Range-wide whole-genome resequencing of the brown bear reveals drivers of intraspecies divergence
Population-genomic studies can shed new light on the effect of past demographic processes on contemporary population structure. We reassessed phylogeographical patterns of a classic model species of postglacial recolonisation, the brown bear (Ursus arctos), using a range-wide resequencing dataset of...
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Online Access: | http://www.ncbi.nlm.nih.gov/pmc/articles/PMC9902616/ http://www.ncbi.nlm.nih.gov/pubmed/36746982 https://doi.org/10.1038/s42003-023-04514-w |
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ftpubmed:oai:pubmedcentral.nih.gov:9902616 2023-05-15T18:42:07+02:00 Range-wide whole-genome resequencing of the brown bear reveals drivers of intraspecies divergence de Jong, Menno J. Niamir, Aidin Wolf, Magnus Kitchener, Andrew C. Lecomte, Nicolas Seryodkin, Ivan V. Fain, Steven R. Hagen, Snorre B. Saarma, Urmas Janke, Axel 2023-02-06 http://www.ncbi.nlm.nih.gov/pmc/articles/PMC9902616/ http://www.ncbi.nlm.nih.gov/pubmed/36746982 https://doi.org/10.1038/s42003-023-04514-w en eng Nature Publishing Group UK http://www.ncbi.nlm.nih.gov/pmc/articles/PMC9902616/ http://www.ncbi.nlm.nih.gov/pubmed/36746982 http://dx.doi.org/10.1038/s42003-023-04514-w © The Author(s) 2023 https://creativecommons.org/licenses/by/4.0/Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/ (https://creativecommons.org/licenses/by/4.0/) . CC-BY Commun Biol Article Text 2023 ftpubmed https://doi.org/10.1038/s42003-023-04514-w 2023-02-12T01:56:43Z Population-genomic studies can shed new light on the effect of past demographic processes on contemporary population structure. We reassessed phylogeographical patterns of a classic model species of postglacial recolonisation, the brown bear (Ursus arctos), using a range-wide resequencing dataset of 128 nuclear genomes. In sharp contrast to the erratic geographical distribution of mtDNA and Y-chromosomal haplotypes, autosomal and X-chromosomal multi-locus datasets indicate that brown bear population structure is largely explained by recent population connectivity. Multispecies coalescent based analyses reveal cases where mtDNA haplotype sharing between distant populations, such as between Iberian and southern Scandinavian bears, likely results from incomplete lineage sorting, not from ancestral population structure (i.e., postglacial recolonisation). However, we also argue, using forward-in-time simulations, that gene flow and recombination can rapidly erase genomic evidence of former population structure (such as an ancestral population in Beringia), while this signal is retained by Y-chromosomal and mtDNA, albeit likely distorted. We further suggest that if gene flow is male-mediated, the information loss proceeds faster in autosomes than in X chromosomes. Our findings emphasise that contemporary autosomal genetic structure may reflect recent population dynamics rather than postglacial recolonisation routes, which could contribute to mtDNA and Y-chromosomal discordances. Text Ursus arctos Beringia PubMed Central (PMC) Communications Biology 6 1 |
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Article de Jong, Menno J. Niamir, Aidin Wolf, Magnus Kitchener, Andrew C. Lecomte, Nicolas Seryodkin, Ivan V. Fain, Steven R. Hagen, Snorre B. Saarma, Urmas Janke, Axel Range-wide whole-genome resequencing of the brown bear reveals drivers of intraspecies divergence |
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Population-genomic studies can shed new light on the effect of past demographic processes on contemporary population structure. We reassessed phylogeographical patterns of a classic model species of postglacial recolonisation, the brown bear (Ursus arctos), using a range-wide resequencing dataset of 128 nuclear genomes. In sharp contrast to the erratic geographical distribution of mtDNA and Y-chromosomal haplotypes, autosomal and X-chromosomal multi-locus datasets indicate that brown bear population structure is largely explained by recent population connectivity. Multispecies coalescent based analyses reveal cases where mtDNA haplotype sharing between distant populations, such as between Iberian and southern Scandinavian bears, likely results from incomplete lineage sorting, not from ancestral population structure (i.e., postglacial recolonisation). However, we also argue, using forward-in-time simulations, that gene flow and recombination can rapidly erase genomic evidence of former population structure (such as an ancestral population in Beringia), while this signal is retained by Y-chromosomal and mtDNA, albeit likely distorted. We further suggest that if gene flow is male-mediated, the information loss proceeds faster in autosomes than in X chromosomes. Our findings emphasise that contemporary autosomal genetic structure may reflect recent population dynamics rather than postglacial recolonisation routes, which could contribute to mtDNA and Y-chromosomal discordances. |
format |
Text |
author |
de Jong, Menno J. Niamir, Aidin Wolf, Magnus Kitchener, Andrew C. Lecomte, Nicolas Seryodkin, Ivan V. Fain, Steven R. Hagen, Snorre B. Saarma, Urmas Janke, Axel |
author_facet |
de Jong, Menno J. Niamir, Aidin Wolf, Magnus Kitchener, Andrew C. Lecomte, Nicolas Seryodkin, Ivan V. Fain, Steven R. Hagen, Snorre B. Saarma, Urmas Janke, Axel |
author_sort |
de Jong, Menno J. |
title |
Range-wide whole-genome resequencing of the brown bear reveals drivers of intraspecies divergence |
title_short |
Range-wide whole-genome resequencing of the brown bear reveals drivers of intraspecies divergence |
title_full |
Range-wide whole-genome resequencing of the brown bear reveals drivers of intraspecies divergence |
title_fullStr |
Range-wide whole-genome resequencing of the brown bear reveals drivers of intraspecies divergence |
title_full_unstemmed |
Range-wide whole-genome resequencing of the brown bear reveals drivers of intraspecies divergence |
title_sort |
range-wide whole-genome resequencing of the brown bear reveals drivers of intraspecies divergence |
publisher |
Nature Publishing Group UK |
publishDate |
2023 |
url |
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC9902616/ http://www.ncbi.nlm.nih.gov/pubmed/36746982 https://doi.org/10.1038/s42003-023-04514-w |
genre |
Ursus arctos Beringia |
genre_facet |
Ursus arctos Beringia |
op_source |
Commun Biol |
op_relation |
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC9902616/ http://www.ncbi.nlm.nih.gov/pubmed/36746982 http://dx.doi.org/10.1038/s42003-023-04514-w |
op_rights |
© The Author(s) 2023 https://creativecommons.org/licenses/by/4.0/Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/ (https://creativecommons.org/licenses/by/4.0/) . |
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CC-BY |
op_doi |
https://doi.org/10.1038/s42003-023-04514-w |
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Communications Biology |
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