-year-olds and 8-year-olds. Temporal parameters appeared rise in proportion height from 110 cm to 130 cm and then reached a plateau. Overweight was associated with a longer stance time and more double support. The gait pattern in French children aged between 6 and 12 differs from those recorded elsewhere in the world; although gait parameters appear to change in much the same way with age worldwide, our values (even when normalized) are different. Our local database should be of value in French studies of childhood gait disorders. Given that gait patterns do not appear to mature by the age of 12, it would be valuable to study gait patterns in a population of teenagers. Copyright © 2015 Elsevier Masson SAS. All rights reserved.

  18. Project Temporalities

    DEFF Research Database (Denmark)

    Tryggestad, Kjell; Justesen, Lise; Mouritsen, Jan

    2013-01-01

    Purpose – The purpose of this paper is to explore how animals can become stakeholders in interaction with project management technologies and what happens with project temporalities when new and surprising stakeholders become part of a project and a recognized matter of concern to be taken...... into account. Design/methodology/approach – The paper is based on a qualitative case study of a project in the building industry. The authors use actor-network theory (ANT) to analyze the emergence of animal stakeholders, stakes and temporalities. Findings – The study shows how project temporalities can...... multiply in interaction with project management technologies and how conventional linear conceptions of project time may be contested with the emergence of new non-human stakeholders and temporalities. Research limitations/implications – The study draws on ANT to show how animals can become stakeholders...

  19. Tank 241-BX-104 fourth temporal study: Headspace gas and vapor characterization results from samples collected on April 7, 1997. Tank vapor characterization project

    Energy Technology Data Exchange (ETDEWEB)

    Mitroshkov, A.V.; Hayes, J.C.; Evans, J.C. [and others

    1997-09-01

    This report presents the results from analyses of samples taken from the headspace of waste storage tank 241-BX-04 (Tank BX-104) at the Hanford Site in Washington State. Tank headspace samples collected by SGN Eurisys Service Corporation (SESC) were analyzed by Pacific Northwest National Laboratory (PNNL) to determine headspace concentrations of selected non-radioactive analytes. Analyses were performed by the Vapor Analytical Laboratory (VAL) at PNNL. Vapor concentrations from sorbent trap samples are based on measured sample volumes provided by SESC. Ammonia was determined to be above the immediate notification limit specified by the sampling and analysis plan (SAP). Hydrogen was the principal flammable constituent of the Tank BX-104 headspace, determined to be present at approximately 0.208% of its lower flammability limit (LFL). Total headspace flammability was estimated to be <0.536% of the LFL. Average measured concentrations of targeted gases, inorganic vapors, and selected organic vapors are provided in Table S.1. A summary of experimental methods, including sampling methodology, analytical procedures, and quality assurance and control methods are presented in Section 2.0. Detailed descriptions of the analytical results are provided in Section 3.0.

  20. Tank 241-BY-108 fourth temporal study: Headspace gas and vapor characterization results from samples collected on November 14, 1997. Tank vapor characterization project

    Energy Technology Data Exchange (ETDEWEB)

    Evans, J.C.; Pool, K.H.; Olsen, K.B. [and others

    1997-07-01

    This report presents the results from analyses of samples taken from the headspace of waste storage tank 241-BY-108 (Tank BY-108) at the Hanford Site in Washington State. Tank headspace samples collected by SGN Eurisys Service Corporation (SESC) were analyzed by Pacific Northwest National Laboratory (PNNL) to determine headspace concentrations of selected nonradioactive analytes. Analyses were performed by the Vapor Analytical Laboratory (VAL) at PNNL. Vapor concentrations from sorbent trap samples are based on measured sample volumes provided by SESC. Ammonia was determined to be above the immediate notification limit of 150 ppm specified by the sampling and analysis plan (SAP). Hydrogen was the principal flammable constituent of the Tank BY-108 headspace, determined to be present at approximately 1.390% of its lower flammability limit (LFL). Total headspace flammability was estimated to be <2.830% of the LFL. Average measured concentrations of targeted gases, inorganic vapors, and selected organic vapors are provided in Table S.1. A summary of experimental methods, including sampling methodology, analytical procedures, and quality assurance and control methods are presented in Section 2.0. Detailed descriptions of the analytical results are provided in Section 3.0.

  1. Associations of hair cortisol concentration with self-reported measures of stress and mental health-related factors in a pooled database of diverse community samples.

    Science.gov (United States)

    Wells, Samantha; Tremblay, Paul F; Flynn, Andrea; Russell, Evan; Kennedy, James; Rehm, Jürgen; Van Uum, Stan; Koren, Gideon; Graham, Kathryn

    2014-07-01

    A pooled database from diverse community samples was used to examine the associations of hair cortisol concentration (HCC) with self-reported stress and stress-linked mental health measures, including depression, anxiety, alcohol and drug use, disability and experiences with aggression. As part of innovative research using a mobile laboratory to study community mental health, data were pooled from five sub-studies: a random sample of the general population (n = 70), people who had received treatment for a mental health and/or substance use problem (n = 78), family members of people treated for mental health and/or substance use problems (n = 49), community volunteers who sometimes felt sad or blue or thought they drank too much (n = 83) and young adults in intimate partner relationships (n = 44). All participants completed a computerized questionnaire including standard measures of perceived stress, chronic stress, depression, anxiety, hazardous drinking, tobacco use, prescription drug use, illicit drug use, disability and intimate partner aggression. HCC was significantly associated with use of antidepressants, hazardous drinking, smoking and disability after adjusting for sub-study and potential confounders (sex, body-mass index, use of glucocorticoids and hair dyed). In addition, preliminary analyses suggest a significant curvilinear relationship between HCC and perceived stress; specifically, HCC increased with higher perceived stress but decreased at the highest level of stress. Overall, HCC was associated with mental health-related variables mainly reflecting substance use or experiencing a disability. The relationship between HCC and self-reported stress is unclear and needs further research.

  2. Effects of education and word reading on cognitive scores in a community-based sample of Spanish elders with diverse socioeconomic status.

    Science.gov (United States)

    Contador, Israel; Bermejo-Pareja, Félix; Del Ser, Teodoro; Benito-León, Julián

    2015-01-01

    The influence of education and oral word-reading ability on cognitive performance was examined in a sample of 1510 nondemented elders differing in socioeconomic status (SES) from three Spanish communities. All individuals were enrolled in the Neurological Disorders in Central Spain, a population-based epidemiological study in central Spain. They completed a detailed demographic survey and a short standardized neuropsychological battery assessing psychomotor speed, attention, language, and memory. The Word Accentuation Test (WAT) was used as measure of oral reading ability. The influence of education and oral reading on cognitive performance was determined by multiple linear regression models, first controlling for demographics (age and sex), and subsequently for the WAT score and education. The contribution of socioeconomic conditions was addressed by stratifying the sample into groups of high and low SES. The WAT showed a significant independent effect on cognitive scores, generally greater than that predicted by demographics. The higher predictive power of oral word reading on cognitive scores compared to education was consistent across the three communities. Although the variance explained by WAT was very similar in areas with diverse SES (low vs. high), WAT scores accounted for slightly more variance in naming and memory tasks in low SES areas. In contrast, the variance explained by WAT was higher for verbal fluency and the Trail-Making Test in areas with high SES. Oral word-reading ability predicts cognitive performance better than years of education across individuals with different SES. The influence of WAT may be modulated by SES and cognitive task properties.

  3. Hungry to learn: the prevalence and effects of food insecurity on health behaviors and outcomes over time among a diverse sample of university freshmen.

    Science.gov (United States)

    Bruening, Meg; van Woerden, Irene; Todd, Michael; Laska, Melissa N

    2018-01-18

    To examine longitudinal associations between food insecurity (FI) and health behaviors/outcomes among a diverse sample of university freshmen. Freshman students (n = 1138; 65% female; 49% non-white) participating in the Social impact of Physical Activity and nutRition in College study completed surveys on health behaviors and had height/weight measured up to 4 times (T1-T4) in Arizona during 2015-2016. Structural equation models were estimated to determine if, after adjusting for covariates, FI predicted concurrent behaviors/outcomes and subsequent behaviors/outcomes. Analyses reported here were conducted in 2017. The prevalence of FI was significantly higher at the end of each semester (35% and 36%, respectively) than at the start of the year (28%). Longitudinally, FI was not related to any health behaviors/outcomes at future time points. However, FI was significantly and inversely associated with concurrent breakfast consumption on most days of the week (OR = 0.67, 99% CI = 0.46, 0.99), daily evening meal consumption (OR = 0.55, 99% CI = 0.36, 0.86) healthy eating habits on campus (OR = 0.68, 99% CI = 0.46, 1.00), healthy physical activity habits on campus (OR = 0.66, 99% CI = 0.44, 1.00), and positively related to the likelihood of experiencing stress (OR = 1.69, 99% CI = 1.16, 2.46) and depressed mood (OR = 1.98, 99% CI = 1.34, 2.91). Compared with US prevalence rates, the sample FI prevalence was high. FI was related to poorer eating patterns, physical activity behaviors, and mental health, even after adjusting for prior levels of behavior.

  4. Active travel to non-school destinations but not to school is associated with higher physical activity levels in an ethnically diverse sample of inner-city schoolchildren

    Directory of Open Access Journals (Sweden)

    Lee Smith

    2017-01-01

    Full Text Available Abstract Background This study investigated the association of travel mode to school and non-school destinations with objectively assessed health markers and physical activity in an ethnically diverse sample of inner-city UK schoolchildren. Methods We used data from the Camden Active Spaces project (n = 450 children aged 9.1 yrs to examine associations of school travel mode and frequency of active travel to non-school destinations with daily and out-of-school physical activity, sedentary time and health markers; whilst controlling for appropriate covariates including objectively measured route length. Results High frequency of active travel to non-school destinations was associated with more time in moderate-to-vigorous physical activity during out-of-school periods (3.8, 0.8–6.9 min/d and greater out-of-school (738, 197.4–1278.6 steps/d and daily step counts (588.1, 51.6–1124.6 steps/d. No associations were observed between school travel mode, health outcomes and activity levels. Conclusion High frequency of active travel to non-school destinations is associated with higher levels of physical activity. These findings highlight the contribution of travel to non-school destinations to overall physical activity levels in schoolchildren.

  5. Breast Density Awareness and Knowledge, and Intentions for Breast Cancer Screening in a Diverse Sample of Women Age Eligible for Mammography.

    Science.gov (United States)

    Santiago-Rivas, Marimer; Benjamin, Shayna; Andrews, Janna Z; Jandorf, Lina

    2017-08-14

    The objectives of this study were to assess breast density knowledge and breast density awareness, and to identify information associated with intention to complete routine and supplemental screening for breast cancer in a diverse sample of women age eligible for mammography. We quantitatively (self-report) assessed breast density awareness and knowledge (N = 264) in black (47.7%), Latina (35.2%), and white (17%) women recruited online and in the community. Most participants reported having heard about breast density (69.2%); less than one third knew their own breast density status (30.4%). Knowing their own breast density, believing that women should be notified of their breast density in their mammogram report, and feeling informed if being provided this information are associated with likelihood of completing mammogram. Intending mammogram completion and knowledge regarding the impact of breast density on mammogram accuracy are associated with likelihood of completing supplemental ultrasound tests of the breast. These findings help inform practitioners and policy makers about information and communication factors that influence breast cancer screening concerns and decisions. Knowing this information should prepare practitioners to better identify women who may have not been exposed to breast density messages.

  6. Quantitative measurement of odor detection thresholds using an air dilution olfactometer, and association with genetic variants in a sample of diverse ancestry

    Directory of Open Access Journals (Sweden)

    Gillian R. Cook

    2014-11-01

    Full Text Available Genetic association studies require a quantitative and reliable method for odor threshold assessment in order to examine the contribution of genetic variants to complex olfactory phenotypes. Our main goal was to assess the feasibility of a portable Scentroid air dilution olfactometer for use in such studies. Using the Scentroid SM110C and the SK5 n-butanol Sensitivity Kit (IDES Canada Inc., n-butanol odor thresholds were determined for 182 individuals of diverse ancestry (mean age: 20.4 ± 2.5 years; n = 128 female; n = 54 male. Threshold scores from repeat participants were used to calculate a test–retest reliability coefficient, which was statistically significant (r = 0.754, p < 0.001, n = 29, indicating that the Scentroid provides reliable estimates of odor thresholds. In addition, we performed a preliminary genetic analysis evaluating the potential association of n-butanol odor thresholds to six single-nucleotide polymorphisms (SNPs putatively involved in general olfactory sensitivity (GOS. The results of multiple linear regression analysis revealed no significant association between the SNPs tested and threshold scores. However, our sample size was relatively small, and our study was only powered to identify genetic markers with strong effects on olfactory sensitivity. Overall, we find that the Scentroid provides reliable quantitative measures of odor detection threshold and is well suited for genetic studies of olfactory sensitivity.

  7. Species Diversity and Temporal Variation of the Orchid-Bee Fauna (Hymenoptera, Apidae) in a Conservation Gradient of a Rocky Field Area in the Espinhaço Range, State of Minas Gerais, Southeastern Brazil.

    Science.gov (United States)

    Viotti, M A; Moura, F R; Lourenço, A P

    2013-12-01

    This study investigated the orchid-bee community in a conservation gradient of the high-altitude rocky fields in the state of Minas Gerais, Brazil. Sampling was performed at two sites with different anthropic influences: a disturbed area (DA), with exotic plant species, and a preserved area (PA). From September 2009 through February 2011, males of euglossine bees were sampled using aromatic bait-traps. We collected a total of 819 specimens belonging to 11 species and three genera: Euglossa Latreille, Eulaema Lepeletier, and Eufriesea Cockerell. Despite the proximity of DA and PA (about 1.2 km), differences in orchid-bee abundance and richness were observed. Higher abundance was observed in the PA (n = 485) compared with the DA (n = 334). Eight species were common to both sites, and only the DA showed exclusive species. The DA showed higher diversity and higher estimated species richness. Euglossa leucotricha Rebêlo & Moure was the most abundant species at both sites followed by Euglossa melanotricha Moure. Higher abundance and richness were found in the warm rainy season. This study contributes to the knowledge of the orchid-bee fauna in the rocky fields and suggests that the greater resource availability in the DA was responsible for the higher orchid-bee diversity.

  8. Human milk as a vector and an indicator of exposure to PCBs and PBDEs: temporal trend of samples collected in Rome.

    Science.gov (United States)

    Alivernini, S; Battistelli, C L; Turrio-Baldassarri, L

    2011-07-01

    Thirty-seven polychlorobiphenyl (PCB) congeners and seven polybromodiphenylether (PBDE) congeners were measured in human milk samples collected in Rome between 2005 and 2007. The comparison of results with two previous studies performed in Rome in 1984 and in 2000-2001 indicates a 64% decrease of PCB levels, still in progress; profile differences with time were also evident as lighter congeners are less relevant now; data are in good agreement with recent European studies. PBDE contamination profiles were different in individual samples and a similar variability was observed in data from different countries, suggesting different exposure pathways and profiles.

  9. Honey bee foraging ecology: Season but not landscape diversity shapes the amount and diversity of collected pollen.

    Science.gov (United States)

    Danner, Nadja; Keller, Alexander; Härtel, Stephan; Steffan-Dewenter, Ingolf

    2017-01-01

    The availability of pollen in agricultural landscapes is essential for the successful growth and reproduction of honey bee colonies (Apis mellifera L.). The quantity and diversity of collected pollen can influence the growth and health of honey bee colonies, but little is known about the influence of landscape structure on pollen diet. In a field experiment, we rotated 16 honey bee colonies across 16 agricultural landscapes, used traps to collect samples of collected pollen and observed intra-colonial dance communication to gain information about foraging distances. DNA metabarcoding was applied to analyze mixed pollen samples. Neither the amount of collected pollen nor pollen diversity was related to landscape diversity. However, we found a strong seasonal variation in the amount and diversity of collected pollen in all sites independent of landscape diversity. The observed increase in foraging distances with decreasing landscape diversity suggests that honey bees compensated for lower landscape diversity by increasing their pollen foraging range in order to maintain pollen amount and diversity. Our results underscore the importance of a diverse pollen diet for honey bee colonies. Agri-environmental schemes aiming to support pollinators should focus on possible spatial and temporal gaps in pollen availability and diversity in agricultural landscapes.

  10. Honey bee foraging ecology: Season but not landscape diversity shapes the amount and diversity of collected pollen.

    Directory of Open Access Journals (Sweden)

    Nadja Danner

    Full Text Available The availability of pollen in agricultural landscapes is essential for the successful growth and reproduction of honey bee colonies (Apis mellifera L.. The quantity and diversity of collected pollen can influence the growth and health of honey bee colonies, but little is known about the influence of landscape structure on pollen diet. In a field experiment, we rotated 16 honey bee colonies across 16 agricultural landscapes, used traps to collect samples of collected pollen and observed intra-colonial dance communication to gain information about foraging distances. DNA metabarcoding was applied to analyze mixed pollen samples. Neither the amount of collected pollen nor pollen diversity was related to landscape diversity. However, we found a strong seasonal variation in the amount and diversity of collected pollen in all sites independent of landscape diversity. The observed increase in foraging distances with decreasing landscape diversity suggests that honey bees compensated for lower landscape diversity by increasing their pollen foraging range in order to maintain pollen amount and diversity. Our results underscore the importance of a diverse pollen diet for honey bee colonies. Agri-environmental schemes aiming to support pollinators should focus on possible spatial and temporal gaps in pollen availability and diversity in agricultural landscapes.

  11. Extensive sampling of polar bears (Ursus maritimus) in the Northwest Passage (Canadian Arctic Archipelago) reveals population differentiation across multiple spatial and temporal scales

    OpenAIRE

    Campagna, Leonardo; Van Coeverden de Groot, Peter J.; Saunders, Brenda L; Atkinson, Stephen N; Weber, Diana S.; Dyck, Markus G; Boag, Peter T; Lougheed, Stephen C.

    2013-01-01

    As global warming accelerates the melting of Arctic sea ice, polar bears (Ursus maritimus) must adapt to a rapidly changing landscape. This process will necessarily alter the species distribution together with population dynamics and structure. Detailed knowledge of these changes is crucial to delineating conservation priorities. Here, we sampled 361 polar bears from across the center of the Canadian Arctic Archipelago spanning the Gulf of Boothia (GB) and M'Clintock Channel (MC). We use DNA ...

  12. Chemical Diversity and Antimicrobial Activity of Volatile Compounds from Zanthoxylum zanthoxyloides Lam. according to Compound Classes, Plant Organs and Senegalese Sample Locations.

