Data from: Phylogeographic analyses of American black bears (Ursus americanus) suggest four glacial refugia and complex patterns of post-glacial admixture
Studies of species with continental distributions continue to identify intraspecific lineages despite continuous habitat. Lineages may form due to isolation by distance, adaptation, divergence across barriers, or genetic drift following range expansion. We investigated lineage diversification and ad...
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ftdans:oai:easy.dans.knaw.nl:easy-dataset:89374 2023-07-02T03:33:59+02:00 Data from: Phylogeographic analyses of American black bears (Ursus americanus) suggest four glacial refugia and complex patterns of post-glacial admixture Puckett, Emily E. Etter, Paul D. Johnson, Eric A. Eggert, Lori S. 2015-05-29T21:07:52.000+02:00 http://nbn-resolving.org/urn:nbn:nl:ui:13-qn-gnck https://easy.dans.knaw.nl/ui/datasets/id/easy-dataset:89374 unknown doi:10.5061/dryad.dc02b/1 doi:10.5061/dryad.dc02b/2 doi:10.5061/dryad.dc02b/3 doi:10.5061/dryad.dc02b/4 doi:10.5061/dryad.dc02b/5 doi:10.1093/molbev/msv114 PMID:25989983 http://nbn-resolving.org/urn:nbn:nl:ui:13-qn-gnck doi:10.5061/dryad.dc02b https://easy.dans.knaw.nl/ui/datasets/id/easy-dataset:89374 OPEN_ACCESS: The data are archived in Easy, they are accessible elsewhere through the DOI https://dans.knaw.nl/en/about/organisation-and-policy/legal-information/DANSLicence.pdf Life sciences medicine and health care 2015 ftdans https://doi.org/10.5061/dryad.dc02b/110.5061/dryad.dc02b/210.5061/dryad.dc02b/310.5061/dryad.dc02b/410.5061/dryad.dc02b/510.1093/molbev/msv11410.5061/dryad.dc02b 2023-06-13T13:19:15Z Studies of species with continental distributions continue to identify intraspecific lineages despite continuous habitat. Lineages may form due to isolation by distance, adaptation, divergence across barriers, or genetic drift following range expansion. We investigated lineage diversification and admixture within American black bears (Ursus americanus) across their range using 22 k single nucleotide polymorphisms and mitochondrial DNA sequences. We identified three subcontinental nuclear clusters which we further divided into nine geographic regions: Alaskan (Alaska-East), eastern (Central Interior Highlands, Great Lakes, Northeast, Southeast), and western (Alaska-West, West, Pacific Coast, Southwest). We estimated that the western cluster diverged 67 ka, before eastern and Alaskan divergence 31 ka; these divergence dates contrasted with those from the mitochondrial genome where clades A and B diverged 1.07 Ma, and clades A-east and A-west diverged 169 ka. We combined estimates of divergence timing with hindcast species distribution models to infer glacial refugia for the species in Beringia, Pacific Northwest, Southwest, and Southeast. Our results show a complex arrangement of admixture due to expansion out of multiple refugia. The delineation of the genomic population clusters was inconsistent with the ranges for 16 previously described subspecies. Ranges for U. a. pugnax and U. a. cinnamomum were concordant with admixed clusters, calling into question how to order taxa below the species level. Additionally, our finding that U. a. floridanus has not diverged from U. a. americanus also suggests that morphology and genetics should be reanalyzed to assess taxonomic designations relevant to the conservation management of the species. Other/Unknown Material Alaska Beringia Data Archiving and Networked Services (DANS): EASY (KNAW - Koninklijke Nederlandse Akademie van Wetenschappen) Pacific |
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Open Polar |
collection |
Data Archiving and Networked Services (DANS): EASY (KNAW - Koninklijke Nederlandse Akademie van Wetenschappen) |
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ftdans |
language |
unknown |
topic |
Life sciences medicine and health care |
spellingShingle |
Life sciences medicine and health care Puckett, Emily E. Etter, Paul D. Johnson, Eric A. Eggert, Lori S. Data from: Phylogeographic analyses of American black bears (Ursus americanus) suggest four glacial refugia and complex patterns of post-glacial admixture |
