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  • 1
    In: G3 Genes|Genomes|Genetics, Oxford University Press (OUP), Vol. 5, No. 5 ( 2015-05-01), p. 719-740
    Abstract: The Muller F element (4.2 Mb, ~80 protein-coding genes) is an unusual autosome of Drosophila melanogaster; it is mostly heterochromatic with a low recombination rate. To investigate how these properties impact the evolution of repeats and genes, we manually improved the sequence and annotated the genes on the D. erecta, D. mojavensis, and D. grimshawi F elements and euchromatic domains from the Muller D element. We find that F elements have greater transposon density (25–50%) than euchromatic reference regions (3–11%). Among the F elements, D. grimshawi has the lowest transposon density (particularly DINE-1: 2% vs. 11–27%). F element genes have larger coding spans, more coding exons, larger introns, and lower codon bias. Comparison of the Effective Number of Codons with the Codon Adaptation Index shows that, in contrast to the other species, codon bias in D. grimshawi F element genes can be attributed primarily to selection instead of mutational biases, suggesting that density and types of transposons affect the degree of local heterochromatin formation. F element genes have lower estimated DNA melting temperatures than D element genes, potentially facilitating transcription through heterochromatin. Most F element genes (~90%) have remained on that element, but the F element has smaller syntenic blocks than genome averages (3.4–3.6 vs. 8.4–8.8 genes per block), indicating greater rates of inversion despite lower rates of recombination. Overall, the F element has maintained characteristics that are distinct from other autosomes in the Drosophila lineage, illuminating the constraints imposed by a heterochromatic milieu.
    Type of Medium: Online Resource
    ISSN: 2160-1836
    Language: English
    Publisher: Oxford University Press (OUP)
    Publication Date: 2015
    detail.hit.zdb_id: 2629978-1
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  • 2
    In: Environmental DNA, Wiley
    Abstract: Environmental DNA (eDNA) data make it possible to measure and monitor biodiversity at unprecedented resolution and scale. As use‐cases multiply and scientific consensus grows regarding the value of eDNA analysis, public agencies have an opportunity to decide how and where eDNA data fit into their mandates. Within the United States, many federal and state agencies are individually using eDNA data in various applications and developing relevant scientific expertise. A national strategy for eDNA implementation would capitalize on recent scientific developments, providing a common set of next‐generation tools for natural resource management and public health protection. Such a strategy would avoid patchwork and possibly inconsistent guidelines in different agencies, smoothing the way for efficient uptake of eDNA data in management. Because eDNA analysis is already in widespread use in both ocean and freshwater settings, we focus here on applications in these environments. However, we foresee the broad adoption of eDNA analysis to meet many resource management issues across the nation because the same tools have immediate terrestrial and aerial applications.
    Type of Medium: Online Resource
    ISSN: 2637-4943 , 2637-4943
    Language: English
    Publisher: Wiley
    Publication Date: 2023
    detail.hit.zdb_id: 3001165-6
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  • 3
    In: Advances in Methods and Practices in Psychological Science, SAGE Publications, Vol. 3, No. 3 ( 2020-09), p. 309-331
    Abstract: Replication studies in psychological science sometimes fail to reproduce prior findings. If these studies use methods that are unfaithful to the original study or ineffective in eliciting the phenomenon of interest, then a failure to replicate may be a failure of the protocol rather than a challenge to the original finding. Formal pre-data-collection peer review by experts may address shortcomings and increase replicability rates. We selected 10 replication studies from the Reproducibility Project: Psychology (RP:P; Open Science Collaboration, 2015) for which the original authors had expressed concerns about the replication designs before data collection; only one of these studies had yielded a statistically significant effect ( p 〈 .05). Commenters suggested that lack of adherence to expert review and low-powered tests were the reasons that most of these RP:P studies failed to replicate the original effects. We revised the replication protocols and received formal peer review prior to conducting new replication studies. We administered the RP:P and revised protocols in multiple laboratories (median number of laboratories per original study = 6.5, range = 3–9; median total sample = 1,279.5, range = 276–3,512) for high-powered tests of each original finding with both protocols. Overall, following the preregistered analysis plan, we found that the revised protocols produced effect sizes similar to those of the RP:P protocols (Δ r = .002 or .014, depending on analytic approach). The median effect size for the revised protocols ( r = .05) was similar to that of the RP:P protocols ( r = .04) and the original RP:P replications ( r = .11), and smaller than that of the original studies ( r = .37). Analysis of the cumulative evidence across the original studies and the corresponding three replication attempts provided very precise estimates of the 10 tested effects and indicated that their effect sizes (median r = .07, range = .00–.15) were 78% smaller, on average, than the original effect sizes (median r = .37, range = .19–.50).