    Science.gov (United States)

    Tine, Yoro; Diop, Abdoulaye; Diatta, William; Desjobert, Jean-Marie; Boye, Cheikh Saad Bouh; Costa, Jean; Wélé, Alassane; Paolini, Julien

    2017-01-01

    The chemical diversity of Zanthoxylum zanthoxyloides growing wild in Senegal was studied according to volatile compound classes, plant organs and sample locations. The composition of fruit essential oil was investigated using an original targeted approach based on the combination of gas chromatography (GC) and liquid chromatography (LC) both coupled with mass spectrometry (MS). The volatile composition of Z. zanthoxyloides fruits exhibited relative high amounts of hydrocarbon monoterpenes (24.3 - 55.8%) and non-terpenic oxygenated compounds (34.5 - 63.1%). The main components were (E)-β-ocimene (12.1 - 39%), octyl acetate (11.6 - 21.8%) and decanol (9.7 - 15.4%). The GC and GC/MS profiling of fruit essential oils showed a chemical variability according to geographical locations of plant material. The LC/MS/MS analysis of fruit oils allowed the detection of seven coumarins in trace content. The chemical composition of fruit essential oils was compared with volatile fractions of leaves and barks (root and trunk) from the same plant station. Hexadecanoic acid, germacrene D and decanal were identified as the major constituents of leaves whereas the barks (root and trunk) were dominated by pellitorine (85.8% and 57%, respectively), an atypic linear compound with amide group. The fruit essential oil exhibited interesting antimicrobial activities against Staphylococcus aureus and Candida albicans, particularly the alcohol fraction of the oil. © 2017 Wiley-VHCA AG, Zurich, Switzerland.

  13. Evidence Against a Link Between Hyperemesis Gravidarum and Personality Characteristics from an Ethnically Diverse Sample of Pregnant Women: A Pilot Study

    Science.gov (United States)

    D'Orazio, Lina M.; Korst, Lisa M.; Romero, Roberto; Goodwin, Thomas M.

    2011-01-01

    Abstract Background Hyperemesis gravidarum (HG), a pregnancy-related condition marked by extreme nausea and vomiting, has been considered a psychosomatic illness associated with long-standing personality characteristics (e.g., hysteria). In this pilot study, we examined personality, somatic, and psychological variables with ethnically diverse samples of women with HG and women with typical levels of nausea and vomiting of pregnancy (NVP). Methods Personality (Minnesota Multiphasic Personality Index-2 [MMPI-2] and MMPI-2RF), somatic (MMPI-2RF), and psychological (Beck Depression Inventory-II [BDI-II] and NVP-related quality of life) variables collected during the first trimester of pregnancy were compared between 15 women with HG and 15 women with normal levels of NVP matched for age, education, marital status, insurance source, and race/ethnicity. A secondary analysis was performed comparing these variables among a group of 9 asymptomatic pregnant women to the HG and NVP groups. Results No significant differences were found between the HG and NVP groups on any personality, somatic, or psychological variables. Both groups had clinically significant elevations on the MMPI-2 hypochondriasis scale, which incorporates somatic symptoms. The NVP group had a clinically significant elevation on the MMPI-2RF gastrointestinal complaints scale. Both groups had significantly higher means on the MMPI-2 and MMPI-2RF scales than the asymptomatic group. Predominantly Spanish speakers appeared particularly vulnerable to psychological distress associated with somatic complaints. Conclusions The results of this pilot study suggest that research with HG patients is feasible and that psychological distress expressed by women with HG and NVP may reflect reactions to somatic symptoms. No evidence was found to support an association between HG and personality characteristics. Recommendations for future research are provided, such as examining the potential benefits of translation services

  14. Electronic Nicotine Delivery Systems (E-cigarette/Vape) use and Co-Occurring Health-Risk Behaviors Among an Ethnically Diverse Sample of Young Adults.

    Science.gov (United States)

    Lanza, H Isabella; Teeter, Heather

    2018-01-02

    Prevalence rates of electronic nicotine delivery systems (ENDS; i.e., e-cigarette/vape) use has grown exponentially in the past few years. College students present a particularly vulnerable group for ENDS use. The current study sought to expand the literature by examining the context in which college students use ENDS, co-occurring health risks beyond traditional tobacco use, and the role of ethnicity in ENDS use. Health-risk behavior survey data was collected from 452 undergraduates attending a large, public urban university during the 2015-2016 academic year. Ever ENDS users vs. non-ENDS users were compared across potential demographic, health-risk, and other health-related correlates. Almost 40% of participants reported lifetime use of ENDS. No ethnic or sex differences were found. The primary source for obtaining ENDS was friends and ENDS were most often used with friends vs. alone or with others not considered friends. Participants engaging in risky alcohol use and cigarette smoking had a higher likelihood of endorsing ENDS use. Conclusions/Importance: The current study indicated that a large proportion of college students have tried ENDS irrespective of ethnicity or sex. An increasingly normative social context may inform the popularity of ENDS use across ethnicity and sex, but additional research using ethnically diverse samples is warranted. Risky alcohol use appears to be a significant correlate of ENDS use, even after accounting for the robust relationship between ENDS use and cigarette smoking. The robust relationship between alcohol and tobacco use likely extends to ENDS use.

  15. Empirical validation of a short version of the Adolescent Sleep-Wake Scale using a sample of ethnically diverse adolescents from an economically disadvantage community.

    Science.gov (United States)

    Sufrinko, Alicia M; Valrie, Cecelia R; Lanzo, Lauren; Bond, Kayzandra E; Trout, Krystal L; Ladd, Rebecca E; Everhart, D Erik

    2015-10-01

    There is a need for brief, psychometrically sound instruments to assess adolescent sleep, particularly for ethnic minority and economically disadvantaged adolescents. A 10-item short version of the Adolescent Sleep-Wake Scale was recently proposed based upon exploratory factor analysis with primarily Caucasian healthy adolescents from middle- to high-income families. The aim of this study was to expand the utility of the short version of the Adolescent Sleep-Wake Scale by investigating the empirical and construct validity of the measure on an ethnically diverse sample of adolescents from an economically disadvantaged community. Participants included 467 adolescents (40% African American, 35.5% Caucasian, 16.5% Latino, and 7.9% multiethnic), aged 12-18 years (mean = 15.27 years, SD = 1.96 years), who completed the Adolescent Sleep-Wake Scale. A confirmatory factor analysis (CFA) was conducted with Mplus 7 based on the three-factor solution proposed by Essner et al. (2014). CFA indicated that the three-factor structure was a good fit for the data (χ(2) (29) = 52.053, p = 0.005, root mean square error of approximation (RMSEA) = 0.04, CFI = 0.98, TLI = 0.96, standardized root mean residuals (SRMR) = 0.03), and factor loadings for each item were >0.40. Cronbach's alphas by ethnicity indicated that the scale has acceptable reliability (0.70 ≤ α ≤ 0.90) for African American, Caucasian, and multiethnic adolescents, but not for Latino adolescents. Our results support the use of the Adolescent Sleep-Wake Scale short form for the majority of ethnic minority and economically disadvantaged adolescents. Copyright © 2015 Elsevier B.V. All rights reserved.

  16. Adult Cigarette Smokers at Highest Risk for Concurrent Alternative Tobacco Product Use Among a Racially/Ethnically and Socioeconomically Diverse Sample.

    Science.gov (United States)

    Nollen, Nicole L; Ahluwalia, Jasjit S; Lei, Yang; Yu, Qing; Scheuermann, Taneisha S; Mayo, Matthew S

    2016-04-01

    Rates of alternative tobacco product use (ATPs; eg, cigars, cigarillos, pipes) among cigarette smokers are on the rise but little is known about the subgroups at highest risk. This study explored interactions between demographic, tobacco, and psychosocial factors to identify cigarette smokers at highest risk for ATP use from a racially/ethnically and socioeconomically diverse sample of adult smokers across the full smoking spectrum (nondaily, daily light, daily heavy). Two-thousand three-hundred seventy-six adult cigarette smokers participated in an online cross-sectional survey. Quotas ensured equal recruitment of African American (AA), white (W), Hispanic/Latino (H) as well as daily and nondaily smokers. Classification and Regression Tree modeling was used to identify subgroups of cigarette smokers at highest risk for ATP use. 51.3% were Cig+ATP smokers. Alcohol for men and age, race/ethnicity, and discrimination for women increased the probability of ATP use. Strikingly, 73.5% of men screening positive for moderate to heavy drinking and 62.2% of younger (≤45 years) African American/Hispanic/Latino women who experienced regular discrimination were Cig+ATP smokers. Screening for concurrent ATP use is necessary for the continued success of tobacco cessation efforts especially among male alcohol users and racial/ethnic minority women who are at greatest risk for ATP use. © The Author 2015. Published by Oxford University Press on behalf of the Society for Research on Nicotine and Tobacco. All rights reserved. For permissions, please e-mail: journals.permissions@oup.com.

  17. Towards a better understanding of the relationship between executive control and theory of mind: an intra-cultural comparison of three diverse samples.

    Science.gov (United States)

    Shahaeian, Ameneh; Henry, Julie D; Razmjoee, Maryam; Teymoori, Ali; Wang, Cen

    2015-09-01

    Previous research has consistently indicated that theory of mind (ToM) is associated with executive control in the preschool years. However, interpretation of this literature is limited by the fact that most studies have focused exclusively on urbanized Western cultural samples. Consequently, it is not clear whether the association between ToM and executive control reflects the specific features of this particular cohort or instead reflects a universal pattern. The present study provides the first empirical assessment of these two constructs in three diverse groups of Iranian children. Participants were 142 preschoolers (4-5 years old) from high-socioeconomic status (SES) urban (n = 33), low-SES urban (n = 37) and rural villages (n = 77). The results show that there is a robust association between ToM and executive control in all three groups, and that executive control contributes significant unique variance to ToM understanding, even after controlling for a range of variables that have been proposed as potential confounders of this relationship. However, although the three groups were equated in ToM, significant differences in executive control were evident. Moreover, cluster analysis identified three distinct clusters that were relatively homogeneous with respect to executive control and SES. One of these clusters was characterized by both low SES and low executive functioning, and showed little evidence of ToM understanding. Taken together, these findings provide possibly the clearest evidence to date that the association between ToM and executive control is not dependent on children's previous experiences on the tasks, or their family and cultural background. © 2014 John Wiley & Sons Ltd.

  18. Relationships between data from Rock-Eval pyrolysis and proximate, ultimate, petrographic, and physical analyses of 142 diverse U.S. coal samples

    Science.gov (United States)

    Bostick, N.H.; Daws, T.A.

    1994-01-01

    Basic research on coal and oil shale led to automated pyrolysis analysis of petroleum source rocks; most widely used is the Rock-Eval equipment. In order to interpret Rock-Eval analyses in relation to traditional coal data, we analyzed 142 commercial coals with diverse rank, age, maceral and sulfur contents, for most regions of the United States. We compared the Rock-Eval data with traditional industrial coal data, including volatile matter, calorific value, hydrogen and oxygen content, free swelling index, and vitrinite reflectance. We found: (1) there is a close relationship between Tmax and vitrinite reflectance in the ranges 420-590??C Tmax and 0.4-3%Romax of most coals. (2) A close relationship between Tmax and volatile matter (%VM) extends through the entire sample range, including low-rank samples with 35-70% VM, a range where %VM is not considered to be a useful rank parameter. (3) TOC of medium- and high-rank coals is seriously under-measured by Rock-Eval; TOC of low-rank coals (less than 0.8%Romax) is close to "dry basis" carbon from ultimate analysis. (4) The direct relationships between oxygen index (OI) and %O and between hydrogen index (HI) and %H are clear, though only broadly defined. However, there is virtually no band of concentrated data points on the HI versus OI pseudo-Van Krevelen diagram comparable to the "development line" on the H/C versus O/C diagram. (5) There are systematic relationships between Rock-Eval and industrial coal parameters such as calorific value and FSI, but much standardization would be needed before Rock-Eval could find a place in the coal industry. Tests with blends of coal and quartz sand and with various loads of coal alone showed that the amount of organic matter in the Rock-Eval load greatly influences results. Total load in the crucible, if largely inert, plays a small role, however. Increasing absolute or relative coal content causes under-evaluation of Rock-Eval TOC and over-rating of hydrogen. Blends of several

  19. Pyrosequencing of 16S rRNA genes in fecal samples reveals high diversity of hindgut microflora in horses and potential links to chronic laminitis

    Directory of Open Access Journals (Sweden)

    Steelman Samantha M

    2012-11-01

    Full Text Available Abstract Background The nutrition and health of horses is closely tied to their gastrointestinal microflora. Gut bacteria break down plant structural carbohydrates and produce volatile fatty acids, which are a major source of energy for horses. Bacterial communities are also essential for maintaining gut homeostasis and have been hypothesized to contribute to various diseases including laminitis. We performed pyrosequencing of 16S rRNA bacterial genes isolated from fecal material to characterize hindgut bacterial communities in healthy horses and those with chronic laminitis. Results Fecal samples were collected from 10 normal horses and 8 horses with chronic laminitis. Genomic DNA was extracted and the V4-V5 segment of the 16S rRNA gene was PCR amplified and sequenced on the 454 platform generating a mean of 2,425 reads per sample after quality trimming. The bacterial communities were dominated by Firmicutes (69.21% control, 56.72% laminitis and Verrucomicrobia (18.13% control, 27.63% laminitis, followed by Bacteroidetes, Proteobacteria, and Spirochaetes. We observed more OTUs per individual in the laminitis group than the control group (419.6 and 355.2, respectively, P = 0.019 along with a difference in the abundance of two unassigned Clostridiales genera (P = 0.03 and P = 0.01. The most abundant bacteria were Streptococcus spp., Clostridium spp., and Treponema spp.; along with unassigned genera from Subdivision 5 of Verrucomicrobia, Ruminococcaceae, and Clostridiaceae, which together constituted ~ 80% of all OTUs. There was a high level of individual variation across all taxonomic ranks. Conclusions Our exploration of the equine fecal microflora revealed higher bacterial diversity in horses with chronic laminitis and identification of two Clostridiales genera that differed in abundance from control horses. There was large individual variation in bacterial communities that was not explained in our study. The core hindgut microflora was

  20. Evaluación espacial y temporal de la diversidad de los ascomicetes dulceacuícolas del canal turístico Santa Cruz, Xochimilco, México Spatial and temporal evaluation of the diversity of freshwater Ascomycetes from the touristic channel Santa Cruz, Xochimilco, Mexico

    Directory of Open Access Journals (Sweden)

    Allan Chavarria

    2010-12-01

    Full Text Available Se investigó la diversidad de los ascomicetes del canal Santa Cruz, considerado el de mayor importancia turística en Xochimilco, Distrito Federal. En 2007 se realizaron 2 muestreos en las épocas de menor y mayor precipitación. En el márgen del canal se establecieron 4 estaciones de muestreo con diferente grado de urbanización y en cada una se sumergieron bloques de madera de Virola sp., Tabebuia donnell-smithii, Bucida buceras, Pinus sp., Cupressus lindlei y Abies religiosa durante 8 semanas. Se midió la temperatura, el pH, el oxígeno disuelto, la materia orgánica y el fósforo, y se determinó el número más probable de bacterias coliformes del agua. Para evaluar los datos, se aplicaron el índice de diversidad de Shannon y el índice de similitud de Sørensen. La mayor diversidad de ascomicetes (H' = 1.152 se registró en la tercera estación, ubicada en la zona de viveros con flores y la menor diversidad (H' = 0.976 se obtuvo en la primera estación, localizada frente al embarcadero Santa Cruz, ambos valores de diversidad coincidieron con el grado de urbanización y con los datos fisicoquímicos y bacteriológicos. La temporada de lluvias presentó la diversidad más baja debido probablemente al efecto de la precipitación en este ambiente acuático.The diversity of freshwater Ascomycetes was determined in the touristic channel Santa Cruz, Xochimilco, Mexico. Two surveys were conducted in 2007 during the dry and wet season. Four sampling sites were selected in the channel margin, based on the level of urbanization. At each sampling site, wood panels of Tabebuia donnell-smithii, Bucida buceras, Pinus sp., Cupressus lindlei and Abies religiosa were submerged during 8 weeks. Water temperature, dissolved oxygen, organic matter, phosphorus and most probable number of coliform bacteria were determined. Results were evaluated using the diversity index of Shannon and the index of similarity of Sørensen. The highest Ascomycete diversity

  1. Freezing skeletal muscle tissue does not affect its decomposition in soil: evidence from temporal changes in tissue mass, microbial activity and soil chemistry based on excised samples.

    Science.gov (United States)

    Stokes, Kathryn L; Forbes, Shari L; Tibbett, Mark

    2009-01-10

    The study of decaying organisms and death assemblages is referred to as forensic taphonomy, or more simply the study of graves. This field is dominated by the fields of entomology, anthropology and archaeology. Forensic taphonomy also includes the study of the ecology and chemistry of the burial environment. Studies in forensic taphonomy often require the use of analogues for human cadavers or their component parts. These might include animal cadavers or skeletal muscle tissue. However, sufficient supplies of cadavers or analogues may require periodic freezing of test material prior to experimental inhumation in the soil. This study was carried out to ascertain the effect of freezing on skeletal muscle tissue prior to inhumation and decomposition in a soil environment under controlled laboratory conditions. Changes in soil chemistry were also measured. In order to test the impact of freezing, skeletal muscle tissue (Sus scrofa) was frozen (-20 degrees C) or refrigerated (4 degrees C). Portions of skeletal muscle tissue (approximately 1.5 g) were interred in microcosms (72 mm diameter x 120 mm height) containing sieved (2mm) soil (sand) adjusted to 50% water holding capacity. The experiment had three treatments: control with no skeletal muscle tissue, microcosms containing frozen skeletal muscle tissue and those containing refrigerated tissue. The microcosms were destructively harvested at sequential periods of 2, 4, 6, 8, 12, 16, 23, 30 and 37 days after interment of skeletal muscle tissue. These harvests were replicated 6 times for each treatment. Microbial activity (carbon dioxide respiration) was monitored throughout the experiment. At harvest the skeletal muscle tissue was removed and the detritosphere soil was sampled for chemical analysis. Freezing was found to have no significant impact on decomposition or soil chemistry compared to unfrozen samples in the current study using skeletal muscle tissue. However, the interment of skeletal muscle tissue had a

  2. Extensive sampling of polar bears (Ursus maritimus) in the Northwest Passage (Canadian Arctic Archipelago) reveals population differentiation across multiple spatial and temporal scales

    Science.gov (United States)

    Campagna, Leonardo; Van Coeverden de Groot, Peter J; Saunders, Brenda L; Atkinson, Stephen N; Weber, Diana S; Dyck, Markus G; Boag, Peter T; Lougheed, Stephen C

    2013-01-01

    As global warming accelerates the melting of Arctic sea ice, polar bears (Ursus maritimus) must adapt to a rapidly changing landscape. This process will necessarily alter the species distribution together with population dynamics and structure. Detailed knowledge of these changes is crucial to delineating conservation priorities. Here, we sampled 361 polar bears from across the center of the Canadian Arctic Archipelago spanning the Gulf of Boothia (GB) and M'Clintock Channel (MC). We use DNA microsatellites and mitochondrial control region sequences to quantify genetic differentiation, estimate gene flow, and infer population history. Two populations, roughly coincident with GB and MC, are significantly differentiated at both nuclear (FST = 0.01) and mitochondrial (ΦST = 0.47; FST = 0.29) loci, allowing Bayesian clustering analyses to assign individuals to either group. Our data imply that the causes of the mitochondrial and nuclear genetic patterns differ. Analysis of mtDNA reveals the matrilineal structure dates at least to the Holocene, and is common to individuals throughout the species’ range. These mtDNA differences probably reflect both genetic drift and historical colonization dynamics. In contrast, the differentiation inferred from microsatellites is only on the scale of hundreds of years, possibly reflecting contemporary impediments to gene flow. Taken together, our data suggest that gene flow is insufficient to homogenize the GB and MC populations and support the designation of GB and MC as separate polar bear conservation units. Our study also provide a striking example of how nuclear DNA and mtDNA capture different aspects of a species demographic history. PMID:24102001

  3. Extensive sampling of polar bears (Ursus maritimus) in the Northwest Passage (Canadian Arctic Archipelago) reveals population differentiation across multiple spatial and temporal scales.

