دورية أكاديمية
أعرض في EDS

Diversification, Introgression, and Rampant Cytonuclear Discordance in Rocky Mountains Chipmunks (Sciuridae: Tamias).

التفاصيل البيبلوغرافية
العنوان: Diversification, Introgression, and Rampant Cytonuclear Discordance in Rocky Mountains Chipmunks (Sciuridae: Tamias).
المؤلفون: Sarver BAJ; Department of Biological Sciences, University of Idaho, Moscow, ID 83844, USA.; Institute for Bioinformatics and Evolutionary Studies (IBEST), University of Idaho, Moscow ID 83844, USA., Herrera ND; Division of Biological Sciences, University of Montana, Missoula, MT 59812, USA., Sneddon D; Department of Biological Sciences, University of Idaho, Moscow, ID 83844, USA., Hunter SS; Institute for Bioinformatics and Evolutionary Studies (IBEST), University of Idaho, Moscow ID 83844, USA.; UC-Davis Genome Center, Davis, CA 95616, USA., Settles ML; UC-Davis Genome Center, Davis, CA 95616, USA., Kronenberg Z; Pacific Biosciences, Menlo Park, CA 94025, USA., Demboski JR; Department of Zoology, Denver Museum of Nature & Sciences, Denver, CO 80205, USA., Good JM; Division of Biological Sciences, University of Montana, Missoula, MT 59812, USA.; Wildlife Biology Program, University of Montana, Missoula, Montana 59812, USA., Sullivan J; Department of Biological Sciences, University of Idaho, Moscow, ID 83844, USA.; Institute for Bioinformatics and Evolutionary Studies (IBEST), University of Idaho, Moscow ID 83844, USA.
المصدر: Systematic biology [Syst Biol] 2021 Aug 11; Vol. 70 (5), pp. 908-921.
نوع المنشور: Journal Article; Research Support, N.I.H., Extramural; Research Support, Non-U.S. Gov't; Research Support, U.S. Gov't, Non-P.H.S.
اللغة: English
بيانات الدورية: Publisher: Oxford University Press Country of Publication: England NLM ID: 9302532 Publication Model: Print Cited Medium: Internet ISSN: 1076-836X (Electronic) Linking ISSN: 10635157 NLM ISO Abbreviation: Syst Biol Subsets: MEDLINE
أسماء مطبوعة: Publication: 2009- : Oxford : Oxford University Press
Original Publication: Washington, D.C., USA : Society of Systematic Biologists, [1992-
مواضيع طبية MeSH: Genome, Mitochondrial* , Sciuridae*/genetics, Animals ; DNA, Mitochondrial ; Gene Flow ; Humans ; Phylogeny
مستخلص: Evidence from natural systems suggests that hybridization between animal species is more common than traditionally thought, but the overall contribution of introgression to standing genetic variation within species remains unclear for most animal systems. Here, we use targeted exon capture to sequence thousands of nuclear loci and complete mitochondrial genomes from closely related chipmunk species in the Tamias quadrivittatus group that are distributed across the Great Basin and the central and southern Rocky Mountains of North America. This recent radiation includes six overlapping, ecologically distinct species (Tamias canipes, Tamias cinereicollis, Tamias dorsalis, T. quadrivittatus, Tamias rufus, and Tamias umbrinus) that show evidence for widespread introgression across species boundaries. Such evidence has historically been derived from a handful of markers, typically focused on mitochondrial loci, to describe patterns of introgression; consequently, the extent of introgression of nuclear genes is less well characterized. We conducted a series of phylogenomic and species-tree analyses to resolve the phylogeny of six species in this group. In addition, we performed several population-genomic analyses to characterize nuclear genomes and infer coancestry among individuals. Furthermore, we used emerging quartets-based approaches to simultaneously infer the species tree (SVDquartets) and identify introgression (HyDe). We found that, in spite of rampant introgression of mitochondrial genomes between some species pairs (and sometimes involving up to three species), there appears to be little to no evidence for nuclear introgression. These findings mirror other genomic results where complete mitochondrial capture has occurred between chipmunk species in the absence of appreciable nuclear gene flow. The underlying causes of recurrent massive cytonuclear discordance remain unresolved in this group but mitochondrial DNA appears highly misleading of population histories as a whole. Collectively, it appears that chipmunk species boundaries are largely impermeable to nuclear gene flow and that hybridization, while pervasive with respect to mtDNA, has likely played a relatively minor role in the evolutionary history of this group. [Cytonuclear discordance; hyridization; introgression, phylogenomics; SVDquartets; Tamias.].
(© The Author(s) 2021. Published by Oxford University Press, on behalf of the Society of Systematic Biologists. All rights reserved. For permissions, please email: journals.permissions@oup.com.)
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معلومات مُعتمدة: R01 GM098536 United States GM NIGMS NIH HHS; EPS-9720634 University of Idaho Research Foundation,; Denver Museum of Nature & Science; 1P20RR016454-01 NIH NCRR; University of Idaho
المشرفين على المادة: 0 (DNA, Mitochondrial)
تواريخ الأحداث: Date Created: 20210107 Date Completed: 20211209 Latest Revision: 20220128
رمز التحديث: 20240829
مُعرف محوري في PubMed: PMC8786503
DOI: 10.1093/sysbio/syaa085
PMID: 33410870
قاعدة البيانات: MEDLINE
الوصف
تدمد:1076-836X
DOI:10.1093/sysbio/syaa085