    Type of Medium: Online Resource
    ISSN: 2515-2459 , 2515-2467
    Language: English
    Publisher: SAGE Publications
    Publication Date: 2020
    detail.hit.zdb_id: 2904847-3
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  • 4
    In: Crop Science, Wiley, Vol. 56, No. 4 ( 2016-07), p. 1526-1539
    Abstract: Strong resistance to reniform nematode ( Rotylenchulus reniformis ) was previously introgressed from the F‐genome diploid species Gossypium longicalyx (2 n = 2 x = 26) into Upland cotton ( G. hirsutum L., 2 n = 4 x = 52, 2[AD] 1 ), and attributed to the gene Ren lon . Two resistant elite lines were released, but their seedlings are differentially stunted in nematode‐infested fields. Here, we report on the development of linked SNPs and their use to disrupt “linkage drag” around Ren lon . Using advanced backcross‐inbred lines with previously identified proximal (PCO) or distal crossover (DCO) events near Ren lon , we chose 18 Ren lon –linked SNP markers for mapping across two large (880) BC 1 F 1 seed populations. Few recombinants occurred (7 of 1760). Using two of the closest Ren lon –linked SNPs to select from a BC 1 F 1 seed population (17,600), we identified 5 homeologous recombinants, but none separated the stunting and resistant phenotypes. We then compared homologous recombination rates using equally sized DCO × PCO INTERCROSS and BACKCROSS populations ( n = 88). Many more recombinants occurred among progeny of the INTERCROSS (22) than the BACKCROSS (1). This finding suggests that the best SNP‐based strategy for interspecific breeding with the F genome and other homeologous genomes may be to use large‐scale MAS to select nearby flanking homeologous recombinants in early generations, map them to identify the two closest PCO and DCO types, then intermate them and use MAS to identify homologous recombinants.
    Type of Medium: Online Resource
    ISSN: 0011-183X , 1435-0653
    Language: English
    Publisher: Wiley
    Publication Date: 2016
    detail.hit.zdb_id: 1480918-7
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  • 5
    In: Movement Disorders, Wiley, Vol. 32, No. 3 ( 2017-03), p. 423-432
    Abstract: Background : Leucine rich repeat kinase 2 (LRRK2) is a promising target for the treatment of Parkinson's disease; however, little is known about the expression of LRRK2 in human brain and if/how LRRK2 protein levels are altered in Parkinson's disease. Objectives : We measured the protein levels of LRRK2 as well as its phosphorylation on serines 910, 935, and 973 in the postmortem brain tissue of Parkinson's disease patients and aged controls with and without Lewy bodies. Methods : LRRK2 and its phosphorylation were measured by immunoblot in brain regions differentially affected in Parkinson's disease (n = 30) as well as subjects with Lewy bodies restricted to the periphery and lower brain stem (n = 25) and matched controls without pathology (n = 25). Results : LRRK2 levels were increased in cases with restricted Lewy bodies, with a 30% increase measured in the substantia nigra. In clinical Parkinson's disease, levels of LRRK2 negatively correlated to disease duration and were comparable with controls. LRRK2 phosphorylation, however, particularly at serine 935, was reduced with clinical Parkinson's disease with a 36% reduction measured in the substantia nigra. Conclusions : Our data show that LRRK2 phosphorylation is reduced with clinical PD, whereas LRRK2 expression is increased in early potential prodromal stages. These results contribute to a better understanding of the role of LRRK2 in idiopathic Parkinson's disease and may aid efforts aimed at therapeutically targeting the LRRK2 protein. © 2016 International Parkinson and Movement Disorder Society
    Type of Medium: Online Resource
    ISSN: 0885-3185 , 1531-8257
    URL: Issue
    RVK:
    Language: English
    Publisher: Wiley
    Publication Date: 2017
    detail.hit.zdb_id: 2041249-6
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  • 6
    In: Frontiers in Conservation Science, Frontiers Media SA, Vol. 3 ( 2022-3-11)
    Abstract: Many of the choices humans make with regard to infrastructure, urban planning and other phenomena have impacts that will last thousands of years. This can readily be seen in modern cities in which contemporary streets run along street grids that were laid out thousands of years prior or even in which ancient viaducts still play a role. However, rarely do evolutionary biologists explicitly consider the future of life likely to be associated with the decisions we are making today. Here, we consider the evolutionary future of species in cities with a focus on the origin of lineages and species. We do so by adjusting evolutionary predictions from the theory of island biogeography so as to correspond to the unique features of cities as islands. Specifically, the species endemic to cities tend to be associated with the gray habitats in cities. Those habitats tend to be dominated by human bodies, pet bodies and stored food. It is among such species where the origin of new lineages is most likely, although most research on evolution in cities has focused on green habitats. We conclude by considering a range of scenarios for the far future and their implications for the origin of lineages and species.