    Science.gov (United States)

    Campagna, Leonardo; Van Coeverden de Groot, Peter J; Saunders, Brenda L; Atkinson, Stephen N; Weber, Diana S; Dyck, Markus G; Boag, Peter T; Lougheed, Stephen C

    2013-09-01

    As global warming accelerates the melting of Arctic sea ice, polar bears (Ursus maritimus) must adapt to a rapidly changing landscape. This process will necessarily alter the species distribution together with population dynamics and structure. Detailed knowledge of these changes is crucial to delineating conservation priorities. Here, we sampled 361 polar bears from across the center of the Canadian Arctic Archipelago spanning the Gulf of Boothia (GB) and M'Clintock Channel (MC). We use DNA microsatellites and mitochondrial control region sequences to quantify genetic differentiation, estimate gene flow, and infer population history. Two populations, roughly coincident with GB and MC, are significantly differentiated at both nuclear (F ST = 0.01) and mitochondrial (ΦST = 0.47; F ST = 0.29) loci, allowing Bayesian clustering analyses to assign individuals to either group. Our data imply that the causes of the mitochondrial and nuclear genetic patterns differ. Analysis of mtDNA reveals the matrilineal structure dates at least to the Holocene, and is common to individuals throughout the species' range. These mtDNA differences probably reflect both genetic drift and historical colonization dynamics. In contrast, the differentiation inferred from microsatellites is only on the scale of hundreds of years, possibly reflecting contemporary impediments to gene flow. Taken together, our data suggest that gene flow is insufficient to homogenize the GB and MC populations and support the designation of GB and MC as separate polar bear conservation units. Our study also provide a striking example of how nuclear DNA and mtDNA capture different aspects of a species demographic history.

  4. Temporal naturalism

    Science.gov (United States)

    Smolin, Lee

    2015-11-01

    Two people may claim both to be naturalists, but have divergent conceptions of basic elements of the natural world which lead them to mean different things when they talk about laws of nature, or states, or the role of mathematics in physics. These disagreements do not much affect the ordinary practice of science which is about small subsystems of the universe, described or explained against a background, idealized to be fixed. But these issues become crucial when we consider including the whole universe within our system, for then there is no fixed background to reference observables to. I argue here that the key issue responsible for divergent versions of naturalism and divergent approaches to cosmology is the conception of time. One version, which I call temporal naturalism, holds that time, in the sense of the succession of present moments, is real, and that laws of nature evolve in that time. This is contrasted with timeless naturalism, which holds that laws are immutable and the present moment and its passage are illusions. I argue that temporal naturalism is empirically more adequate than the alternatives, because it offers testable explanations for puzzles its rivals cannot address, and is likely a better basis for solving major puzzles that presently face cosmology and physics. This essay also addresses the problem of qualia and experience within naturalism and argues that only temporal naturalism can make a place for qualia as intrinsic qualities of matter.

  5. Temporal protein expression pattern in intracellular signalling ...

    Indian Academy of Sciences (India)

    2015-09-28

    Sep 28, 2015 ... 1. Introduction. Exhibition of diverse patterns in the biological world has been ... molecular biology, genomics and proteomics experiments have come up with ..... proteins at 0, 2, 4 and 6 h, (B) temporal protein expression pattern observed in synchronous update up to 21 time points (0 to 10 h), (C) temporal ...

  6. Little impact of hatchery supplementation that uses native broodstock on the genetic structure and diversity of steelhead trout revealed by a large-scale spatio-temporal microsatellite survey.

    Science.gov (United States)

    Gow, Jennifer L; Tamkee, Patrick; Heggenes, Jan; Wilson, Greg A; Taylor, Eric B

    2011-11-01

    Artificial breeding programs initiated to enhance the size of animal populations are often motivated by the desire to increase harvest opportunities. The introduction of non-native genotypes, however, can have negative evolutionary impacts. These may be direct, such as introgressive hybridization, or indirect via competition. Less is known about the effects of stocking with native genotypes. We assayed variation at nine microsatellite loci in 902 steelhead trout (Oncorhynchus mykiss) from five rivers in British Columbia, Canada. These samples were collected over 58 years, a time period that spanned the initiation of native steelhead trout broodstock hatchery supplementation in these rivers. We detected no changes in estimates of effective population size, genetic variation or temporal genetic structure within any population, nor of altered genetic structure among them. Genetic interactions with nonmigratory O. mykiss, the use of substantial numbers of primarily native broodstock with an approximate 1:1 male-to-female ratio, and/or poor survival and reproductive success of hatchery fish may have minimized potential genetic changes. Although no genetic changes were detected, ecological effects of hatchery programs still may influence wild population productivity and abundance. Their effects await the design and implementation of a more comprehensive evaluation program.

  7. Temporal variability in epifaunal assemblages associated with temperate gorgonian gardens

    KAUST Repository

    Dias, I.M.

    2015-10-19

    The present study is one of the few that investigate the temporal variability of epifaunal assemblages associated with coral species, particularly the octocorals Eunicella gazella and Leptogorgia lusitanica in south Portugal. The results suggest time rather than colony size as a primary driver of the ecological patterns of these assemblages, which were dominated by amphipods, molluscs and polychaetes. Temporal variability was linked to changes in environmental parameters, namely temperature, chlorophyll a and particulate organic carbon. Hence, temporal variability must be taken into account for the design of future biodiversity assessment studies, as different patterns may be observed depending on the sampling time. Associated epifaunal assemblages were consistently dominated by resident species (i.e. species present in all sampling periods) and a peak of rare species was observed in the transition from spring to summer following the increase of seawater temperature. Turnover was particularly high in the transition between the spring and summer periods. In both hosts, turnover was higher in the small sized colonies, which generally harboured less diverse and less abundant assemblages which also differed from those inhabiting larger size colonies. The high levels of diversity associated with gorgonian colonies highlights the need for the conservation of this priority habitat.

  8. Functional Molecular Diversity of Marine Dissolved Organic Matter Is Reduced during Degradation

    Directory of Open Access Journals (Sweden)

    Andrea Mentges

    2017-06-01

    Full Text Available Dissolved organic matter (DOM is a highly diverse mixture of compounds, accounting for one of the world's largest active carbon pools. The surprising recalcitrance of some DOM compounds to bacterial degradation has recently been associated with its diversity. However, little is known about large-scale patterns of marine DOM diversity and its change through degradation, in particular considering the functional diversity of DOM. Here, we analyze the development of marine DOM diversity during degradation in two data sets comprising DOM of very different ages: a three-year mesocosm experiment and highly-resolved field samples from the Atlantic and Southern Ocean. The DOM molecular composition was determined using ultra-high resolution mass spectrometry. We quantify DOM diversity using three conceptually different diversity measures, namely richness of molecular formulas, abundance-based diversity, and functional molecular diversity. Using these measures we find stable molecular richness of DOM with age >1 year, systematic changes in the molecules' abundance distribution with degradation state, and increasing homogeneity with respect to chemical properties for more degraded DOM. Coinciding with differences in sea water density, the spatial field data separated clearly into regions of high and low diversity. The joint application of different diversity measures yields a comprehensive overview on temporal and spatial patterns of molecular diversity, valuable for general conclusions on drivers and consequences of marine DOM diversity.

  9. Evaluating Temporal Consistency in Marine Biodiversity Hotspots

    Science.gov (United States)

    Barner, Allison K.; Benkwitt, Cassandra E.; Boersma, Kate S.; Cerny-Chipman, Elizabeth B.; Ingeman, Kurt E.; Kindinger, Tye L.; Lindsley, Amy J.; Nelson, Jake; Reimer, Jessica N.; Rowe, Jennifer C.; Shen, Chenchen; Thompson, Kevin A.; Heppell, Selina S.

    2015-01-01

    With the ongoing crisis of biodiversity loss and limited resources for conservation, the concept of biodiversity hotspots has been useful in determining conservation priority areas. However, there has been limited research into how temporal variability in biodiversity may influence conservation area prioritization. To address this information gap, we present an approach to evaluate the temporal consistency of biodiversity hotspots in large marine ecosystems. Using a large scale, public monitoring dataset collected over an eight year period off the US Pacific Coast, we developed a methodological approach for avoiding biases associated with hotspot delineation. We aggregated benthic fish species data from research trawls and calculated mean hotspot thresholds for fish species richness and Shannon’s diversity indices over the eight year dataset. We used a spatial frequency distribution method to assign hotspot designations to the grid cells annually. We found no areas containing consistently high biodiversity through the entire study period based on the mean thresholds, and no grid cell was designated as a hotspot for greater than 50% of the time-series. To test if our approach was sensitive to sampling effort and the geographic extent of the survey, we followed a similar routine for the northern region of the survey area. Our finding of low consistency in benthic fish biodiversity hotspots over time was upheld, regardless of biodiversity metric used, whether thresholds were calculated per year or across all years, or the spatial extent for which we calculated thresholds and identified hotspots. Our results suggest that static measures of benthic fish biodiversity off the US West Coast are insufficient for identification of hotspots and that long-term data are required to appropriately identify patterns of high temporal variability in biodiversity for these highly mobile taxa. Given that ecological communities are responding to a changing climate and other

  10. Evaluating Temporal Consistency in Marine Biodiversity Hotspots.

    Science.gov (United States)

    Piacenza, Susan E; Thurman, Lindsey L; Barner, Allison K; Benkwitt, Cassandra E; Boersma, Kate S; Cerny-Chipman, Elizabeth B; Ingeman, Kurt E; Kindinger, Tye L; Lindsley, Amy J; Nelson, Jake; Reimer, Jessica N; Rowe, Jennifer C; Shen, Chenchen; Thompson, Kevin A; Heppell, Selina S

    2015-01-01

    With the ongoing crisis of biodiversity loss and limited resources for conservation, the concept of biodiversity hotspots has been useful in determining conservation priority areas. However, there has been limited research into how temporal variability in biodiversity may influence conservation area prioritization. To address this information gap, we present an approach to evaluate the temporal consistency of biodiversity hotspots in large marine ecosystems. Using a large scale, public monitoring dataset collected over an eight year period off the US Pacific Coast, we developed a methodological approach for avoiding biases associated with hotspot delineation. We aggregated benthic fish species data from research trawls and calculated mean hotspot thresholds for fish species richness and Shannon's diversity indices over the eight year dataset. We used a spatial frequency distribution method to assign hotspot designations to the grid cells annually. We found no areas containing consistently high biodiversity through the entire study period based on the mean thresholds, and no grid cell was designated as a hotspot for greater than 50% of the time-series. To test if our approach was sensitive to sampling effort and the geographic extent of the survey, we followed a similar routine for the northern region of the survey area. Our finding of low consistency in benthic fish biodiversity hotspots over time was upheld, regardless of biodiversity metric used, whether thresholds were calculated per year or across all years, or the spatial extent for which we calculated thresholds and identified hotspots. Our results suggest that static measures of benthic fish biodiversity off the US West Coast are insufficient for identification of hotspots and that long-term data are required to appropriately identify patterns of high temporal variability in biodiversity for these highly mobile taxa. Given that ecological communities are responding to a changing climate and other

  11. Variación espacial y temporal de la diversidad de hormigas en el Jardín Botánico del valle de Zapotitlán de las Salinas, Puebla Spatial and temporal variation of the diversity ants in the Botanic Garden from Zapotitlán de las Salinas Valley, Puebla

    Directory of Open Access Journals (Sweden)

    Rafael Guzmán-Mendoza

    2010-08-01

    Full Text Available Debido al escaso conocimiento que se tiene de las hormigas de las zonas áridas de México, se evaluó la biodiversidad de este taxón en el Jardín Botánico de Zapotitlán de las Salinas, Puebla. Se realizaron 2 colectas, una en época de lluvias (agosto de 2004 y otra en la temporada de secas (febrero de 2005. En ambas ocasiones se seleccionaron 2 sitios contrastantes en estructura vegetal y se colocaron 10 trampas de caída para cada sitio. La captura fue más abundante en temporada de lluvias. El sitio con menor diversidad y cobertura vegetal mostró una mayor diversidad de hormigas durante el estudio. Comparado con otras zonas áridas de México, el valle de Zapotitlán de las Salinas resultó ser una de las zonas semiáridas con mayor riqueza en especies de hormigas; con 12 nuevos registros se incrementó a 27 el número de especies, sólo una por debajo de otras localidades cercanas al valle. Los datos sugieren que con un mayor esfuerzo de muestreo y la aplicación combinada de otras técnicas de recolección, la riqueza de especies en el área podría elevarse considerablemente.The knowledge about ants of arid zones of Mexico is very poor. For this reason we assessed the biodiversity of this taxon in 2 sites with different vegetation structure. Ten pitfall traps were placed in each site, and 2 surveys were conducted, 1 in August (rainy season, 2004 and another in February (dry season, 2005. The capture was more abundant in the rainy season; however, during the study, a higher ant diversity was observed in the site with low vegetation cover and few plant diversity. Compared with other arid zones of Mexico, the Zapotitlán de las Salinas Valley is the site with the highest ant species richness. The new records have increased richness to 27 ant species, which is very close to the number of species registered in other localities near Zapotitlan. Our data suggest that increasing sampling effort and application of different sampling

  12. Measuring temporal trends in biodiversity

    OpenAIRE

    Buckland, S. T.; Yuan, Y.; Marcon, Eric

    2017-01-01

    Yuan was part-funded by EPSRC/NERC Grant EP/1000917/1 and Marcon by ANR-10-LABX-25-01. In 2002, nearly 200 nations signed up to the 2010 target of the Convention for Biological Diversity, ‘to significantly reduce the rate of biodiversity loss by 2010’. In order to assess whether the target was met, it became necessary to quantify temporal trends in measures of diversity. This resulted in a marked shift in focus for biodiversity measurement. We explore the developments in measuring biodiver...

  13. Ethnographies of Youth and Temporality

    DEFF Research Database (Denmark)

    Dalsgård, Anne Line; Frederiksen, Martin Demant; Højlund, Susanne

    and Temporality, have provided a diverse collection of ethnographic studies and theoretical explorations of youth experiencing time in a variety of contemporary socio-cultural settings. The essays in this volume focus on time as an external and often troubling factor in young people’s lives, and show how...... emotional unrest and violence but also creativity and hope are responses to troubling times. The chapters discuss notions of time and its “objectification” in diverse locales including the Georgian Republic, Brazil, Denmark, and Uganda. Based on long-term ethnographic fieldwork, the essays in Ethnographies...

  14. A modular method for the extraction of DNA and RNA, and the separation of DNA pools from diverse environmental sample types

    DEFF Research Database (Denmark)

    Lever, Mark; Torti, Andrea; Eickenbusch, Philip

    2015-01-01

    's oceans and the deepest borehole ever studied by scientific ocean drilling. Extraction yields of DNA and RNA are higher than with widely used commercial kits, indicating an advantage to optimizing extraction procedures to match specific sample characteristics. The ability to separate soluble extracellular......A method for the extraction of nucleic acids from a wide range of environmental samples was developed. This method consists of several modules, which can be individually modified to maximize yields in extractions of DNA and RNA or separations of DNA pools. Modules were designed based on elaborate...... tests, in which permutations of all nucleic acid extraction steps were compared. The final modular protocol is suitable for extractions from igneous rock, air, water, and sediments. Sediments range from high-biomass, organic rich coastal samples to samples from the most oligotrophic region of the world...

  15. Detecting the Spatio-temporal Distribution of Soil Salinity and Its Relationship to Crop Growth in a Large-scale Arid Irrigation District Based on Sampling Experiment and Remote Sensing

    Science.gov (United States)

    Ren, D.; Huang, G., Sr.; Xu, X.; Huang, Q., Sr.; Xiong, Y.

    2016-12-01

    Soil salinity analysis on a regional scale is of great significance for protecting agriculture production and maintaining eco-environmental health in arid and semi-arid irrigated areas. In this study, the Hetao Irrigation District (Hetao) in Inner Mongolia Autonomous Region, with suffering long-term soil salinization problems, was selected as the case study area. Field sampling experiments and investigations related to soil salt contents, crop growth and yields were carried out across the whole area, during April to August in 2015. Soil salinity characteristics in space and time were systematically analyzed for Hetao as well as the corresponding impacts on crops. Remotely sensed map of soil salinity distribution for surface soil was also derived based on the Landsat OLI data with a 30 m resolution. The results elaborated the temporal and spatial dynamics of soil salinity and the relationships with irrigation, groundwater depth and crop water consumption in Hetao. In addition, the strong spatial variability of salinization was clearly presented by the remotely sensed map of soil salinity. Further, the relationship between soil salinity and crop growth was analyzed, and then the impact degrees of soil salinization on cropping pattern, leaf area index, plant height and crop yield were preliminarily revealed. Overall, this study can provide very useful information for salinization control and guide the future agricultural production and soil-water management for the arid irrigation districts analogous to Hetao.

