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  • 1
    Electronic Resource
    Electronic Resource
    Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project (2007)
    [s.l.] : Nature Publishing Group
    Nature 447 (2007), S. 799-816 
    Details
    ISSN: 1476-4687
    Source: Nature Archives 1869 - 2009
    Topics: Biology , Chemistry and Pharmacology , Medicine , Natural Sciences in General , Physics
    Notes: [Auszug] We report the generation and analysis of functional data from multiple, diverse experiments performed on a targeted 1% of the human genome as part of the pilot phase of the ENCODE Project. These data have been further integrated and augmented by a number of evolutionary and computational analyses. ...
    Type of Medium: Electronic Resource
    URL: http://dx.doi.org/10.1038/nature05874
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    Paper (German National Licenses)
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  • 2
    Electronic Resource
    Electronic Resource
    Fish species richness and incidence patterns in isolated and connected stream pools: effects of pool volume and spatial position (1997)
    Springer
    Oecologia 110 (1997), S. 560-566 
    Details
    ISSN: 1432-1939
    Keywords: Key words Colonization  ;  Extinction  ;  Nestedness  ; Sp ecies-volume relationship  ;  Stream fishes
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology
    Notes: Abstract I tested the effects of pool size and spatial position (upstream or downstream) on fish assemblage attributes in isolated and connected pools in an upland Oklahoma stream, United States. I hypothesized that there would be fundamental differences between assemblages in these two pool types due to the presence or absence of colonization opportunities. Analyses were carried out at three ecological scales: (1) the species richness of pool assemblages, (2) the species composition of pool assemblages, and (3) the responses of individual species. There were significant species-volume relationships for isolated and connected pools. However, the relationship was weaker and there were fewer species, on average, in isolated pools. For both pool types, species incidences were significantly nested such that species-poor pools tended to be subsets of species-rich pools, a common pattern that ultimately results from species-specific differences in colonization ability and/or extinction susceptibility. To examine the potential importance of these two processes in nestedness patterns in both pool types, I made the following two assumptions: (1) probability of extinction should decline with increasing pool size, and (2) probability of immigration should decline in an upstream direction (increasing isolation). When ordered by pool volume, only isolated pools were significantly nested suggesting that these assemblages were extinction-driven. When ordered by spatial position, only connected pools were significantly nested (more species downstream) suggesting that differences in species-specific dispersal abilities were important in structuring these assemblages. At the individual-species level, volume was a significant predictor of occurrence for three species in isolated pools. In connected pools, two species showed significant position effects, one species showed a pool volume effect, and one species showed pool volume and position effects. These results demonstrate that pool size and position within a watershed are important determinants of fish species assemblage structure, but their importance varies with the colonization potential of the pools. Isolated pool assemblages are similar to the presumed relaxed faunas of montane forest fragments and land bridge islands, but at much smaller space and time scales.
    Type of Medium: Electronic Resource
    URL: http://dx.doi.org/10.1007/s004420050196
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  • 3
    Electronic Resource
    Electronic Resource
    Fish community structure of Oklahoma gulf coastal plains (1993)
    Springer
    Hydrobiologia 257 (1993), S. 29-35 
    Details
    ISSN: 1573-5117
    Keywords: fish community structure ; canonical correspondence analysis
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology
    Notes: Abstract We collected the common fish species in all available aquatic habitats (streams, oxbow lakes, swamps) in bottomlands of McCurtain County, Oklahoma. Abundance and distribution of fishes, and environmental data were analyzed by a multivariate approach and examined for fit to a hierarchical model. The variables maximum depth, substrate, and presence of flow were the most important variables predicting fish community structure. Our multivariate analyses demonstrate that environmental factors can explain much variation in presence and abundance of the common fish species. Kolasa's hierarchical model relates species to each other by comparing ranges. This habitat-based model explained the relationships of our species ranges.