    Type of Medium: Online Resource
    ISSN: 2673-611X
    Language: Unknown
    Publisher: Frontiers Media SA
    Publication Date: 2022
    detail.hit.zdb_id: 3060831-4
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  • 7
    Online Resource
    Online Resource
    Equinox Publishing ; 2022
    In:  Journal for the Study of Religion, Nature and Culture Vol. 16, No. 2 ( 2022-07-20)
    In: Journal for the Study of Religion, Nature and Culture, Equinox Publishing, Vol. 16, No. 2 ( 2022-07-20)
    Abstract: .
    Type of Medium: Online Resource
    ISSN: 1749-4915 , 1749-4907
    Language: Unknown
    Publisher: Equinox Publishing
    Publication Date: 2022
    detail.hit.zdb_id: 2395657-4
    SSG: 0
    SSG: 1
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  • 8
    Online Resource
    Online Resource
    Equinox Publishing ; 2022
    In:  Journal for the Study of Religion, Nature and Culture ( 2022-09-20)
    In: Journal for the Study of Religion, Nature and Culture, Equinox Publishing, ( 2022-09-20)
    Abstract: Legacies of American environmentalism are grounded in androcentric and heteronormative narratives that have downplayed significant contributions by women. A re-narration of American Environmentalism detailed through the lives and work of three pioneering women, Marjory Stoneman Douglas, Rachel Carson, and Sylvia Earle, provides a new focal perspective on environmental ethics via a deeper, aqua-centric lens, or what we call a ‘water ethic’. For all three women, their work was informed by deep scientific knowledge of, and sense of felt connection to, their local aquatic environments. They understood humans as part of the interconnected biological ecosystem and drew early connections between local environmental processes and broader planetary systems. Their individual lived experiences enabled them to see the world in a ‘queer’ way, which was markedly different than many of their contemporaries. Analyzing gender and gender nonconformity can help us to understand the importance of a water ethic for a rapidly changing planet.
    Type of Medium: Online Resource
    ISSN: 1749-4915 , 1749-4907
    Language: Unknown
    Publisher: Equinox Publishing
    Publication Date: 2022
    detail.hit.zdb_id: 2395657-4
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    SSG: 1
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  • 9
    Online Resource
    Online Resource
    Equinox Publishing ; 2021
    In:  Journal for the Study of Religion, Nature and Culture Vol. 15, No. 1 ( 2021-03-31), p. 83-113
    In: Journal for the Study of Religion, Nature and Culture, Equinox Publishing, Vol. 15, No. 1 ( 2021-03-31), p. 83-113
    Abstract: Drawing on the work of Naomi Wolf who described a transition in commercial advertising inspired by the feminist movement, I examine the ways commercial marketing strategies have changed in the wake of the election of Donald Trump and the #MeToo movement. This shift illuminates the ideological functions of advertisements with regard to understandings of gender and nature. Employing Benson Saler’s family resemblances approach, and further drawing on the work of David Chidester and Katheryn Lofton I show that advertisements function in religion-resembling ways in pop culture. By examining a number of corporate advertisements between 2004 and 2019, I show a shift in some corporations’ marketing strategies in light of political tensions concerning sexual harassment and climate change in the United States. These changing strategies also represent a call to action by forming community around shared causes, urging consumers to choose wisely and think about something bigger than themselves.
    Type of Medium: Online Resource
    ISSN: 1749-4915 , 1749-4907
    Language: Unknown
    Publisher: Equinox Publishing
    Publication Date: 2021
    detail.hit.zdb_id: 2395657-4
    SSG: 0
    SSG: 1
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  • 10
    Online Resource
    Online Resource
    Equinox Publishing ; 2021
    In:  Journal for the Study of Religion, Nature and Culture Vol. 15, No. 1 ( 2021-03-31), p. 130-133
    In: Journal for the Study of Religion, Nature and Culture, Equinox Publishing, Vol. 15, No. 1 ( 2021-03-31), p. 130-133
    Abstract: Kenneth Worthy, Elizabeth Allison, and Whitney A. Bauman (eds.), After the Death of Nature: Carolyn Merchant and the Future of Human–Nature Relations (New York and London: Routledge, 2019), xxii + 308 pp., $195.00 (cloth), $44.95 (pbk), ISBN: 978-1- 138-29731-9. 
    Type of Medium: Online Resource
    ISSN: 1749-4915 , 1749-4907
    Language: Unknown
    Publisher: Equinox Publishing
    Publication Date: 2021
    detail.hit.zdb_id: 2395657-4
    SSG: 0
    SSG: 1
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