  16. A modular method for the extraction of DNA and RNA, and the separation of DNA pools from diverse environmental sample types

    Science.gov (United States)

    Lever, Mark A.; Torti, Andrea; Eickenbusch, Philip; Michaud, Alexander B.; Šantl-Temkiv, Tina; Jørgensen, Bo Barker

    2015-01-01

    A method for the extraction of nucleic acids from a wide range of environmental samples was developed. This method consists of several modules, which can be individually modified to maximize yields in extractions of DNA and RNA or separations of DNA pools. Modules were designed based on elaborate tests, in which permutations of all nucleic acid extraction steps were compared. The final modular protocol is suitable for extractions from igneous rock, air, water, and sediments. Sediments range from high-biomass, organic rich coastal samples to samples from the most oligotrophic region of the world's oceans and the deepest borehole ever studied by scientific ocean drilling. Extraction yields of DNA and RNA are higher than with widely used commercial kits, indicating an advantage to optimizing extraction procedures to match specific sample characteristics. The ability to separate soluble extracellular DNA pools without cell lysis from intracellular and particle-complexed DNA pools may enable new insights into the cycling and preservation of DNA in environmental samples in the future. A general protocol is outlined, along with recommendations for optimizing this general protocol for specific sample types and research goals. PMID:26042110

  17. Culture-independent analyses of temporal variation of the dominant fecal microbiota and targeted bacterial subgroups in Crohn's disease.

    Science.gov (United States)

    Scanlan, Pauline D; Shanahan, Fergus; O'Mahony, Caitlin; Marchesi, Julian R

    2006-11-01

    Gut microbiota shows host-specific diversity and temporal stability and significantly contributes to maintenance of a healthy gut. However, in inflammatory bowel disease, this microbiota has been implicated as a contributory factor to the illness. This study compared bacterial dynamics in Crohn's disease patients to those in a control group using a culture-independent method to assess the temporal stability, relative diversity, and similarity of the dominant fecal microbiota, Clostridium spp., Bacteroides spp., Bifidobacterium spp., and lactic acid bacteria spp. (LAB) for all individuals. Fecal samples were collected over several time points from individuals with Crohn's disease who were in remission (n = 11), from Crohn's disease patients who relapsed into an active Crohn's disease state (n = 5), and from a control group (n = 18). Denaturing gradient gel electrophoresis profiles were generated for the different microbial groups by specifically targeting different regions of the 16S rRNA gene and were compared on the basis of similarity and diversity. The temporal stability of dominant species for all Crohn's disease patients was significantly lower (P Analysis of group-specific profiles for Bifidobacterium spp. found that they were similar in all samples, while the diversity of the LAB varied significantly between the groups, but temporal stability was not significantly altered. We observed significant changes in two functionally important mutualistic groups of bacteria, viz., Clostridium and Bacteroides spp., which may have implications for the host's gut health, since some genera are involved in production of short-chain fatty acid, e.g., butyrate.

  18. Significance of overvaluation of shape and weight in an ethnically diverse sample of obese patients with binge-eating disorder in primary care settings.

    Science.gov (United States)

    Grilo, Carlos M; White, Marney A; Masheb, Robin M

    2012-05-01

    Undue influence of shape or weight on self-evaluation--referred to as overvaluation--is a core feature across eating disorders, but is not a diagnostic requirement for binge-eating disorder (BED). This study examined overvaluation of shape/weight in ethnically diverse obese patients with BED seeking treatment in primary care. Participants were a consecutive series of 142 (105 female and 37 male) participants with BED; 43% were Caucasian, 37% were African-American, 13% were Hispanic-American, and 7% were of "other" ethnicity. Participants categorized with overvaluation (N=97; 68%) versus without clinical overvaluation (N=45; 32%) did not differ significantly in ethnicity/race, age, gender, body mass index, or binge-eating frequency. The overvaluation group had significantly greater levels of eating disorder psychopathology, poorer psychological functioning (higher depression, lower self-esteem), and greater anxiety disorder co-morbidity than the group who did not overvalue their shape/weight. The greater eating disorder and psychological disturbance levels in the overvaluation group relative to the non-overvaluation group persisted after controlling for psychiatric co-morbidity. Our findings, based on an ethnically diverse series of patients seeking treatment in general primary care settings, are consistent with findings from specialist clinics and suggest that overvaluation does not simply reflect concerns commensurate with being obese or with frequency of binge-eating, but is strongly associated with heightened eating-related psychopathology and psychological distress. Overvaluation of shape/weight warrants consideration as a diagnostic specifier for BED as it provides important information about severity. Copyright © 2012 Elsevier Ltd. All rights reserved.

  19. Morphological Constraints on Cerebellar Granule Cell Combinatorial Diversity.

    Science.gov (United States)

    Gilmer, Jesse I; Person, Abigail L

    2017-12-13

    Combinatorial expansion by the cerebellar granule cell layer (GCL) is fundamental to theories of cerebellar contributions to motor control and learning. Granule cells (GrCs) sample approximately four mossy fiber inputs and are thought to form a combinatorial code useful for pattern separation and learning. We constructed a spatially realistic model of the cerebellar GCL and examined how GCL architecture contributes to GrC combinatorial diversity. We found that GrC combinatorial diversity saturates quickly as mossy fiber input diversity increases, and that this saturation is in part a consequence of short dendrites, which limit access to diverse inputs and favor dense sampling of local inputs. This local sampling also produced GrCs that were combinatorially redundant, even when input diversity was extremely high. In addition, we found that mossy fiber clustering, which is a common anatomical pattern, also led to increased redundancy of GrC input combinations. We related this redundancy to hypothesized roles of temporal expansion of GrC information encoding in service of learned timing, and we show that GCL architecture produces GrC populations that support both temporal and combinatorial expansion. Finally, we used novel anatomical measurements from mice of either sex to inform modeling of sparse and filopodia-bearing mossy fibers, finding that these circuit features uniquely contribute to enhancing GrC diversification and redundancy. Our results complement information theoretic studies of granule layer structure and provide insight into the contributions of granule layer anatomical features to afferent mixing.SIGNIFICANCE STATEMENT Cerebellar granule cells are among the simplest neurons, with tiny somata and, on average, just four dendrites. These characteristics, along with their dense organization, inspired influential theoretical work on the granule cell layer as a combinatorial expander, where each granule cell represents a unique combination of inputs. Despite

  20. Towards a Better Understanding of the Relationship between Executive Control and Theory of Mind: An Intra-Cultural Comparison of Three Diverse Samples

    Science.gov (United States)

    Shahaeian, Ameneh; Henry, Julie D.; Razmjoee, Maryam; Teymoori, Ali; Wang, Cen

    2015-01-01

    Previous research has consistently indicated that theory of mind (ToM) is associated with executive control in the preschool years. However, interpretation of this literature is limited by the fact that most studies have focused exclusively on urbanized Western cultural samples. Consequently, it is not clear whether the association between ToM and…

  1. Prevalence and serogroup diversity of Salmonella for broiler neck skin, whole carcass rinse, and whole carcass enrichment sampling methodologies following air or immersion chilling

    Science.gov (United States)

    The purpose of this study was to evaluate neck skin (NS), whole carcass rinse (WCR), and whole carcass enrichment (WCE) sampling procedures for Salmonella isolation and serogroup from the same broiler carcass following either air or immersion chilling. Commercially processed and eviscerated broiler ...

  2. Nonsuicidal Self-Injury as a Time-Invariant Predictor of Adolescent Suicide Ideation and Attempts in a Diverse Community Sample

    Science.gov (United States)

    Guan, Karen; Fox, Kathryn R.; Prinstein, Mitchell J.

    2012-01-01

    Objective: Longitudinal data on adolescent self-injury are rare. Little is known regarding the associations between various forms of self-injurious thoughts and behaviors over time, particularly within community samples that are most relevant for prevention efforts. This study examined nonsuicidal self-injury (NSSI) as a time-invariant,…

  3. Nonsuicidal Self-Injury as a Time-Invariant Predictor of Adolescent Suicide Ideation and Attempts in a Diverse Community Sample

    NARCIS (Netherlands)

    Guan, K.; Fox, K.R.; Prinstein, M.J.

    2012-01-01

    Objective: Longitudinal data on adolescent self-injury are rare. Little is known regarding the associations between various forms of self-injurious thoughts and behaviors over time, particularly within community samples that are most relevant for prevention efforts. This study examined nonsuicidal

  4. Characterization of oral and gut microbiome temporal variability in hospitalized cancer patients.

    Science.gov (United States)

    Galloway-Peña, Jessica R; Smith, Daniel P; Sahasrabhojane, Pranoti; Wadsworth, W Duncan; Fellman, Bryan M; Ajami, Nadim J; Shpall, Elizabeth J; Daver, Naval; Guindani, Michele; Petrosino, Joseph F; Kontoyiannis, Dimitrios P; Shelburne, Samuel A

    2017-02-28

    Understanding longitudinal variability of the microbiome in ill patients is critical to moving microbiome-based measurements and therapeutics into clinical practice. However, the vast majority of data regarding microbiome stability are derived from healthy subjects. Herein, we sought to determine intra-patient temporal microbiota variability, the factors driving such variability, and its clinical impact in an extensive longitudinal cohort of hospitalized cancer patients during chemotherapy. The stool (n = 365) and oral (n = 483) samples of 59 patients with acute myeloid leukemia (AML) undergoing induction chemotherapy (IC) were sampled from initiation of chemotherapy until neutrophil recovery. Microbiome characterization was performed via analysis of 16S rRNA gene sequencing. Temporal variability was determined using coefficients of variation (CV) of the Shannon diversity index (SDI) and unweighted and weighted UniFrac distances per patient, per site. Measurements of intra-patient temporal variability and patient stability categories were analyzed for their correlations with genera abundances. Groups of patients were analyzed to determine if patients with adverse outcomes had significantly different levels of microbiome temporal variability. Potential clinical drivers of microbiome temporal instability were determined using multivariable regression analyses. Our cohort evidenced a high degree of intra-patient temporal instability of stool and oral microbial diversity based on SDI CV. We identified statistically significant differences in the relative abundance of multiple taxa amongst individuals with different levels of microbiota temporal stability. Increased intra-patient temporal variability of the oral SDI was correlated with increased risk of infection during IC (P = 0.02), and higher stool SDI CVs were correlated with increased risk of infection 90 days post-IC (P = 0.04). Total days on antibiotics was significantly associated with increased

  5. Scale-dependence of processes structuring dung beetle metacommunities using functional diversity and community deconstruction approaches.

    Science.gov (United States)

    Silva, Pedro Giovâni da; Hernández, Malva Isabel Medina

    2015-01-01

    Community structure is driven by mechanisms linked to environmental, spatial and temporal processes, which have been successfully addressed using metacommunity framework. The relative importance of processes shaping community structure can be identified using several different approaches. Two approaches that are increasingly being used are functional diversity and community deconstruction. Functional diversity is measured using various indices that incorporate distinct community attributes. Community deconstruction is a way to disentangle species responses to ecological processes by grouping species with similar traits. We used these two approaches to determine whether they are improvements over traditional measures (e.g., species composition, abundance, biomass) for identification of the main processes driving dung beetle (Scarabaeinae) community structure in a fragmented mainland-island landscape in southern Brazilian Atlantic Forest. We sampled five sites in each of four large forest areas, two on the mainland and two on the island. Sampling was performed in 2012 and 2013. We collected abundance and biomass data from 100 sampling points distributed over 20 sampling sites. We studied environmental, spatial and temporal effects on dung beetle community across three spatial scales, i.e., between sites, between areas and mainland-island. The γ-diversity based on species abundance was mainly attributed to β-diversity as a consequence of the increase in mean α- and β-diversity between areas. Variation partitioning on abundance, biomass and functional diversity showed scale-dependence of processes structuring dung beetle metacommunities. We identified two major groups of responses among 17 functional groups. In general, environmental filters were important at both local and regional scales. Spatial factors were important at the intermediate scale. Our study supports the notion of scale-dependence of environmental, spatial and temporal processes in the distribution

  6. Scale-dependence of processes structuring dung beetle metacommunities using functional diversity and community deconstruction approaches.

    Directory of Open Access Journals (Sweden)

    Pedro Giovâni da Silva

    Full Text Available Community structure is driven by mechanisms linked to environmental, spatial and temporal processes, which have been successfully addressed using metacommunity framework. The relative importance of processes shaping community structure can be identified using several different approaches. Two approaches that are increasingly being used are functional diversity and community deconstruction. Functional diversity is measured using various indices that incorporate distinct community attributes. Community deconstruction is a way to disentangle species responses to ecological processes by grouping species with similar traits. We used these two approaches to determine whether they are improvements over traditional measures (e.g., species composition, abundance, biomass for identification of the main processes driving dung beetle (Scarabaeinae community structure in a fragmented mainland-island landscape in southern Brazilian Atlantic Forest. We sampled five sites in each of four large forest areas, two on the mainland and two on the island. Sampling was performed in 2012 and 2013. We collected abundance and biomass data from 100 sampling points distributed over 20 sampling sites. We studied environmental, spatial and temporal effects on dung beetle community across three spatial scales, i.e., between sites, between areas and mainland-island. The γ-diversity based on species abundance was mainly attributed to β-diversity as a consequence of the increase in mean α- and β-diversity between areas. Variation partitioning on abundance, biomass and functional diversity showed scale-dependence of processes structuring dung beetle metacommunities. We identified two major groups of responses among 17 functional groups. In general, environmental filters were important at both local and regional scales. Spatial factors were important at the intermediate scale. Our study supports the notion of scale-dependence of environmental, spatial and temporal processes in

  7. Interrelationships between LGBT-Based Victimization, Suicide, and Substance Use Problems in a Diverse Sample of Sexual and Gender Minority Men and Women

    OpenAIRE

    Mereish, Ethan H.; O'Cleirigh, C; Bradford, Judith B.

    2013-01-01

    Research has documented significant relationships between sexual and gender minority stress and higher rates of suicidality (i.e., suicidal ideation and attempts) and substance use problems. We examined the potential mediating role of substance use problems on the relationship between sexual and gender minority stress (i.e., victimization based on lesbian, gay, bisexual, or transgender identity; LGBT) and suicidality. A non-probability sample of LGBT patients from a community health center (N...

  8. Fabrication of diverse pH-sensitive functional mesoporous silica for selective removal or depletion of highly abundant proteins from biological samples.

    Science.gov (United States)

    Wang, Jiaojiao; Lan, Jingfeng; Li, Huihui; Liu, Xiaoyan; Zhang, Haixia

    2017-01-01

    In proteomic studies, poor detection of low abundant proteins is a major problem due to the presence of highly abundant proteins. Therefore, the specific removal or depletion of highly abundant proteins prior to analysis is necessary. In response to this problem, a series of pH-sensitive functional mesoporous silica materials composed of 2-(diethylamino)ethyl methacrylate and methacrylic acid units were designed and synthesized via atom transfer radical polymerization. These functional mesoporous silica materials were characterized and their ability for adsorption and separation of proteins was evaluated. Possessing a pH-sensitive feature, the synthesized functional materials showed selective adsorption of some proteins in aqueous or buffer solutions at certain pH values. The specific removal of a particular protein from a mixed protein solution was subsequently studied. The analytical results confirmed that all the target proteins (bovine serum albumin, ovalbumin, and lysozyme) can be removed by the proposed materials from a five-protein mixture in a single operation. Finally, the practical application of this approach was also evaluated by the selective removal of certain proteins from real biological samples. The results revealed that the maximum removal efficiencies of ovalbumin and lysozyme from egg white sample were obtained as 99% and 92%, respectively, while the maximum removal efficiency of human serum albumin from human serum sample was about 80% by the proposed method. It suggested that this treatment process reduced the complexity of real biological samples and facilitated the identification of hidden proteins in chromatograms. Copyright © 2016 Elsevier B.V. All rights reserved.

  9. Effects of achievement differences for internal/external frame of reference model investigations: A test of robustness of findings over diverse student samples.

    Science.gov (United States)

    Schmidt, Isabelle; Brunner, Martin; Preckel, Franzis

    2017-11-12

    Achievement in math and achievement in verbal school subjects are more strongly correlated than the respective academic self-concepts. The internal/external frame of reference model (I/E model; Marsh, 1986, Am. Educ. Res. J., 23, 129) explains this finding by social and dimensional comparison processes. We investigated a key assumption of the model that dimensional comparisons mainly depend on the difference in achievement between subjects. We compared correlations between subject-specific self-concepts of groups of elementary and secondary school students with or without achievement differences in the respective subjects. The main goals were (1) to show that effects of dimensional comparisons depend to a large degree on the existence of achievement differences between subjects, (2) to demonstrate the generalizability of findings over different grade levels and self-concept scales, and (3) to test a rarely used correlation comparison approach (CCA) for the investigation of I/E model assumptions. We analysed eight German elementary and secondary school student samples (grades 3-8) from three independent studies (Ns 326-878). Correlations between math and German self-concepts of students with identical grades in the respective subjects were compared with the correlation of self-concepts of students having different grades using Fisher's Z test for independent samples. In all samples, correlations between math self-concept and German self-concept were higher for students having identical grades than for students having different grades. Differences in median correlations had small effect sizes for elementary school students and moderate effect sizes for secondary school students. Findings generalized over grades and indicated a developmental aspect in self-concept formation. The CCA complements investigations within I/E-research. © 2017 The British Psychological Society.

