Phylogeographic analyses of American black bears (Ursus americanus) suggest four glacial refugia and complex patterns of postglacial 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 adm...
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2015
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ftunivmemphis:oai:digitalcommons.memphis.edu:facpubs-1849 2023-07-16T04:01:17+02:00 Phylogeographic analyses of American black bears (Ursus americanus) suggest four glacial refugia and complex patterns of postglacial admixture Puckett, Emily E. Etter, Paul D. Johnson, Eric A. Eggert, Lori S. 2015-09-01T07:00:00Z https://digitalcommons.memphis.edu/facpubs/850 https://doi.org/10.1093/molbev/msv114 unknown University of Memphis Digital Commons https://digitalcommons.memphis.edu/facpubs/850 doi:10.1093/molbev/msv114 https://doi.org/10.1093/molbev/msv114 Faculty Publications Admixture Lineage divergence Phylogeography Population genomics Biology text 2015 ftunivmemphis https://doi.org/10.1093/molbev/msv114 2023-06-28T22:13:56Z 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 1.07Ma, 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. Text Alaska Beringia University of Memphis Digital Commons Pacific Molecular Biology and Evolution 32 9 2338 2350 |
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University of Memphis Digital Commons |
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ftunivmemphis |
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topic |
Admixture Lineage divergence Phylogeography Population genomics Biology |
spellingShingle |
Admixture Lineage divergence Phylogeography Population genomics Biology Puckett, Emily E. Etter, Paul D. Johnson, Eric A. Eggert, Lori S. Phylogeographic analyses of American black bears (Ursus americanus) suggest four glacial refugia and complex patterns of postglacial admixture |
topic_facet |
Admixture Lineage divergence Phylogeography Population genomics Biology |
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 1.07Ma, 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. |
format |
Text |
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 |
Phylogeographic analyses of American black bears (Ursus americanus) suggest four glacial refugia and complex patterns of postglacial admixture |
title_short |
Phylogeographic analyses of American black bears (Ursus americanus) suggest four glacial refugia and complex patterns of postglacial admixture |
title_full |
Phylogeographic analyses of American black bears (Ursus americanus) suggest four glacial refugia and complex patterns of postglacial admixture |
title_fullStr |
Phylogeographic analyses of American black bears (Ursus americanus) suggest four glacial refugia and complex patterns of postglacial admixture |
title_full_unstemmed |
Phylogeographic analyses of American black bears (Ursus americanus) suggest four glacial refugia and complex patterns of postglacial admixture |
title_sort |
phylogeographic analyses of american black bears (ursus americanus) suggest four glacial refugia and complex patterns of postglacial admixture |
publisher |
University of Memphis Digital Commons |
publishDate |
2015 |
url |
https://digitalcommons.memphis.edu/facpubs/850 https://doi.org/10.1093/molbev/msv114 |
geographic |
Pacific |
geographic_facet |
Pacific |
genre |
Alaska Beringia |
genre_facet |
Alaska Beringia |
op_source |
Faculty Publications |
op_relation |
https://digitalcommons.memphis.edu/facpubs/850 doi:10.1093/molbev/msv114 https://doi.org/10.1093/molbev/msv114 |
op_doi |
https://doi.org/10.1093/molbev/msv114 |
container_title |
Molecular Biology and Evolution |
container_volume |
32 |
container_issue |
9 |
container_start_page |
2338 |
op_container_end_page |
2350 |
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1771550964491223040 |