    Type of Medium: Electronic Resource
    URL: http://dx.doi.org/10.1007/BF00013994
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  • 4
    Electronic Resource
    Electronic Resource
    A Large-scale Comparative Analysis of Riffle and Pool Fish Communities in an Upland Stream System (2000)
    Springer
    Environmental biology of fishes 58 (2000), S. 89-95 
    Details
    ISSN: 1573-5133
    Keywords: assemblage structure ; gradient analysis ; stream fishes ; riffle habitats ; pool habitats ; ordination ; habitat guild
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology
    Notes: Abstract Fishes were sampled in riffle and pool habitats at 74 upland localities in the Little River system, southeastern Oklahoma and southwestern Arkansas, U.S.A. I asked how these two habitat-defined communities differed with regard to species abundance and incidence patterns, and how these differences varied along othree environmental gradients: elevation, stream gradient, and stream size. Riffle and pool communities showed distinct and significant differences when ordinated in multivariate space defined by species abundance patterns. Sites with similar pool communities did not have similar riffle communities, and riffle and pool communities responded to environmental gradients in different ways. Elevation was the best predictor of pool community structure, whereas stream size was the best predictor of riffle communities. Overall, riffle habitats had fewer species than pool habitats and formed significant subsets of pool communities at 12 of 74 sites. I predicted that at small stream localities where riffles were unstable, riffle species would form subsets of the pool species communities, and both community types should show high similarities. The presence of faunal subsets was not associated with stream size, but faunal similarities were significantly higher at small stream localities. At the species level, 14 species were significantly associated with pool habitats, while only two were associated with riffle habitats. Riffle and pool communities, although linked by a continuous habitat gradient at the local scale, responded differently to large-scale environmental gradients. Local differences between these communities were predictable based on stream size.
    Type of Medium: Electronic Resource
    URL: http://dx.doi.org/10.1023/A:1007677718275
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  • 5
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    Bacterial communities in penile skin, male urethra, and vaginas of heterosexual couples with and without bacterial vaginosis (2016)
    BioMed Central
    Details
    Publication Date: 2022-05-26
    Description: © The Author(s), 2016. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in Microbiome 4 (2016): 16, doi:10.1186/s40168-016-0161-6.
    Description: The epidemiology of bacterial vaginosis (BV) suggests it is sexually transmissible, yet no transmissible agent has been identified. It is probable that BV-associated bacterial communities are transferred from male to female partners during intercourse; however, the microbiota of sexual partners has not been well-studied. Pyrosequencing analysis of PCR-amplified 16S rDNA was used to examine BV-associated bacteria in monogamous couples with and without BV using vaginal, male urethral, and penile skin specimens. The penile skin and urethral microbiota of male partners of women with BV was significantly more similar to the vaginal microbiota of their female partner compared to the vaginal microbiota of non-partner women with BV. This was not the case for male partners of women with normal vaginal microbiota. Specific BV-associated species were concordant in women with BV and their male partners. In monogamous heterosexual couples in which the woman has BV, the significantly higher similarity between the vaginal microbiota and the penile skin and urethral microbiota of the male partner, supports the hypothesis that sexual exchange of BV-associated bacterial taxa is common.
    Description: This work was supported by National Institute of Health Grant R01 AI079071-01A1.
    Keywords: Bacterial vaginosis ; Microbiome ; Sexual transmission ; Penile skin ; Urethra ; Vagina
    Repository Name: Woods Hole Open Access Server
    Type: Article
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  • 6
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    Exploring the diversity of Gardnerella vaginalis in the genitourinary tract microbiota of monogamous couples through subtle nucleotide variation (2011)
    Public Library of Science
    Details
    Publication Date: 2022-05-26
    Description: © The Author(s), 2011. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in PLoS One 6 (2011): e26732, doi:10.1371/journal.pone.0026732.
    Description: Bacterial vaginosis (BV) is an enigmatic disease of unknown origin that affects a large percentage of women. The vaginal microbiota of women with BV is associated with serious sequelae, including abnormal pregnancies. The etiology of BV is not fully understood, however, it has been suggested that it is transmissible, and that G. vaginalis may be an etiological agent. Studies using enzymatic assays to define G. vaginalis biotypes, as well as more recent genomic comparisons of G. vaginalis isolates from symptomatic and asymptomatic women, suggest that particular G. vaginalis strains may play a key role in the pathogenesis of BV. To explore G. vaginalis diversity, distribution and sexual transmission, we developed a Shannon entropy-based method to analyze low-level sequence variation in 65,710 G. vaginalis 16S rRNA gene segments that were PCR-amplified from vaginal samples of 53 monogamous women and from urethral and penile skin samples of their male partners. We observed a high degree of low-level diversity among G. vaginalis sequences with a total of 46 unique sequence variants (oligotypes), and also found strong correlations of these oligotypes between sexual partners. Even though Gram stain-defined normal and some Gram stain-defined intermediate oligotype profiles clustered together in UniFrac analysis, no single G. vaginalis oligotype was found to be specific to BV or normal vaginal samples. This study describes a novel method for investigating G. vaginalis diversity at a low level of taxonomic discrimination. The findings support cultivation-based studies that indicate sexual partners harbor the same strains of G. vaginalis. This study also highlights the fact that a few, reproducible nucleotide variations within the 16S rRNA gene can reveal clinical or epidemiological associations that would be missed by genus-level or species-level categorization of 16S rRNA data.