  10. Assessing spatial and temporal variability of phytoplankton communities' composition in the Iroise Sea ecosystem (Brittany, France): A 3D modeling approach. Part 2: Linking summer mesoscale distribution of phenotypic diversity to hydrodynamism

    Science.gov (United States)

    Cadier, Mathilde; Sourisseau, Marc; Gorgues, Thomas; Edwards, Christopher A.; Memery, Laurent

    2017-05-01

    Tidal front ecosystems are especially dynamic environments usually characterized by high phytoplankton biomass and high primary production. However, the description of functional microbial diversity occurring in these regions remains only partially documented. In this article, we use a numerical model, simulating a large number of phytoplankton phenotypes to explore the three-dimensional spatial patterns of phytoplankton abundance and diversity in the Iroise Sea (western Brittany). Our results suggest that, in boreal summer, a seasonally marked tidal front shapes the phytoplankton species richness. A diversity maximum is found in the surface mixed layer located slightly west of the tidal front (i.e., not strictly co-localized with high biomass concentrations) which separates tidally mixed from stratified waters. Differences in phenotypic composition between sub-regions with distinct hydrodynamic regimes (defined by vertical mixing, nutrients gradients and light penetration) are discussed. Local growth and/or physical transport of phytoplankton phenotypes are shown to explain our simulated diversity distribution. We find that a large fraction (64%) of phenotypes present during the considered period of September are ubiquitous, found in the frontal area and on both sides of the front (i.e., over the full simulated domain). The frontal area does not exhibit significant differences between its community composition and that of either the well-mixed region or an offshore Deep Chlorophyll Maximum (DCM). Only three phenotypes (out of 77) specifically grow locally and are found at substantial concentration only in the surface diversity maximum. Thus, this diversity maximum is composed of a combination of ubiquitous phenotypes with specific picoplankton deriving from offshore, stratified waters (including specific phenotypes from both the surface and the DCM) and imported through physical transport, completed by a few local phenotypes. These results are discussed in light

  11. La variedad, diversidad y características de la dieta en muestras de conveniencia de mujeres guatemaltecas Food variety, dietary diversity, and food characteristics among convenience samples of Guatemalan women

    Directory of Open Access Journals (Sweden)

    María José Soto-Méndez

    2011-08-01

    Full Text Available OBJETIVO: Comparar patrones y características de diversidad y variedad de la dieta de mujeres guatemaltecas. MATERIEL Y MÉTODOS: Se realizaron dos recordatorios de 24-horas en una muestra de conveniencia de 20 mujeres rurales y 20 estudiantes urbanas. Se calcularon puntajes de diversidad usando tres sistemas de grupos alimentarios. La variedad y diversidad, así como el origen y características de la dieta, se compararon entre ambos sitios. RESULTADOS: La variedad y diversidad en general fueron mayores en la muestra urbana en comparación con la muestra rural, dependiendo del número de días y del sistema de grupos de alimentos utilizados para la evaluación. La dieta rural fue predominantemente vegetal y compuesta de alimentos tradicionales no procesados. La dieta urbana estaba basada primordialmente en alimentos procesados. CONCLUSIÓN: Las consideraciones para crear estrategias de intervención para el mejoramiento de la dieta en el área rural dependen de la conservación de la selección de alimentos tradicionales.OBJECTIVE: To compare variety and diversity patterns and dietary characteristics in Guatemalan women. MATERIAL AND METHODS: Two non-consecutive 24-h recalls were conducted in convenience samples of 20 rural Mayan women and 20 urban students. Diversity scores were computed using three food-group systems.Variety and diversity scores and dietary origin and characteristics were compared between settings using independent t-test or Mann-Whitney-U-test. RESULTS: Dietary variety and diversity were generally greater in the urban sample when compared to the rural sample, depending on the number of days and food-group system used for evaluation.The diet was predominantly plant-based and composed of non-fortified food items in both areas.The rural diet was predominantly composed of traditional,non-processed foods. The urban diet was mostly based on non-traditional and processed items. CONCLUSION: Considerations of intervention strategies

  12. Diversity Index

    Data.gov (United States)

    Town of Chapel Hill, North Carolina — This map service summarizes racial and ethnic diversity in the United States in 2012.The Diversity Index shows the likelihood that two persons chosen at random from...

  13. Does host plant richness explain diversity of ectomycorrhizal fungi? Re-evaluation of Gao et al. (2013) data sets reveals sampling effects.

    Science.gov (United States)

    Tedersoo, Leho; Bahram, Mohammad; Dickie, Ian A

    2014-03-01

    The generally positive relationship between biodiversity of groups of directly or indirectly interacting organisms is one of the most important ecological concepts (Gaston, 2000 Nature, 405, 220-227; Scherber C, Eisenhauer N, Weisser WW et al., 2010 Nature, 468, 553-556). In a recent issue of Molecular Ecology, Gao C, Shi N-N, Liu Y-X et al. (2013: 22, 3403-3414) reported that the richness of plants and ectomycorrhizal fungi is positively correlated both at local and at global scales. Here, we challenge these findings by re-analysis of data and ascribe the reported results to sampling effect and poor data compilation. © 2014 John Wiley & Sons Ltd.

  14. Assessment of PCR-DGGE for the identification of diverse Helicobacter species, and application to faecal samples from zoo animals to determine Helicobacter prevalence.

    Science.gov (United States)

    Al-Soud, Waleed Abu; Bennedsen, Mads; On, Stephen L W; Ouis, Ibn-Sina; Vandamme, Peter; Nilsson, Hans-Olof; Ljungh, Asa; Wadström, Torkel

    2003-09-01

    Helicobacter species are fastidious bacterial pathogens that are difficult to culture by standard methods. A PCR-denaturing gradient gel electrophoresis (PCR-DGGE) technique for detection and identification of different Helicobacter species was developed and evaluated. The method involves PCR detection of Helicobacter DNA by genus-specific primers that target 16S rDNA and subsequent differentiation of Helicobacter PCR products by use of DGGE. Strains are identified by comparing mobilities of unknown samples to those determined for reference strains; sequence analysis can also be performed on purified amplicons. Sixteen DGGE profiles were derived from 44 type and reference strains of 20 Helicobacter species, indicating the potential of this approach for resolving infection of a single host by multiple Helicobacter species. Some more highly related species were not differentiated whereas in highly heterogeneous species, sequence divergence was observed and more than one PCR-DGGE profile was obtained. Application of the PCR-DGGE method to DNA extracted from faeces of zoo animals revealed the presence of Helicobacter DNA in 13 of 16 samples; a correlation was seen between the mobility of PCR products in DGGE analysis and DNA sequencing. In combination, this indicated that zoo animals are colonized by a wide range of different Helicobacter species; seven animals appeared to be colonized by multiple Helicobacter species. By this approach, presumptive identifications were made of Helicobacter bilis and Helicobacter hepaticus in a Nile crocodile, Helicobacter cinaedi in a baboon and a red panda, and Helicobacter felis in a wolf and a Taiwan beauty snake. All of these PCR products ( approximately 400 bp) showed 100 % sequence similarity to 16S rDNA sequences of the mentioned species. These results demonstrate the potential of PCR-DGGE-based analysis for identification of Helicobacter species in complex ecosystems, such as the gastrointestinal tract, and could contribute to

  15. Temporal dynamics of hot desert microbial communities reveal structural and functional responses to water input

    Energy Technology Data Exchange (ETDEWEB)

    Armstrong, Alacia; Valverde, Angel; Ramond, Jean-Baptiste; Makhalanyane, Thulani P.; Jansson, Janet K.; Hopkins, David W.; Aspray, Thomas J.; Seely, Mary; Trindade, Marla I.; Cowan, Don A.

    2016-09-29

    The temporal dynamics of desert soil microbial communities are poorly understood. Given the implications for ecosystem functioning under a global change scenario, a better understanding of desert microbial community stability is crucial. Here, we sampled soils in the central Namib Desert on sixteen different occasions over a one-year period. Using Illumina-based amplicon sequencing of the 16S rRNA gene, we found that α-diversity (richness) was more variable at a given sampling date (spatial variability) than over the course of one year (temporal variability). Community composition remained essentially unchanged across the first 10 months, indicating that spatial sampling might be more important than temporal sampling when assessing β-diversity patterns in desert soils. However, a major shift in microbial community composition was found following a single precipitation event. This shift in composition was associated with a rapid increase in CO2 respiration and productivity, supporting the view that desert soil microbial communities respond rapidly to re-wetting and that this response may be the result of both taxon-specific selection and changes in the availability or accessibility of organic substrates. Recovery to quasi pre-disturbance community composition was achieved within one month after rainfall.

  16. Diversity & Dartmouth.

    Science.gov (United States)

    Freedman, James O.

    1991-01-01

    The president of Dartmouth College (New Hampshire) discusses campus cultural pluralism, the need for diversity in higher education, overcoming resistance to change, techniques for supporting a diverse student population, monitoring diversity through institutional research, and the issue of "political correctness" in higher education…

  17. Embracing Diversity

    NARCIS (Netherlands)

    S. Puntoni (Stefano)

    2015-01-01

    markdownabstract__Abstract__ Societies are vastly more diverse today than they used to be and, in many industries, developing theories and approaches that recognize and capitalize on this greater consumer diversity is crucial. In business schools, diversity tends to be discussed only in relation

  18. Towards General Temporal Aggregation

    DEFF Research Database (Denmark)

    Boehlen, Michael H.; Gamper, Johann; Jensen, Christian Søndergaard

    2008-01-01

    Most database applications manage time-referenced, or temporal, data. Temporal data management is difficult when using conventional database technology, and many contributions have been made for how to better model, store, and query temporal data. Temporal aggregation illustrates well the problem...

  19. Interrelationships between LGBT-Based Victimization, Suicide, and Substance Use Problems in a Diverse Sample of Sexual and Gender Minority Men and Women

    Science.gov (United States)

    Mereish, Ethan H.; O'Cleirigh, C; Bradford, Judith B.

    2013-01-01

    Research has documented significant relationships between sexual and gender minority stress and higher rates of suicidality (i.e., suicidal ideation and attempts) and substance use problems. We examined the potential mediating role of substance use problems on the relationship between sexual and gender minority stress (i.e., victimization based on lesbian, gay, bisexual, or transgender identity; LGBT) and suicidality. A non-probability sample of LGBT patients from a community health center (N = 1457) ranged in age 19 to 70 years. Participants reported history of lifetime suicidal ideation and attempts, and substance use problems, as well as experiences of LGBT-based verbal and physical attacks. Substance use problems were a significant partial mediator between LGBT-based victimization and suicidal ideation and between LGBT-based victimization and suicide attempts for sexual and gender minorities. Nuanced gender differences revealed that substance use problems did not significantly mediate the relationship between victimization and suicide attempts for sexual minority men. Substance use problems may be one insidious pathway that partially mediates the risk effects of sexual and gender minority stress on suicidality. Substances might be a temporary and deleterious coping resource in response to LGBT-based victimization, which have serious effects on suicidal ideation and behaviors. PMID:23535038

  20. Can the Theory of Planned Behavior Predict Dietary Intention and Future Dieting in an Ethnically Diverse Sample of Overweight and Obese Veterans Attending Medical Clinics?

    Science.gov (United States)

    Lash, Denise N.; Smith, Jane Ellen; Rinehart, Jenny K.

    2016-01-01

    Obesity has become a world-wide epidemic; in the United States (U.S.) approximately two-thirds of adults are classified as overweight or obese. Military veterans’ numbers are even higher, with 77% of retired or discharged U.S. veterans falling in these weight categories. One of the most common methods of changing one’s weight is through dieting, yet little is known regarding the factors that facilitate successful dieting behavior. The current investigation tested the Theory of Planned Behavior’s (TPB) ability to predict dietary intention and future dieting in a sample of 84 overweight and obese patients attending medical clinics at a Veterans Affairs Hospital in the southwestern part of the U.S. Participants primarily were male (92%) and ethnic/racial minorities (58%). Perceived need and anticipated regret were added to the standard TPB model. While the TPB predicted dietary intention, it did not significantly account for improved dietary behaviors. Anticipated regret significantly enhanced the basic TPB’s ability to predict intention to diet, while perceived need did not. These findings highlight the difficulty in predicting sustained change in a complex behavior such as dieting to lose weight. The need for more work with older, overweight/obese medical patients attending veterans’ facilities is stressed, as is the need for such work with male patients and ethnic minorities in particular. PMID:26792774

  1. Relational diversity.

    Science.gov (United States)

    Gregorius, Hans-Rolf

    2009-03-07

    In biology, the measurement of diversity traditionally focusses on reporting number of unambiguously distinguishable types, thus referring to qualitative (discontinuously varying) traits. Inclusion of frequencies or other weights has produced a large variety of diversity indices. Quantitative (continuously varying) traits do not readily fit into this perspective. In fact, in the context of quantitative traits, the concept of diversity is not always clearly distinguished from the (statistical) notion of dispersion. In many cases the ambiguity even extends to qualitative traits. This is at variance with the broad spectrum of diversity issues ranging, e.g., from ecological and genetic aspects of diversity to functional, structural, systematic, or evolutionary (including phylogenetic) aspects. In view of the urgent need for a more consistent perspective, it is called to attention that all of these aspects, whether of qualitative or quantitative nature, can be gathered under the common roof of binary relations (for qualitative traits two objects are related, for example, if they share the same trait state). A comprehensive concept of (relational) diversity can be developed in two steps: (1) determine the number of unrelated pairs of objects among all admissible pairs as a measure of implicit (relative) diversity, (2) invoke the concept of effective number to transform the implicit measure of diversity into an explicit (absolute) measure. The transformation operates by equating the observed implicit diversity to the implicit diversity obtained for the ideal model of an equivalence relation with classes of equal size. The number of these classes specifies the effective number as an explicit measure of diversity. The wealth of problems that can be treated from this unified perspective is briefly addressed by classifying and interpreting established diversity indices in the light of relational diversity. Desirable applications to the above-mentioned aspects are specified

  2. Differences in Healthcare Access, Use, and Experiences Within a Community Sample of Racially Diverse Lesbian, Gay, Bisexual, Transgender, and Questioning Emerging Adults

    Science.gov (United States)

    Bhatia, Ramona; Greene, George J.

    2016-01-01

    Abstract Purpose: Health services research involving lesbian, gay, bisexual, transgender, queer, and questioning (LGBTQ) individuals has focused on differences in healthcare access, use, and experiences between cisgender, heterosexual adults and LGBTQ adults. Yet these factors may differ within the LGBTQ community and have not been well-studied among emerging adults (18–29 years), a group with unique barriers to healthcare. We sought to characterize healthcare challenges within a sample of LGBTQ emerging adults. Methods: From 2012 to 2013, 206 participants aged 18–27 (86% racial/ethnic minority, 10% transgender) completed questionnaires assessing healthcare access, use, and experiences during a longitudinal study. Descriptive statistics established patterns of healthcare access, use, and experiences, and nonparametric tests examined differences related to sociodemographic variables, HIV status, sexual orientation identity, and gender identity. Results: Overall, 68% of participants reported relatively easy access to care. White and bisexual participants reported higher rates of insurance than racial/ethnic minority (P = 0.01) and gay or lesbian participants (P = 0.005), respectively. Although most participants did not report having negative experiences in healthcare settings related to their LGBTQ identity, transgender participants were more likely to delay care (P queer or were questioning their sexual orientation identity reported negative healthcare experiences more frequently than LGB-identified participants (P = 0.001). Conclusions: Although LGBTQ emerging adults experienced fewer barriers to care than observed in previous studies on LGBTQ adults, the results suggest that queer, questioning, and transgender individuals may face additional healthcare challenges compared with their LGB and cisgender counterparts. PMID:27726496

  3. Psychosocial stressors contributing to emergency psychiatric service utilization in a sample of ethno-culturally diverse clients with psychosis in Toronto.

    Science.gov (United States)

    Rotenberg, Martin; Tuck, Andrew; McKenzie, Kwame

    2017-09-02

    Understanding the psychosocial stressors of people with psychoses from minority ethnic groups may help in the development of culturally appropriate services. This study aimed to compare psychosocial factors associated with attendance at an emergency department (ED) for six ethnic groups. Preventing crises or supporting people better in the community may decrease hospitalization and improve outcomes. A cohort was created by retrospective case note analysis of people of East-Asian, South-Asian, Black-African, Black-Caribbean, White-North American and White-European origin groups attending a specialized psychiatric ED in Toronto with a diagnosis of psychosis between 2009 and 2011. The psychological or social stressors which were linked to the presentation at the ED that were documented by the attending physicians were collected for this study. Logistic regression models were constructed to analyze the odds of presenting with specific stressors. Seven hundred sixty-five clients were included in this study. Forty-four percent of the sample did not have a psychiatrist, and 53% did not have a primary care provider. Social environmental stressors were the most frequent psychosocial stressor across all six groups, followed by issues in the primary support group, occupational and housing stressors. When compared to White-North American clients, East-Asian and White-European origin clients were less likely to present with a housing stressor, while Black-African clients had decreased odds of presenting with primary support group stressor. Having a primary care provider or psychiatrist were predominantly protective factors. In Toronto, moving people with chronic mental health conditions out of poverty, increasing the social safety net and improving access to primary care and community based mental health services may decrease many of the stressors which contribute to ED attendance.

  4. Alcohol and marijuana use trajectories in a diverse longitudinal sample of adolescents: examining use patterns from age 11 to 17 years.

    Science.gov (United States)

    D'Amico, Elizabeth J; Tucker, Joan S; Miles, Jeremy N V; Ewing, Brett A; Shih, Regina A; Pedersen, Eric R

    2016-10-01

    We tested race/ethnic differences in alcohol and marijuana (AM) trajectories (comprising an intercept term, reflecting overall probability of use, and a slope term, reflecting change in probability of use) during adolescence, whether AM use trajectories predicted high school outcomes, and whether outcomes differed by race/ethnicity after controlling for trajectory of AM use. This longitudinal study involved 6509 youth from 16 middle schools in Southern California surveyed from age 11.5 (2008) to age 17 (2015) years; all surveys assessed AM use, and the final survey also examined high school outcomes. Youth completed five surveys in middle school and two on-line surveys in high school. The sample was 50% male and 80% non-white. Intercept (at 2.75 years post-baseline) and slope of AM use were examined as outcomes for race/ethnic differences. AM use trajectories were examined as predictors of academic performance and unpreparedness, social functioning, mental and physical health and delinquency. We found differences in trajectories of use by race/ethnicity, with white youth reporting a higher overall intercept of alcohol use compared to all other groups (versus Asian P academic unpreparedness (P marijuana use reported greater academic unpreparedness (P academic performance (P = 0.032) and mental health (P = 0.002) in high school. At wave 7, compared to white youth, Hispanic and multi-ethnic youth reported poorer academic performance (P academic unpreparedness (P academics and health. © 2016 Society for the Study of Addiction.

  5. Identity, Diversity and Diversity Management

    DEFF Research Database (Denmark)

    Holck, Lotte; Muhr, Sara Louise; Villeseche, Florence

    2016-01-01

    The purpose of this paper is to examine the relationship between the identity and diversity literatures and discuss how a better understanding of the theoretical connections between the two informs both diversity research and diversity management practices. Design/methodology/approach – Literatur...