topic_facet |
Life sciences medicine and health care |
description |
Studies of species with continental distributions continue to identify intraspecific lineages despite continuous habitat. Lineages may form due to isolation by distance, adaptation, divergence across barriers, or genetic drift following range expansion. We investigated lineage diversification and admixture within American black bears (Ursus americanus) across their range using 22 k single nucleotide polymorphisms and mitochondrial DNA sequences. We identified three subcontinental nuclear clusters which we further divided into nine geographic regions: Alaskan (Alaska-East), eastern (Central Interior Highlands, Great Lakes, Northeast, Southeast), and western (Alaska-West, West, Pacific Coast, Southwest). We estimated that the western cluster diverged 67 ka, before eastern and Alaskan divergence 31 ka; these divergence dates contrasted with those from the mitochondrial genome where clades A and B diverged 1.07 Ma, and clades A-east and A-west diverged 169 ka. We combined estimates of divergence timing with hindcast species distribution models to infer glacial refugia for the species in Beringia, Pacific Northwest, Southwest, and Southeast. Our results show a complex arrangement of admixture due to expansion out of multiple refugia. The delineation of the genomic population clusters was inconsistent with the ranges for 16 previously described subspecies. Ranges for U. a. pugnax and U. a. cinnamomum were concordant with admixed clusters, calling into question how to order taxa below the species level. Additionally, our finding that U. a. floridanus has not diverged from U. a. americanus also suggests that morphology and genetics should be reanalyzed to assess taxonomic designations relevant to the conservation management of the species. |
author |
Puckett, Emily E. Etter, Paul D. Johnson, Eric A. Eggert, Lori S. |
author_facet |
Puckett, Emily E. Etter, Paul D. Johnson, Eric A. Eggert, Lori S. |
author_sort |
Puckett, Emily E. |
title |
Data from: Phylogeographic analyses of American black bears (Ursus americanus) suggest four glacial refugia and complex patterns of post-glacial admixture |
title_short |
Data from: Phylogeographic analyses of American black bears (Ursus americanus) suggest four glacial refugia and complex patterns of post-glacial admixture |
title_full |
Data from: Phylogeographic analyses of American black bears (Ursus americanus) suggest four glacial refugia and complex patterns of post-glacial admixture |
title_fullStr |
Data from: Phylogeographic analyses of American black bears (Ursus americanus) suggest four glacial refugia and complex patterns of post-glacial admixture |
title_full_unstemmed |
Data from: Phylogeographic analyses of American black bears (Ursus americanus) suggest four glacial refugia and complex patterns of post-glacial admixture |
title_sort |
data from: phylogeographic analyses of american black bears (ursus americanus) suggest four glacial refugia and complex patterns of post-glacial admixture |
publishDate |
2015 |
url |
http://nbn-resolving.org/urn:nbn:nl:ui:13-qn-gnck https://easy.dans.knaw.nl/ui/datasets/id/easy-dataset:89374 |
geographic |
Pacific |
geographic_facet |
Pacific |
genre |
Alaska Beringia |
genre_facet |
Alaska Beringia |
op_relation |
doi:10.5061/dryad.dc02b/1 doi:10.5061/dryad.dc02b/2 doi:10.5061/dryad.dc02b/3 doi:10.5061/dryad.dc02b/4 doi:10.5061/dryad.dc02b/5 doi:10.1093/molbev/msv114 PMID:25989983 http://nbn-resolving.org/urn:nbn:nl:ui:13-qn-gnck doi:10.5061/dryad.dc02b https://easy.dans.knaw.nl/ui/datasets/id/easy-dataset:89374 |
op_rights |
OPEN_ACCESS: The data are archived in Easy, they are accessible elsewhere through the DOI https://dans.knaw.nl/en/about/organisation-and-policy/legal-information/DANSLicence.pdf |
op_doi |
https://doi.org/10.5061/dryad.dc02b/110.5061/dryad.dc02b/210.5061/dryad.dc02b/310.5061/dryad.dc02b/410.5061/dryad.dc02b/510.1093/molbev/msv11410.5061/dryad.dc02b |
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1770274247058391040 |