    Description: This work is supported by funding from the Research Institute for Children in New Orleans and NIH grant 5RO1AI79071-2.
    Repository Name: Woods Hole Open Access Server
    Type: Article
    Format: image/tiff
    Format: application/pdf
    Format: application/msword
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  • 7
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    Dry soils can intensify mesoscale convective systems (2020)
    National Academy of Sciences
    Details
    Publication Date: 2020-08-17
    Description: Soil moisture can feed back on rainfall through the impact of surface fluxes on the environment in which convection develops. The vast majority of previous research has focused on the initiation of convection, but in many regions of the world, the majority of rain comes from remotely triggered mesoscale convective systems (MCSs). Here we conduct a systematic observational analysis of soil moisture feedbacks on propagating MCSs anywhere in the world and show a strong positive impact of drier soils on convection within mature MCSs. From thousands of storms captured in satellite imagery over the Sahel, we find that convective cores within MCSs are favored on the downstream side of dry patches ≥200 km across. The effect is particularly strong during the afternoon–evening transition when convection reaches its diurnal peak in intensity and frequency, with dry soils accounting for an additional one in five convective cores. Dry soil patterns intensify MCSs through a combination of convergence, increased instability, and wind shear, all factors that strengthen organized convection. These favorable conditions tend to occur in the vicinity of a surface-induced anomalous displacement of the Sahelian dry line/intertropical discontinuity, suggesting a strong link between dry line dynamics and soil moisture state. Our results have important implications for nowcasting of severe weather in the Sahel and potentially in other MCS hotspot regions of the world.
    Print ISSN: 0027-8424
    Electronic ISSN: 1091-6490
    Topics: Biology , Medicine , Natural Sciences in General
    Published by National Academy of Sciences
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  • 8
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    Laboratory rearing of Halyomorpha halys: methods to optimize survival and fitness of adults during and after diapause (2017)
    Springer
    Details
    Publication Date: 2017-05-26
    Print ISSN: 1612-4758
    Electronic ISSN: 1612-4766
    Topics: Biology , Agriculture, Forestry, Horticulture, Fishery, Domestic Science, Nutrition
    Published by Springer
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  • 9
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    Fish community structure of Oklahoma gulf coastal plains (1993)
    Springer
    Details
    Publication Date: 1993-04-01
    Print ISSN: 0018-8158
    Electronic ISSN: 1573-5117
    Topics: Biology
    Published by Springer
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  • 10
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    A Pan-African Convection-Permitting Regional Climate Simulation with the Met Office Unified Model: CP4-Africa (2018)
    American Meteorological Society
    Details
    Publication Date: 2018-04-02
    Description: A convection-permitting multiyear regional climate simulation using the Met Office Unified Model has been run for the first time on an Africa-wide domain. The model has been run as part of the Future Climate for Africa (FCFA) Improving Model Processes for African Climate (IMPALA) project, and its configuration, domain, and forcing data are described here in detail. The model [Pan-African Convection-Permitting Regional Climate Simulation with the Met Office UM (CP4-Africa)] uses a 4.5-km horizontal grid spacing at the equator and is run without a convection parameterization, nested within a global atmospheric model driven by observations at the sea surface, which does include a convection scheme. An additional regional simulation, with identical resolution and physical parameterizations to the global model, but with the domain, land surface, and aerosol climatologies of CP4-Africa, has been run to aid in the understanding of the differences between the CP4-Africa and global model, in particular to isolate the impact of the convection parameterization and resolution. The effect of enforcing moisture conservation in CP4-Africa is described and its impact on reducing extreme precipitation values is assessed. Preliminary results from the first five years of the CP4-Africa simulation show substantial improvements in JJA average rainfall compared to the parameterized convection models, with most notably a reduction in the persistent dry bias in West Africa, giving an indication of the benefits to be gained from running a convection-permitting simulation over the whole African continent.
    Print ISSN: 0894-8755
    Electronic ISSN: 1520-0442
    Topics: Geography , Geosciences , Physics
    Published by American Meteorological Society
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