  6. Staphylococcus pseudintermedius colonization patterns and strain diversity in healthy dogs

    DEFF Research Database (Denmark)

    Paul, Narayan Chandra; Bärgman, Sofia Cathrine; Moodley, Arshnee

    2012-01-01

    This is the first large-scale study of Staphylococcus pseudintermedius colonization and diversity in healthy dogs where samples were collected over a long time and strains were identified by PCR according to the current taxonomy of the S. intermedius group and typed by a highly discriminatory...... method such as pulsed field gel electrophoresis (PFGE). A cross-sectional study of nasal, oral, perineal and inguinal carriage in 119 healthy dogs was followed by a longitudinal study where oral and perineal carriage was examined in 16 dogs for 10 times over a period of 1 year. Altogether we collected...... 762 samples and 285 S. pseudintermedius isolates, 182 of which were typed by PFGE to determine spatial and temporal strain diversity within individual carriers. In the cross-sectional study, S. pseudintermedius was isolated from at least one body site in 82 (69%) of the 119 dogs. The most frequent...

  7. Valuing Gender Diversity in Teams

    DEFF Research Database (Denmark)

    Lauring, Jakob; Villeseche, Florence

    Team gender diversity has been much debated in many different contexts – not least since the search for a main effect of diversity on performance was launched. However, results have so far been inconclusive, and a number of scholars suggest that more attention should be directed at contextual...... factors which could influence the effect of gender diversity on team performance. In this study, we explore the effect of positive diversity attitudes and assess the degree of gender diversity where such group attitudes have greater impact. This is done by using a sample of 1085 leaders of academic...... research teams. Findings show that positive diversity attitude in the form of group openness to diversity is strongly associated with team performance. We also find a moderating effect of gender diversity meaning that the effect of openness to diversity is stronger when gender groups are more balanced...

  8. Temporal stability in the genetic structure of Sarcoptes scabiei under the host-taxon law: empirical evidences from wildlife-derived Sarcoptes mite in Asturias, Spain

    Directory of Open Access Journals (Sweden)

    Rossi Luca

    2011-07-01

    Full Text Available Abstract Background Implicitly, parasite molecular studies assume temporal genetic stability. In this study we tested, for the first time to our knowledge, the extent of changes in genetic diversity and structure of Sarcoptes mite populations from Pyrenean chamois (Rupicapra pyrenaica in Asturias (Spain, using one multiplex of 9 microsatellite markers and Sarcoptes samples from sympatric Pyrenean chamois, red deer (Cervus elaphus, roe deer (Capreolus capreolus and red fox (Vulpes vulpes. Results The analysis of an 11-years interval period found little change in the genetic diversity (allelic diversity, and observed and expected heterozygosity. The temporal stability in the genetic diversity was confirmed by population structure analysis, which was not significantly variable over time. Population structure analysis revealed temporal stability in the genetic diversity of Sarcoptes mite under the host-taxon law (herbivore derived- and carnivore derived-Sarcoptes mite among the sympatric wild animals from Asturias. Conclusions The confirmation of parasite temporal genetic stability is of vital interest to allow generalizations to be made, which have further implications regarding the genetic structure, epidemiology and monitoring protocols of the ubiquitous Sarcoptes mite. This could eventually be applied to other parasite species.

  9. Temporal context for authorship attribution

    DEFF Research Database (Denmark)

    Hansen, Niels Dalum; Lioma, Christina; Larsen, Birger

    2014-01-01

    A study of temporal aspects of authorship attribution - a task which aims to distinguish automatically between texts written by different authors by measuring textual features. This task is important in a number of areas, including plagiarism detection in secondary education, which we study...... in this work. As the academic abilities of students evolve during their studies, so does their writing style. These changes in writing style form a type of temporal context, which we study for the authorship attribution process by focussing on the students’ more recent writing samples. Experiments with real...

  10. Cultivation-independent assessment of the bathypelagic archaeal diversity of Tyrrhenian Sea: Comparative study of rDNA and rRNA-derived libraries and influence of sample decompression

    Science.gov (United States)

    La Cono, Violetta; Tamburini, Christian; Genovese, Lucrezia; Spada, Gina La; Denaro, Renata; Yakimov, Michail M.

    2009-05-01

    Two samples of the same bathypelagic bacterioplankton community (Tyrrhenian Sea at the depth of 3000 m) were collected during single cast by both traditional sampling with Niskin bottle and using a high pressure-maintaining HPSS sampler. Total RNA was isolated, reverse transcribed, amplified with Archaea-specific primers and cloned. Riboclones were sequenced, 117 riboclones from decompressed library and 104 rRNA-based riboclones retrieved from HPSS sampler. Both RNA libraries were additionally compared with 115 riboclones based on DNA obtained from the decompressed sample (16S rRNA genes). In terms of repetitive riboclones, obtained in all three libraries, the bathypelagic community was dominated by Crenarchaeota Marine Group I (52-64%). The combined analysis led to a characterization of sampling-specific phylotypes otherwise uncharacterized if only one type of library had been analyzed alone. Of the DNA riboclones, 22% were found only in this library and no close relatives of Euryarchaeota Marine Group II were detected in both RNA-based libraries, suggesting the dormant state of these organisms in deep-sea environment. For clones from the RNA libraries, one Crenarchaeota MG I phylotype did not indicate close relatives in the DNA library. In general, among 10 archaeal phylotypes recovered in total, 8, 7 and 6 of them were faced in DNA, RNA_HPSS and RNA decompressed libraries, respectively. Based on comparisons between all three libraries, our data indicate that (i) the short-term decompression of seawater samples during cast recovery and following treatments caused only slight changes in the total rRNA diversity and (ii) rRNA-based analysis is likely affected the characterization of phylotypes, present in deep-sea environment as the dormant cells, detected only on the DNA level.

  11. Fungi identify the geographic origin of dust samples.

    Directory of Open Access Journals (Sweden)

    Neal S Grantham

    Full Text Available There is a long history of archaeologists and forensic scientists using pollen found in a dust sample to identify its geographic origin or history. Such palynological approaches have important limitations as they require time-consuming identification of pollen grains, a priori knowledge of plant species distributions, and a sufficient diversity of pollen types to permit spatial or temporal identification. We demonstrate an alternative approach based on DNA sequencing analyses of the fungal diversity found in dust samples. Using nearly 1,000 dust samples collected from across the continental U.S., our analyses identify up to 40,000 fungal taxa from these samples, many of which exhibit a high degree of geographic endemism. We develop a statistical learning algorithm via discriminant analysis that exploits this geographic endemicity in the fungal diversity to correctly identify samples to within a few hundred kilometers of their geographic origin with high probability. In addition, our statistical approach provides a measure of certainty for each prediction, in contrast with current palynology methods that are almost always based on expert opinion and devoid of statistical inference. Fungal taxa found in dust samples can therefore be used to identify the origin of that dust and, more importantly, we can quantify our degree of certainty that a sample originated in a particular place. This work opens up a new approach to forensic biology that could be used by scientists to identify the origin of dust or soil samples found on objects, clothing, or archaeological artifacts.

  12. Fishing effects in northeast Atlantic shelf seas : patterns in fishing effort, diversity and community structure. III. International trawling effort in the North Sea : an analysis of spatial and temporal trends

    DEFF Research Database (Denmark)

    Jennings, S.; Alsväg, J.; Cotter, A.J.R.

    1999-01-01

    This paper describes trends in beam and otter trawling effort in the North Sea from 1977 to 1995, Data are presented as total hours fishing by English, German, Norwegian, Scottish and Welsh vessels for the period 1977-1995, and by Danish, Dutch, English, German, Norwegian, Scottish and Welsh...... vessels for the period 1990-1995. Analyses of temporal trends indicated that total international trawling effort in the entire North Sea has increased slowly since 1977 and that it is currently (1995) 2.25 million h yr(-1) of which 55% is due to beam trawling, Spatial analyses indicate that the proportion...... of beam trawling effort increases from north to south. Plots of annual fishing effort by ICES statistical rectangle (211 boxes of 0.5 degrees latitude x 1 degrees longitude) indicate that the majority of fishing effort in the North Sea are concentrated in a very few rectangles. Thus mean annual total...

  13. Burnout y prescripción de incapacidad laboral temporal Work satisfaction and temporary sick leave prescription in a sample of doctors inside a mutual society of industrial accidents and occupational diseases (matepss

    Directory of Open Access Journals (Sweden)

    Dr. Ismael S. Diana Domínguez

    2009-06-01

    Full Text Available Objetivo: Hallar el grado de satisfacción laboral en una muestra de médicos asistenciales de una mutua de accidentes de trabajo y enfermedades profesionales (MATEPSS, determinando su relación con una serie de aspectos sociodemográficos y laborales y con su repercusión sobre la prescripción de incapacidad temporal. Material y método: Se realizó un estudio transversal en una muestra final de 156 médicos (muestra total de 250 médicos, repartidos por toda la geografía española de una MATEPSS, a los que se les aplicó el Maslach burnout inventory, y un cuestionario de elaboración propia que mide una serie de variables sociodemográficas. Sobre 131 médicos pertenecientes a la muestra mencionada anteriormente, se realizó un estudio sobre la influencia que el burnout y esas variables sociodemográficas podían ejercer sobre la prescripción de bajas laborales. Se utilizó el paquete estadístico SPSS, realizándose dos métodos estadísticos diferentes. Resultados: El primer método arrojó los siguientes resultados: la oportunidad de padecer grado alto de cansancio emocional se asocia de forma significativa (pObjetive: Find the level of work satisfaction in a sample of doctors inside a mutual society of industrial accidents and occupational diseases (MATEPSS. In this report, the relation between work satisfaction, socio-demographics and industrial factors, and its influence on temporary sick leave is shown. Teaching aid and method: A transverse study has been carried out on a final sample of 156 doctors (whole sample: 250 doctors belonging to MATEPSS. The doctors are distributed in all Spanish geography. "The Maslach burnout inventory" was given to them. This questionnaire measures the burnout in its three sections: emotional tiredness, depersonalization and personal accomplishment. Another questionnaire was given also to them. This one, elaborated by the author, measures socio-demographics variables. On 131 doctors of the previous

  14. DINAMIKA SPASIAL DAN TEMPORAL STRUKTUR KOMUNITAS ZOOPLANKTON DI TELUK JAKARTA

    Directory of Open Access Journals (Sweden)

    Masykhur Abdul Kadir

    2015-12-01

    Full Text Available Study of spatial and temporal dynamics of zooplankton community structure in the Jakarta Bay. The purpose are analyzing the abundance, distribution, diversity, and dominance index with indicators of water quality spatial and temporal waters of Jakarta Bay. The research was conducted from July-October 2013. Sampling was done four times (July, August, September, and October. The water quality was analysed by Laboratory Productivity and Water Environment at Department of Resources Management, Faculty of Fisheries and Marine Sciences, Bogor Agricultural University. Zooplankton were analyzed using the method of enumeration (census SRC, in Micro Biology Laboratory Faculty. Based on the distribution patterns were its indicates that the landward dissolved oxygen (DO is increasingly high, especially in August, September, and October, and increase the abundance of zooplankton as much as 1.3106 Ind/m3. DO with a high spatial concentration value reaches the range of 6.2-14.5 mg/L in Muara Marunda (Station 10, and increase the abundance of zooplankton as much as 5.1106 Ind/m3, with a majority composition of crustacea. Results of classification was diversity moderate, stable uniformity, and high dominance index.

  15. Semantics of Temporal Models with Multiple Temporal Dimensions

    DEFF Research Database (Denmark)

    Kraft, Peter; Sørensen, Jens Otto

    Semantics of temporal models with multi temporal dimensions are examined progressing from non-temporal models unto uni-temporal, and further unto bi- and tri-temporal models. An example of a uni-temporal model is the valid time model, an example of a bi-temporal model is the valid time/transactio...

  16. Bacterial diversity characterization in petroleum samples from Brazilian reservoirs Caracterização da diversidade bacteriana em amostras de petróleo provenientes de reservatórios brasileiros

    Directory of Open Access Journals (Sweden)

    Valéria Maia de Oliveira

    2008-09-01

    Full Text Available This study aimed at evaluating potential differences among the bacterial communities from formation water and oil samples originated from biodegraded and non-biodegraded Brazilian petroleum reservoirs by using a PCR-DGGE based approach. Environmental DNA was isolated and used in PCR reactions with bacterial primers, followed by separation of 16S rDNA fragments in the DGGE. PCR products were also cloned and sequenced, aiming at the taxonomic affiliation of the community members. The fingerprints obtained allowed the direct comparison among the bacterial communities from oil samples presenting distinct degrees of biodegradation, as well as between the communities of formation water and oil sample from the non-biodegraded reservoir. Very similar DGGE band profiles were observed for all samples, and the diversity of the predominant bacterial phylotypes was shown to be low. Cloning and sequencing results revealed major differences between formation water and oil samples from the non-biodegraded reservoir. Bacillus sp. and Halanaerobium sp. were shown to be the predominant components of the bacterial community from the formation water sample, whereas the oil sample also included Alicyclobacillus acidoterrestris, Rhodococcus sp., Streptomyces sp. and Acidithiobacillus ferrooxidans. The PCR-DGGE technique, combined with cloning and sequencing of PCR products, revealed the presence of taxonomic groups not found previously in these samples when using cultivation-based methods and 16S rRNA gene library assembly, confirming the need of a polyphasic study in order to improve the knowledge of the extent of microbial diversity in such extreme environments.Este estudo teve como objetivo comparar as comunidades bacterianas de amostras de água de formação e de óleo de reservatórios de petróleo brasileiros com diferentes graus de biodegradação usando a técnica de PCR-DGGE. O DNA ambiental foi isolado e empregado em reações de PCR com primers bacterianos

  17. Identity, Diversity and Diversity Management

    DEFF Research Database (Denmark)

    Holck, Lotte; Muhr, Sara Louise; Villeseche, Florence

    2016-01-01

    The purpose of this paper is to examine the relationship between the identity and diversity literatures and discuss how a better understanding of the theoretical connections between the two informs both diversity research and diversity management practices. Design/methodology/approach – Literature...... review followed by a discussion of the theoretical and practical consequences of connecting the identity and diversity literatures. Findings – The authors inform future research in three ways. First, by showing how definitions of identity influence diversity theorizing in specific ways. Second...... and limitations – is crucial for successful diversity management research and practice. Research limitations/implications – The authors argue for a better understanding of differences, overlaps and limits of different identity perspectives, and for a stronger engagement with practice. Practical implications...

  18. Temporal changes in cutaneous bacterial communities of terrestrial- and aquatic-phase newts (Amphibia).

    Science.gov (United States)

    Sabino-Pinto, Joana; Galán, Pedro; Rodríguez, Silvia; Bletz, Molly C; Bhuju, Sabin; Geffers, Robert; Jarek, Michael; Vences, Miguel

    2017-08-01

    Animal-associated bacterial communities play essential roles for their host's ecology, physiology and health. Temporal dynamics of these communities are poorly understood, but might be of high relevance for amphibians with a well-expressed biphasic biology of adults where the structure of their skin changes drastically between the aquatic and terrestrial phases. Here, we investigated the temporal dynamics of cutaneous bacterial communities of Lissotriton boscai and Triturus marmoratus by monthly sampling populations from a pond and surrounding terrestrial habitats near A Coruña, Spain. These communities were characterized by 16S rRNA gene amplicons from DNA isolated from skin swabs. Newt bacterial communities displayed variation at three levels: between larvae and aquatic adults, between adult life phases (terrestrial versus aquatic), and temporally within life phases. The skin bacterial communities tended to differ to a lesser extent temporally and between larvae and adults, and more strongly between life phases. Larvae had a higher proportion of reads associated with antifungal taxa compared with adults, while no differences were found among adult life phases. Terrestrial specimens exhibited the highest community diversity. The regular transitions of adult newts between aquatic and terrestrial environments might contribute to the diversity of their skin microbiota and could increase disease resistance. © 2017 Society for Applied Microbiology and John Wiley & Sons Ltd.

  19. Diversity Management

    DEFF Research Database (Denmark)

    Ravazzani, Silvia

    2018-01-01

    This entry provides an overview of diversity management which, in the context of organizations, consists in the strategic process of harnessing the potential of all employees to create an inclusive environment and, at the same time, contribute to meeting organizational goals. The entry first...... describes the complex construct of diversity that has been variously conceptualized in the literature, embracing multiple social and informational diversity dimensions such as gender, age, culture, values, and workstyle. This is followed by illustration of the historical development of diversity-management...... discourse and practice, and possible overarching approaches guiding organizations. It goes on to elucidate elements linked to the implementation of diversity management: positive and negative outcomes, most spread practices including communication, and contingency factors shaping the understanding...

  20. Disentangling seasonal bacterioplankton population dynamics by high-frequency sampling.

    Science.gov (United States)

    Lindh, Markus V; Sjöstedt, Johanna; Andersson, Anders F; Baltar, Federico; Hugerth, Luisa W; Lundin, Daniel; Muthusamy, Saraladevi; Legrand, Catherine; Pinhassi, Jarone

    2015-07-01

    Multiyear comparisons of bacterioplankton succession reveal that environmental conditions drive community shifts with repeatable patterns between years. However, corresponding insight into bacterioplankton dynamics at a temporal resolution relevant for detailed examination of variation and characteristics of specific populations within years is essentially lacking. During 1 year, we collected 46 samples in the Baltic Sea for assessing bacterial community composition by 16S rRNA gene pyrosequencing (nearly twice weekly during productive season). Beta-diversity analysis showed distinct clustering of samples, attributable to seemingly synchronous temporal transitions among populations (populations defined by 97% 16S rRNA gene sequence identity). A wide spectrum of bacterioplankton dynamics was evident, where divergent temporal patterns resulted both from pronounced differences in relative abundance and presence/absence of populations. Rates of change in relative abundance calculated for individual populations ranged from 0.23 to 1.79 day(-1) . Populations that were persistently dominant, transiently abundant or generally rare were found in several major bacterial groups, implying evolution has favoured a similar variety of life strategies within these groups. These findings suggest that high temporal resolution sampling allows constraining the timescales and frequencies at which distinct populations transition between being abundant or rare, thus potentially providing clues about physical, chemical or biological forcing on bacterioplankton community structure. © 2014 Society for Applied Microbiology and John Wiley & Sons Ltd.

  1. Managing biological diversity

    Science.gov (United States)

    Samson, Fred B.; Knopf, Fritz L.

    1993-01-01

    viewing issues across biological, spatial, and temporal scales (Knopf and Smith 1992), natural resource managers find much conflicting information in the literature on strategies and programs for the conservation of biological diversity (Ehrlich 1992). Moreover, recommendations provided in much of the published information available for planning or decisions not only can be debated but may prove counterproductive if implemented. Current operational efforts beg for clearer focus on fundamental concepts central to daily decisions that impact native biological diversity. Recognizing that many biologists would provide different council and at the risk of oversimplification, we offer the following 4 topical issues as fundamental guidance to wise conservation action. These recommendations are based on our collective experiences working within conservation agencies since our original, collaborative essay (Samson and Knopf 1982). They are offered as initial, rather than authoritative, steps to better align research and management decisions with what we perceive as the critical issues in conserving biological diversity at the landscape and ecosystem levels of resolution.

