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Sökning: WFRF:(Rheindt Frank E.) > Naturhistoriska riksmuseet

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  • Chattopadhyay, Balaji, et al. (författare)
  • Novel genome reveals susceptibility of popular gamebird, the red-legged partridge (Alectoris rufa, Phasianidae), to climate change
  • 2021
  • Ingår i: Genomics. - : Elsevier BV. - 0888-7543 .- 1089-8646.
  • Tidskriftsartikel (refereegranskat)abstract
    • We produced a high-quality de novo genome assembly of the red-legged partridge A. rufa, the first reference genome of its genus, by utilising novel 10× Chromium technology. The estimated genome size was 1.19 Gb with an overall genome heterozygosity of 0.0022; no runs of homozygosity were observed. In total, 21,589 protein coding genes were identified and assigned to 16,772 orthologs. Of these, 201 emerged as unique to Alectoris and were enriched for positive regulation of epithelial cell migration, viral genome integration and maturation. Using PSMC analysis, we inferred a major demographic decline commencing ~140,000 years ago, consistent with forest expansion and reduction of open habitats during the Eemian interglacial. Present-day populations exhibit the historically lowest genetic diversity. Besides implications for management and conservation, this genome also promises key insights into the physiology of these birds with a view to improving poultry husbandry practices.
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  • Cros, Emilie, et al. (författare)
  • Fine‐scale barriers to connectivity across a fragmented South‐East Asian landscape in six songbird species
  • 2020
  • Ingår i: Evolutionary Applications. - 1752-4571. ; 13:5, s. 1026-1036
  • Tidskriftsartikel (refereegranskat)abstract
    • Habitat  fragmentation  is  a major  extinction  driver.  Despite  dramatically  increas-ing fragmentation across the globe, its specific impacts on population connectivityacross species with differing life histories remain difficult to characterize, let alonequantify. Here, we investigate patterns of population connectivity in six songbirdspecies from Singapore, a highly fragmented tropical rainforest island. Using massivepanels of genome-wide single nucleotide polymorphisms across dozens of samplesper species, we examined population genetic diversity, inbreeding, gene flow andconnectivity among species along a spectrum of ecological specificities. We found ahigher resilience to habitat fragmentation in edge-tolerant and forest-canopy speciesas compared to forest-dependent understorey insectivores. The latter exhibited lev-els of genetic diversity up to three times lower in Singapore than in populations fromcontiguous forest elsewhere. Using dense genomic and geographic sampling, weidentified individual barriers such as reservoirs that effectively minimize gene flowin sensitive understorey birds, revealing that terrestrial forest species may exhibitlevels of sensitivity to fragmentation far greater than previously expected. This studyprovides a blueprint for conservation genomics at small scales with a view to iden-tifying preferred locations for habitat corridors, flagging candidate populations forrestocking with translocated individuals and improving the design of future reserves.
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  • Tan, David J.X., et al. (författare)
  • Novel genome and genome-wide SNPs reveal early fragmentation effects in an edge-tolerant songbird population across an urbanized tropical metropolis
  • 2018
  • Ingår i: Scientific Reports. - 2045-2322.
  • Tidskriftsartikel (refereegranskat)abstract
    • Although edge-tolerant species are known to benefit from habitat fragmentation, less is known about the population genetic impacts fragmentation may exert on edge-tolerant species. We examined the landscape genomic structure of an edge-tolerant forest-dependent bird species, the Striped Tit-Babbler Mixornis gularis, in the heavily urbanized island of Singapore to determine if two centuries of fragmentation have led to signs of isolation and loss of population-genetic diversity in different parts of the island. We obtained a high-quality complete reference genome with 78x coverage. Using almost 4000 SNPs from double-digest RAD-Sequencing across 46 individuals, we found that the population has likely experienced a recent contraction in effective population size and presently exhibits low population genetic diversity. Using empirical and simulation-based landscape genomic analyses, we also found that the subtle population genetic structure observed in the Striped Tit-Babbler population in Singapore is likely driven by isolation by distance resulting from limited dispersal. Our results demonstrate that population genetic impoverishment and subdivision can accumulate at relatively rapid rates in edge-tolerant bird species such as the Striped Tit-Babbler as a result of fragmentation, and that subtle spatial genetic structure can be detected over fine spatial and temporal scales using relatively few multilocus genomic SNPs.
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  • Resultat 1-8 av 8

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