  2. Gender Diversities

    DEFF Research Database (Denmark)

    Agustin, Lise Rolandsen; Siim, Birte

    2014-01-01

    The article analyses the European Year for Combating Poverty and Social Exclusion (2010) (EY 2010) with the aim of identifying the nature of gender diversities in EU policies. We argue that the EU handles issues related to gender and diversity in particular ways; this approach is characterized...... by non-citizen/citizen and redistribution/recognition divisions. Employing intersectionality as the methodological approach to gender diversities, the article shows how gender and ethnicity are articulated in the policy-making process which led to the adoption of EY 201, the activities undertaken during...... the EY 2010, and the evaluation of EY 2010. The case study is suitable for developing a dynamic multi-level model for analysing gendered diversities at the transnationmal level: It illustrates how the EU policy frame interacts with particular national contexts in promoting or hundering the advancement...

  3. Ecological diversity

    National Research Council Canada - National Science Library

    Pielou E. C

    1975-01-01

    The richness and variety-in a word, the diversity-of natural ecological communities have never been more highly valued than they are now, as they become increasingly threatened by the environmental crisis...

  4. Understanding Diversity

    NARCIS (Netherlands)

    D.L. van Knippenberg (Daan)

    2007-01-01

    textabstractDaan van Knippenberg is Professor of Organizational Behavior at RSM Erasmus University, Erasmus University Rotterdam, The Netherlands. His research interests include work group performance, especially work group diversity and group decision making, leadership, in particular the roles of

  5. Temporal Coding of Volumetric Imagery

    Science.gov (United States)

    Llull, Patrick Ryan

    'Image volumes' refer to realizations of images in other dimensions such as time, spectrum, and focus. Recent advances in scientific, medical, and consumer applications demand improvements in image volume capture. Though image volume acquisition continues to advance, it maintains the same sampling mechanisms that have been used for decades; every voxel must be scanned and is presumed independent of its neighbors. Under these conditions, improving performance comes at the cost of increased system complexity, data rates, and power consumption. This dissertation explores systems and methods capable of efficiently improving sensitivity and performance for image volume cameras, and specifically proposes several sampling strategies that utilize temporal coding to improve imaging system performance and enhance our awareness for a variety of dynamic applications. Video cameras and camcorders sample the video volume (x,y,t) at fixed intervals to gain understanding of the volume's temporal evolution. Conventionally, one must reduce the spatial resolution to increase the framerate of such cameras. Using temporal coding via physical translation of an optical element known as a coded aperture, the compressive temporal imaging (CACTI) camera emonstrates a method which which to embed the temporal dimension of the video volume into spatial (x,y) measurements, thereby greatly improving temporal resolution with minimal loss of spatial resolution. This technique, which is among a family of compressive sampling strategies developed at Duke University, temporally codes the exposure readout functions at the pixel level. Since video cameras nominally integrate the remaining image volume dimensions (e.g. spectrum and focus) at capture time, spectral (x,y,t,lambda) and focal (x,y,t,z) image volumes are traditionally captured via sequential changes to the spectral and focal state of the system, respectively. The CACTI camera's ability to embed video volumes into images leads to exploration

  6. Temporal variation of epi- and endofaunal assemblages associated with the red sponge Tedania ignis on a rocky shore (São Sebastião Channel, SE Brazil

    Directory of Open Access Journals (Sweden)

    Fosca P. P. Leite

    2016-01-01

    Full Text Available ABSTRACT Sponges are biogenic substrates that increase the available space on rocky shores and provide shelter for many groups of the benthic fauna, which can live both inside and on these sessile invertebrates. In order to assess the differences in temporal variation of endobiont and epibiont groups, samples of the red sponge Tedania ignis (Duchassaing & Michelotti, 1864 were obtained each month for one year. The density, richness and diversity of endobiont and epibiont groups were analyzed in relation to abiotic factors. The dry mass of the sponge was negatively correlated with the density of individuals in both groups and positively with the diversity of endobionts, while organic matter was positively correlated with the diversity of epibionts. Endobiont diversity was more highly correlated with intrinsic factors of the sponge, whereas the diversity of epibionts was more highly correlated with factors related to the surrounding environment.

  7. Association of host and microbial species diversity across spatial scales in desert rodent communities.

    Science.gov (United States)

    Gavish, Yoni; Kedem, Hadar; Messika, Irit; Cohen, Carmit; Toh, Evelyn; Munro, Daniel; Dong, Qunfeng; Fuqua, Clay; Clay, Keith; Hawlena, Hadas

    2014-01-01

    Relationships between host and microbial diversity have important ecological and applied implications. Theory predicts that these relationships will depend on the spatio-temporal scale of the analysis and the niche breadth of the organisms in question, but representative data on host-microbial community assemblage in nature is lacking. We employed a natural gradient of rodent species richness and quantified bacterial communities in rodent blood at several hierarchical spatial scales to test the hypothesis that associations between host and microbial species diversity will be positive in communities dominated by organisms with broad niches sampled at large scales. Following pyrosequencing of rodent blood samples, bacterial communities were found to be comprised primarily of broad niche lineages. These communities exhibited positive correlations between host diversity, microbial diversity and the likelihood for rare pathogens at the regional scale but not at finer scales. These findings demonstrate how microbial diversity is affected by host diversity at different spatial scales and suggest that the relationships between host diversity and overall disease risk are not always negative, as the dilution hypothesis predicts.

  8. Association of host and microbial species diversity across spatial scales in desert rodent communities.

    Directory of Open Access Journals (Sweden)

    Yoni Gavish

    Full Text Available Relationships between host and microbial diversity have important ecological and applied implications. Theory predicts that these relationships will depend on the spatio-temporal scale of the analysis and the niche breadth of the organisms in question, but representative data on host-microbial community assemblage in nature is lacking. We employed a natural gradient of rodent species richness and quantified bacterial communities in rodent blood at several hierarchical spatial scales to test the hypothesis that associations between host and microbial species diversity will be positive in communities dominated by organisms with broad niches sampled at large scales. Following pyrosequencing of rodent blood samples, bacterial communities were found to be comprised primarily of broad niche lineages. These communities exhibited positive correlations between host diversity, microbial diversity and the likelihood for rare pathogens at the regional scale but not at finer scales. These findings demonstrate how microbial diversity is affected by host diversity at different spatial scales and suggest that the relationships between host diversity and overall disease risk are not always negative, as the dilution hypothesis predicts.

  9. Extracting temporal information from electronic patient records.

    Science.gov (United States)

    Li, Min; Patrick, Jon

    2012-01-01

    A method for automatic extraction of clinical temporal information would be of significant practical importance for deep medical language understanding, and a key to creating many successful applications, such as medical decision making, medical question and answering, etc. This paper proposes a rich statistical model for extracting temporal information from an extremely noisy clinical corpus. Besides the common linguistic, contextual and semantic features, the highly restricted training sample expansion and the structure distance between the temporal expression & related event expressions are also integrated into a supervised machine-learning approach. The learning method produces almost 80% F- score in the extraction of five temporal classes, and nearly 75% F-score in identifying temporally related events. This process has been integrated into the document-processing component of an implemented clinical question answering system that focuses on answering patient-specific questions (See demonstration at http://hitrl.cs.usyd.edu.au/ICNS/).

  10. Inductive Temporal Logic Programming

    OpenAIRE

    Kolter, Robert

    2009-01-01

    We study the extension of techniques from Inductive Logic Programming (ILP) to temporal logic programming languages. Therefore we present two temporal logic programming languages and analyse the learnability of programs from these languages from finite sets of examples. In first order temporal logic the following topics are analysed: - How can we characterize the denotational semantics of programs? - Which proof techniques are best suited? - How complex is the learning task? In propositional ...

  11. Indeterministic Temporal Logic

    Directory of Open Access Journals (Sweden)

    Trzęsicki Kazimierz

    2015-09-01

    Full Text Available The questions od determinism, causality, and freedom have been the main philosophical problems debated since the beginning of temporal logic. The issue of the logical value of sentences about the future was stated by Aristotle in the famous tomorrow sea-battle passage. The question has inspired Łukasiewicz’s idea of many-valued logics and was a motive of A. N. Prior’s considerations about the logic of tenses. In the scheme of temporal logic there are different solutions to the problem. In the paper we consider indeterministic temporal logic based on the idea of temporal worlds and the relation of accessibility between them.

  12. Spatial and temporal dynamics of stink bugs in southeastern farmscapes.

    Science.gov (United States)

    Pilkay, Grant L; Reay-Jones, Francis P F; Toews, Michael D; Greene, Jeremy K; Bridges, William C

    2015-01-01

    A 3-yr study (2009-2011) was conducted to examine the spatial and temporal dynamics of stink bugs in three commercial farmscapes. Study locations were replicated in South Carolina and Georgia, in an agriculturally diverse region known as the southeastern coastal plain. Crops included wheat, Triticum aestivum (L.), corn, Zea mays (L.), soybean, Glycine max (L.), cotton, Gossypium hirsutum (L.), and peanut, Arachis hypogaea (L.). Farmscapes were sampled weekly using whole-plant examinations for corn, with all other crops sampled using sweep nets. The predominant pest species of phytophagous stink bugs were the brown stink bug, Euschistus servus (Say), the green stink bug, Chinavia hilaris (Say), and the southern green stink bug, Nezara viridula (L.). Chi-square tests indicated a departure from a normal distribution in 77% of analyses of the variance to mean ratio, with 37% of slopes of Taylor's power law and 30% of coefficient β of Iwao's patchiness regression significantly greater than one, indicating aggregated distributions. Spatial Analyses by Distance IndicEs (SADIE) indicated aggregated patterns of stink bugs in 18% of year-end totals and 42% of weekly counts, with 80% of adults and nymphs positively associated using the SADIE association tool. Maximum stink bug densities in each crop occurred when the plants were producing fruit. Stink bugs exhibited greater densities in crops adjacent to soybean in Barnwell and Lee Counties compared with crops adjacent to corn or fallow areas. The diversity of crops and relatively small size of fields in the Southeast leads to colonization of patches within a farmscape. The ecological and management implications of the spatial and temporal distribution of stink bugs within farmscapes are discussed. © The Author 2015. Published by Oxford University Press on behalf of the Entomological Society of America.

  13. Y-CHROMOSOMAL STR HAPLOTYPE DIVERSITY IN A SAMPLE FROM THE METROPOLITAN AREA OF BUENOS AIRES (ARGENTINA/Diversidad de Haplotipos del cromosoma Y en una muestra del área metropolitana de Buenos Aires (Argentina

    Directory of Open Access Journals (Sweden)

    Maria Laura Parolin

    2012-11-01

    Full Text Available El objetivo de este trabajo fue analizar el origen de los haplotipos del cromosoma Y en una muestra poblacional del Área Metropolitana de Buenos Aires (AMBA, y comparar estos resultados con los obtenidos previamente a nivel mitocondrial. Se determinaron 17 marcadores Y-STRs en 85 donantes no emparentados. Un total de 85 haplotipos únicos fueron observados. La diversidad haplotípica  fue de 1,000+/-0.0018, y la diversidad genética media de 0,680+/-0,095. Los linajes paternos evidenciaron una homogeneidad genética de raíces Europeas (93%, procedentes principalmente de Italia y España. La contribución amerindia paterna asociada al sub-haplogrupo Q1a3a fue relativamente baja (6%. La menor proporción de haplotipos amerindios y el elevado número de linajes maternos (44% de ese origen, revela que ha habido un aporte diferencial por género en la historia de mestizaje de esa población. Se observó un único perfil E1b1a, el cual es predominante en  África subsahariana. Estos datos, conjuntamente con la información histórica y demográfica, nos permite afirmar que el bajo aporte amerindio y subsahariano observado en  la muestra del AMBA, sería el resultado de las migraciones recientes, iniciadas a mediados del siglo XX, principalmente desde el norte de Argentina y de países limítrofes de elevada composición nativa y, en menor medida, africana. Abstract The aim of this work was to analyze the origin of Y-chromosome haplotypes in a sample from Buenos Aires Metropolitan Area (BAMA, and compare these results with those obtained at a mitochondrial level. In order to reach this objective, 17 Y-STRs were determined from 85 unrelated blood donors. A total of 85 unique haplotypes were observed. The haplotype diversity was 1.000+/-0.0018, and the average genetic diversity 0.680+/-0.095. Paternal lineages showed a genetic homogeneity of European roots (93%, mainly from Italy and Spain. Amerindian paternal contribution associated to sub

  14. Temporal Ontologies for Geoscience: Alignment Challenges

    Science.gov (United States)

    Cox, S. J. D.

    2014-12-01

    Time is a central concept in geoscience. Geologic histories are composed of sequences of geologic processes and events. Calibration of their timing ties a local history into a broader context, and enables correlation of events between locations. The geologic timescale is standardized in the International Chronostratigraphic Chart, which specifies interval names, and calibrations for the ages of the interval boundaries. Time is also a key concept in the world at large. A number of general purpose temporal ontologies have been developed, both stand-alone and as parts of general purpose or upper ontologies. A temporal ontology for geoscience should apply or extend a suitable general purpose temporal ontology. However, geologic time presents two challenges: Geology involves greater spans of time than in other temporal ontologies, inconsistent with the year-month-day/hour-minute-second formalization that is a basic assumption of most general purpose temporal schemes; The geologic timescale is a temporal topology. Its calibration in terms of an absolute (numeric) scale is a scientific issue in its own right supporting a significant community. In contrast, the general purpose temporal ontologies are premised on exact numeric values for temporal position, and do not allow for temporal topology as a primary structure. We have developed an ontology for the geologic timescale to account for these concerns. It uses the ISO 19108 distinctions between different types of temporal reference system, also linking to an explicit temporal topology model. Stratotypes used in the calibration process are modelled as sampling-features following the ISO 19156 Observations and Measurements model. A joint OGC-W3C harmonization project is underway, with standardization of the W3C OWL-Time ontology as one of its tasks. The insights gained from the geologic timescale ontology will assist in development of a general ontology capable of modelling a richer set of use-cases from geoscience.

  15. Diverse Multilateralism

    DEFF Research Database (Denmark)

    Wuthnow, Joel; Li, Xin; Qi, Lingling

    2012-01-01

    in both the economic and security domains, the article argues that China’s multilateralism is diverse, and that it cannot be un-problematically characterized as either status-quo or revisionist in nature. However, the general trend appears to be towards engagement, but with an assertive tact as China...

  16. Generational diversity.

    Science.gov (United States)

    Kramer, Linda W

    2010-01-01

    Generational diversity has proven challenges for nurse leaders, and generational values may influence ideas about work and career planning. This article discusses generational gaps, influencing factors and support, and the various generational groups present in today's workplace as well as the consequences of need addressing these issues. The article ends with a discussion of possible solutions.

  17. Discovering Diversity.

    Science.gov (United States)

    Manner, Barbara M.; Hattler, Jean Anne

    2000-01-01

    Introduces a preservice teacher field trip to the rain forests and coastal areas. This experience develops an awareness for different cultures among preservice teachers by experiencing biological and cultural diversity in Costa Rica. Presents students' own ideas on this experience. (YDS)

  18. Representative Diversity.

    Science.gov (United States)

    Jacklin, Phil

    1978-01-01

    Presents eight propositions for different kinds of diversity, in order of importance, based on relevance to democracy; specifically, relevance to openness in the marketplace of ideas, and to creation of the system of communications which is least restrictive of freedom of speech and of the press. (JMF)

  19. Large effective population size and temporal genetic stability in Atlantic cod (Gadus morhua) in the southern Gulf of St. Lawrence

    DEFF Research Database (Denmark)

    Therkildsen, Nina Overgaard; Eg Nielsen, Einar; Swain, Douglas P.

    2010-01-01

    compares the genetic variability at nine microsatellite loci in a Canadian population of Atlantic cod (Gadus morhua) over 80 years, spanning from before the fishery intensified to now when the population is at historically low abundance. Extensively validated genetic data from the temporally spaced samples......Worldwide, many commercial fish stocks have experienced dramatic declines due to overfishing. Such fisheries-induced population reductions could potentially erode the genetic diversity of marine fish populations. Based on analyses of DNA extracted from archived and contemporary samples, this paper...

  20. Environmental Gradient Favours Functionally Diverse Macrobenthic Community in a Placer Rich Tropical Bay

    Directory of Open Access Journals (Sweden)

    S. K. Sivadas

    2013-01-01

    Full Text Available The present paper examines the functional diversity-environment relation in a placer rich tropical bay. Understanding the environmental variables that determine the biodiversity pattern will help in the effective conservation plans of coastal habitat. However, few studies have been carried out on the biodiversity-environment relation from the diverse tropical coastal ecosystem. The geographic location of Kalbadevi Bay along the west coast of India provides an opportunity to study the functional diversity pattern of macrofauna along an environmental gradient. Additionally, the area is also a potential placer mining site. Seasonal sampling was carried out for macrofauna and environmental variables. Macrofaunal functional diversity showed significant temporal variation related to the environmental parameters. The most important environmental variables were organic matter and sediment texture. Filter feeders dominated during postmonsoon which is a period when the water column is enriched with sinking detritus. The deposit feeders which rapidly ingest the settled detritus and also transport it to deeper sediment for the subsurface deposit feeders dominated during premonsoon. Abundance of carnivores was high during premonsoon, a response to increase in food in terms of deposit feeders. The result thus indicates that the temporal environmental variation influenced the macrofaunal functional diversity pattern in the Kalbadevi Bay.

  1. Temporal properties of stereopsis

    NARCIS (Netherlands)

    Gheorghiu, E.

    2005-01-01

    The goal of the research presented in this thesis was to investigate temporal properties of disparity processing and depth perception in human subjects, in response to dynamic stimuli. The results presented in various chapters, reporting findings about different temporal aspects of disparity

  2. Temporal Linear System Structure

    NARCIS (Netherlands)

    Willigenburg, van L.G.; Koning, de W.L.

    2008-01-01

    Piecewise constant rank systems and the differential Kalman decomposition are introduced in this note. Together these enable the detection of temporal uncontrollability/unreconstructability of linear continuous-time systems. These temporal properties are not detected by any of the four conventional

  3. Temporal interpolation in Meteosat images

    DEFF Research Database (Denmark)

    Larsen, Rasmus; Hansen, Johan Dore; Ersbøll, Bjarne Kjær

    The geostationary weather satellite Meteosat supplies us with a visual and an infrared image of the earth every 30 minutes. However, due to transmission error s some images may be missing. European TV weather reports are often supported by such infrared image sequences. The cloud movements...... in such animated films are perceived as being jerky due to t he low temporal sampling rate in general and missing images in particular. In order to perform a satisfactory temporal interpolation we estimate and use the optical flow corresponding to every image in the sequenc e. The estimation of the optical flow...... is based on images sequences where the clouds are segmented from the land/water that might a lso be visible in the images. Because the pixel values measured correspond directly to temperature and because clouds (normally) are colder than land/water we use an estimated lan d temperature map to perform...

  4. Temporal correlations in social multiplex networks

    CERN Document Server

    Starnini, Michele; Pastor-Satorras, Romualdo

    2016-01-01

    Social interactions are composite, involve different communication layers and evolve in time. However, a rigorous analysis of the whole complexity of social networks has been hindered so far by lack of suitable data. Here we consider both the multi-layer and dynamic nature of social relations by analysing a diverse set of empirical temporal multiplex networks. We focus on the measurement and characterization of inter-layer correlations to investigate how activity in one layer affects social acts in another layer. We define observables able to detect when genuine correlations are present in empirical data, and single out spurious correlation induced by the bursty nature of human dynamics. We show that such temporal correlations do exist in social interactions where they act to depress the tendency to concentrate long stretches of activity on the same layer and imply some amount of potential predictability in the connection patterns between layers. Our work sets up a general framework to measure temporal correl...

  5. Identification and conservation application of signal, noise, and taxonomic effects in diversity patterns

    Directory of Open Access Journals (Sweden)

    Fleishman, E.

    2005-01-01

    Full Text Available Ongoing research on butterflies and birds in the Great Basin has identified biogeographic patterns while elucidating how dynamic measures of diversity (species richness and turnover affect inferences for conservation planning and adaptive management. Nested subsets analyses suggested that processes influencing predictability of assemblage composition differ among taxonomic groups, and the relative importance of those processes may vary spatially within a taxonomic group. There may be a time lag between deterministic environmental changes and a detectable faunal response, even for taxonomic groups that are known to be sensitive to changes in climate and land cover. Measures of beta diversity were sensitive to correlations between sampling resolution and local environmental heterogeneity. Temporal and spatial variation in species composition indicated that spatially extensive sampling is more effective for drawing inferences about biodiversity responses to environmental change than intensive sampling at relatively few, smaller sites.

  6. SPATIO-TEMPORAL VARIATIONS IN MACROINVERTEBRATE ASSEMBLAGES OF NEW CALEDONIAN STREAMS.

    Directory of Open Access Journals (Sweden)

    MARY N. J.

    2002-01-01

    Full Text Available Forty-one sites located on 14 New Caledonian streams were surveyed four times between October 1996 and October 1997 in order to examine the spatial and temporal changes in the structure of the benthic macroinvertebrate communities. About 250 000 invertebrates representing 167 taxa were collected in the streams. Seventy-five percent of identified taxa and 67% of individuals were insects. Major spatial and temporal changes in the composition of the fauna were detected by multivariate analyses (ordination and classification. Overall, the number of individuals was significantly higher in the dry season (October than in the wetter seasons (January and June. However, a low temporal variability was detected in the structure of benthic communities during the sampling period. A cluster analysis based on taxonomic composition separated five groups of sites in relation with rock type, land use, and geographic characteristics. Several metrics (total invertebrate density, taxon richness, relative abundance of major invertebrate groups, diversity indices were used to characterize each group of sites. Forested streams, where the highest specific diversity occurred, represented the most speciose habitat for benthic fauna. A less rich and abundant fauna occurred in streams draining ultramafic rocks probably because of their low content in food resources and organic matter.

  7. Temporal properties of stereopsis

    Science.gov (United States)

    Gheorghiu, E.

    2005-03-01

    The goal of the research presented in this thesis was to investigate temporal properties of disparity processing and depth perception in human subjects, in response to dynamic stimuli. The results presented in various chapters, reporting findings about different temporal aspects of disparity processing, are based on psychophysical experiments and computational model analysis. In chapter 1 we investigated which processes of binocular depth perception in dynamic random-dot stereograms (DRS), i.e., tolerance for interocular delays and temporal integration of correlation, are responsible for the temporal flexibility of the stereoscopic system. Our results demonstrate that (i) disparities from simultaneous monocular inputs dominate those from interocular delayed inputs; (ii) stereopsis is limited by temporal properties of monocular luminance mechanisms; (iii) depth perception in DRS results from cross-correlation-like operation on two simultaneous monocular inputs that represent the retinal images after having been subjected to a process of monocular temporal integration of luminance. In chapter 2 we examined what temporal information is exploited by the mechanisms underlying stereoscopic motion in depth. We investigated systematically the influence of temporal frequency on binocular depth perception in temporally correlated and temporally uncorrelated DRS. Our results show that disparity-defined depth is judged differently in temporally correlated and uncorrelated DRS above a temporal frequency of about 3 Hz. The results and simulations indicate that: (i) above about 20 Hz, the complete absence of stereomotion is caused by temporal integration of luminance; (ii) the difference in perceived depth in temporally correlated and temporally uncorrelated DRS for temporal frequencies between 20 and 3 Hz, is caused by temporal integration of disparity. In chapter 3 we investigated temporal properties of stereopsis at different spatial scales in response to sustained and

  8. Troubling Diversity?

    DEFF Research Database (Denmark)

    Jæger, Kirsten; Jensen, Annie Aarup

    2009-01-01

    are related to recent contributions to diversity management theory and intercultural communication theory, calling for a strengthened focus on the historical, political, and social dimensions of intercultural contact. In continuation of these trends, an alternative, theoretical framework......Focussing on the cultural encounter between nurses and ethnic minority patients in Danish hospitals, this paper presents the results of a comprehensive analysis of nursing discourses on cultural difference and intercultural contact. Articles from the Danish professional journal ‘The Nurse......', published in the period from 2000 to 2008, pertaining to cultural contact and intercultural understanding have been analyzed in order to uncover nurses' experience of ethnic and cultural diversity and the ways, in which these experiences challenge their cultural and professional expertise. Results...

  9. Towards Temporal Graph Databases

    OpenAIRE

    Campos, Alexander; Mozzino, Jorge; Vaisman, Alejandro

    2016-01-01

    In spite of the extensive literature on graph databases (GDBs), temporal GDBs have not received too much attention so far. Temporal GBDs can capture, for example, the evolution of social networks across time, a relevant topic in data analysis nowadays. In this paper we propose a data model and query language (denoted TEG-QL) for temporal GDBs, based on the notion of attribute graphs. This allows a straightforward translation to Neo4J, a well-known GBD. We present extensive examples of the use...

  10. Coral-Associated Actinobacteria: Diversity, Abundance, and Biotechnological Potentials.

    Science.gov (United States)

    Mahmoud, Huda M; Kalendar, Aisha A

    2016-01-01

    Marine Actinobacteria, particularly coral-associated Actinobacteria, have attracted attention recently. In this study, the abundance and diversity of Actinobacteria associated with three types of coral thriving in a thermally stressed coral reef system north of the Arabian Gulf were investigated. Coscinaraea columna, Platygyra daedalea and Porites harrisoni have been found to harbor equivalent numbers of culturable Actinobacteria in their tissues but not in their mucus. However, different culturable actinobacterial communities have been found to be associated with different coral hosts. Differences in the abundance and diversity of Actinobacteria were detected between the mucus and tissue of the same coral host. In addition, temporal and spatial variations in the abundance and diversity of the cultivable actinobacterial communities were detected. In total, 19 different actinobacterial genera, namely Micrococcus, Brachybacterium, Brevibacterium, Streptomyces, Micromonospora, Renibacterium, Nocardia, Microbacterium, Dietzia, Cellulomonas, Ornithinimicrobium, Rhodococcus, Agrococcus, Kineococcus, Dermacoccus, Devriesea, Kocuria, Marmoricola, and Arthrobacter, were isolated from the coral tissue and mucus samples. Furthermore, 82 isolates related to Micromonospora, Brachybacterium, Nocardia, Micrococcus, Arthrobacter, Rhodococcus, and Streptomyces showed antimicrobial activities against representative Gram-positive and/or Gram-negative bacteria. Even though Brevibacterium and Kocuria were the most dominant actinobacterial isolates, they failed to show any antimicrobial activity, whereas less dominant genera, such as Streptomyces, did show antimicrobial activity. Focusing on the diversity of coral-associated Actinobacteria may help to understand how corals thrive under harsh environmental conditions and may lead to the discovery of novel antimicrobial metabolites with potential biotechnological applications.

  11. Temporal Lobe Seizure

    Science.gov (United States)

    ... pregnancy Temporal lobe seizure Symptoms & causes Diagnosis & treatment Advertisement Mayo Clinic does not endorse companies or products. ... a Job Site Map About This Site Twitter Facebook Google YouTube Pinterest Mayo Clinic is a not- ...

  12. Temporal Lobe Seizure

    Science.gov (United States)

    ... functions, including having odd feelings — such as euphoria, deja vu or fear. During a temporal lobe seizure, you ... include: A sudden sense of unprovoked fear A deja vu experience — a feeling that what's happening has happened ...

  13. Multisensory temporal numerosity judgment

    NARCIS (Netherlands)

    Philippi, T.; Erp, J.B.F. van; Werkhoven, P.J.

    2008-01-01

    In temporal numerosity judgment, observers systematically underestimate the number of pulses. The strongest underestimations occur when stimuli are presented with a short interstimulus interval (ISI) and are stronger for vision than for audition and touch. We investigated if multisensory

  14. Neocortical Temporal Lobe Epilepsy

    Science.gov (United States)

    Bercovici, Eduard; Kumar, Balagobal Santosh; Mirsattari, Seyed M.

    2012-01-01

    Complex partial seizures (CPSs) can present with various semiologies, while mesial temporal lobe epilepsy (mTLE) is a well-recognized cause of CPS, neocortical temporal lobe epilepsy (nTLE) albeit being less common is increasingly recognized as separate disease entity. Differentiating the two remains a challenge for epileptologists as many symptoms overlap due to reciprocal connections between the neocortical and the mesial temporal regions. Various studies have attempted to correctly localize the seizure focus in nTLE as patients with this disorder may benefit from surgery. While earlier work predicted poor outcomes in this population, recent work challenges those ideas yielding good outcomes in part due to better localization using improved anatomical and functional techniques. This paper provides a comprehensive review of the diagnostic workup, particularly the application of recent advances in electroencephalography and functional brain imaging, in neocortical temporal lobe epilepsy. PMID:22953057

  15. Massive temporal lobe cholesteatoma

    National Research Council Canada - National Science Library

    Waidyasekara, Pasan; Dowthwaite, Samuel A; Stephenson, Ellison; Bhuta, Sandeep; McMonagle, Brent

    2015-01-01

    .... There had been no relevant symptoms in the interim until 6 weeks prior to this presentation. Imaging demonstrated a large right temporal lobe mass contiguous with the middle ear and mastoid cavity with features consistent with cholesteatoma...

  16. Massive Temporal Lobe Cholesteatoma

    National Research Council Canada - National Science Library

    Waidyasekara, Pasan; Dowthwaite, Samuel A; Stephenson, Ellison; Bhuta, Sandeep; McMonagle, Brent

    2015-01-01

    .... There had been no relevant symptoms in the interim until 6 weeks prior to this presentation. Imaging demonstrated a large right temporal lobe mass contiguous with the middle ear and mastoid cavity with features consistent with cholesteatoma...

  17. Doing Diversity

    DEFF Research Database (Denmark)

    Just, Sine Nørholm; Christiansen, Tanja Juul

    2012-01-01

    Questions of agency in text–audience relations are less studied than other aspects of rhetorical agency. We suggest conceptualizing and analyzing the relationship between texts and audiences from the perspective of performativity, as it has been developed by Judith Butler. Thus, we argue that texts...... invite audiences to take up subject positions, understood as combinations of identity and agency. Danish diversity management rhetoric functions as an illustrative example; in analyzing this type of rhetoric we show how subjects are called into restrained positions of similarity/difference and thereby...

  18. Fungal endophyte communities in the temperate fern Polystichum munitum show early colonization and extensive temporal turnover.

    Science.gov (United States)

    Younginger, Brett S; Ballhorn, Daniel J

    2017-08-16

    Fungal endophytes have been shown to colonize all land plants, yet surprisingly little attention has been given to their community composition in ferns. We examined the diversity and temporal turnover of fungal endophytes in foliar tissue of the temperate western sword fern, Polystichum munitum, comparing taxa in newly emerged leaflets and in the same fronds after 1 mo of exposure in the field. Utilizing next-generation sequencing, we sampled pinnae from P. munitum in spring, 2-3 d after they emerged. We additionally sampled pinnae 30 d later from the same fern blades. From these samples, we sequenced fungal DNA to characterize the initial colonization and temporal turnover of endophytes in the host. We demonstrate that P. munitum is abundantly colonized by endophytes in newly emerged foliar tissue. However, 1 mo later, the community composition undergoes a marked shift: the overall richness of endophytes increases, but the evenness of the community wanes as a single taxon, Flagellospora fusarioides, comes to dominate. We conclude that P. munitum hosts a variety of fungal endophyte taxa, similarly to other land plants. However, the rapid shift of the endophyte community we report is an unprecedented observation. Therefore, we further conclude that repeated sampling should be the standard in endophyte studies, because single sampling events are not sufficient to capture the dynamic nature of these cryptic microfungi. © 2017 Botanical Society of America.

  19. Population connectivity buffers genetic diversity loss in a seabird.

    Science.gov (United States)

    Ramírez, Oscar; Gómez-Díaz, Elena; Olalde, Iñigo; Illera, Juan Carlos; Rando, Juan Carlos; González-Solís, Jacob; Lalueza-Fox, Carles

    2013-05-20

    Ancient DNA has revolutionized conservation genetic studies as it allows monitoring of the genetic variability of species through time and predicting the impact of ecosystems' threats on future population dynamics and viability. Meanwhile, the consequences of anthropogenic activities and climate change to island faunas, particularly seabirds, remain largely unknown. In this study, we examined temporal changes in the genetic diversity of a threatened seabird, the Cory's shearwater (Calonectris borealis). We analysed the mitochondrial DNA control region of ancient bone samples from the late-Holocene retrieved from the Canary archipelago (NE Atlantic) together with modern DNA sequences representative of the entire breeding range of the species. Our results show high levels of ancient genetic diversity in the Canaries comparable to that of the extant population. The temporal haplotype network further revealed rare but recurrent long-distance dispersal between ocean basins. The Bayesian demographic analyses reveal both regional and local population size expansion events, and this is in spite of the demographic decline experienced by the species over the last millennia. Our findings suggest that population connectivity of the species has acted as a buffer of genetic losses and illustrate the use of ancient DNA to uncover such cryptic genetic events.

  20. Temporal species richness-biomass relationships along successional gradients

    Science.gov (United States)

    Guo, Q.

    2003-01-01

    Diversity-biomass relationships are frequently reported to be hump-shaped over space at a given time. However, it is not yet clear how diversity and biomass change simultaneously and how they are related to each other over time (e.g. in succession) at one locality. This study develops a temporal model based on the projected changes of various community variables in a generalized terrestrial environment after fire and uses post-fire succession data on Santa Monica Mountains of southern California and other published succession data to examine the temporal diversity-biomass relationships. The results indicate that in the early stages of succession, both diversity and biomass increase and a positive relationship appears, while in the late stages of succession, biomass continued to increase but diversity usually declines; thus a negative relationship may be observed. When the scales of measurement become sufficiently large so that the measured diversity and biomass cross various stages of succession, a 'hump-shaped' relationship can emerge. The diversity-biomass relationship appears to be concordant in space and time when appropriate scales are used. Formerly proposed explanations for spatial patterns may well apply to the temporal patterns (particularly colonization, facilitation and competitive exclusion).

  1. Biotic, temporal and spatial variability of tritium concentrations in transpirate samples collected in the vicinity of a near-surface low-level nuclear waste disposal site and nearby research reactor.

    Science.gov (United States)

    Twining, J R; Hughes, C E; Harrison, J J; Hankin, S; Crawford, J; Johansen, M; Dyer, L

    2011-06-01

    The results of a 21 month sampling program measuring tritium in tree transpirate with respect to local sources are reported. The aim was to assess the potential of tree transpirate to indicate the presence of sub-surface seepage plumes. Transpirate gathered from trees near low-level nuclear waste disposal trenches contained activity concentrations of (3)H that were significantly higher (up to ∼700 Bq L(-1)) than local background levels (0-10 Bq L(-1)). The effects of the waste source declined rapidly with distance to be at background levels within 10s of metres. A research reactor 1.6 km south of the site contributed significant (p nuclear waste site. Crown Copyright © 2011. Published by Elsevier Ltd. All rights reserved.

  2. Spatial variation buffers temporal fluctuations in early juvenile survival for an endangered Pacific salmon.

    Science.gov (United States)

    Thorson, James T; Scheuerell, Mark D; Buhle, Eric R; Copeland, Timothy

    2014-01-01

    Spatial, phenotypic and genetic diversity at relatively small scales can buffer species against large-scale processes such as climate change that tend to synchronize populations and increase temporal variability in overall abundance or production. This portfolio effect generally results in improved biological and economic outcomes for managed species. Previous evidence for the portfolio effect in salmonids has arisen from examinations of time series of adult abundance, but we lack evidence of spatial buffering of temporal variability in demographic rates such as survival of juveniles during their first year of life. We therefore use density-dependent population models with multiple random effects to represent synchronous (similar among populations) and asynchronous (different among populations) temporal variability as well as spatial variability in survival. These are fitted to 25 years of survey data for breeding adults and surviving juveniles from 15 demographically distinct populations of Chinook salmon (Oncorhynchus tshawytscha) within a single metapopulation in the Snake River in Idaho, USA. Model selection identifies the most support for the model that included both synchronous and asynchronous temporal variability, in addition to spatial variability. Asynchronous variability (log-SD = 0·55) is approximately equal in magnitude to synchronous temporal variability (log-SD = 0·67), but much lower than spatial variability (log-SD = 1·11). We also show that the pairwise correlation coefficient, a common measure of population synchrony, is approximated by the estimated ratio of shared and total variance, where both approaches yield a synchrony estimate of 0·59. We therefore find evidence for spatial buffering of temporal variability in early juvenile survival, although between-population variability that persists over time is also large. We conclude that spatial variation decreases interannual changes in overall