Further resolution of the house mouse (Mus musculus) phylogeny by integration over isolation-with-migration histories.
Divergence
IMa3
Population size
Speciation
Journal
BMC evolutionary biology
ISSN: 1471-2148
Titre abrégé: BMC Evol Biol
Pays: England
ID NLM: 100966975
Informations de publication
Date de publication:
15 09 2020
15 09 2020
Historique:
received:
02
03
2020
accepted:
27
07
2020
entrez:
16
9
2020
pubmed:
17
9
2020
medline:
26
11
2020
Statut:
epublish
Résumé
The three main subspecies of house mice, Mus musculus castaneus, Mus musculus domesticus, and Mus musculus musculus, are estimated to have diverged ~ 350-500KYA. Resolution of the details of their evolutionary history is complicated by their relatively recent divergence, ongoing gene flow among the subspecies, and complex demographic histories. Previous studies have been limited to some extent by the number of loci surveyed and/or by the scope of the method used. Here, we apply a method (IMa3) that provides an estimate of a population phylogeny while allowing for complex histories of gene exchange. Results strongly support a topology with M. m. domesticus as sister to M. m. castaneus and M. m. musculus. In addition, we find evidence of gene flow between all pairs of subspecies, but that gene flow is most restricted from M. m. musculus into M. m. domesticus. Estimates of other key parameters are dependent on assumptions regarding generation time and mutation rate in house mice. Nevertheless, our results support previous findings that the effective population size, N Joint demographic and phylogenetic analyses of genomic data provide a clearer picture of the history of divergence in house mice.
Sections du résumé
BACKGROUND
The three main subspecies of house mice, Mus musculus castaneus, Mus musculus domesticus, and Mus musculus musculus, are estimated to have diverged ~ 350-500KYA. Resolution of the details of their evolutionary history is complicated by their relatively recent divergence, ongoing gene flow among the subspecies, and complex demographic histories. Previous studies have been limited to some extent by the number of loci surveyed and/or by the scope of the method used. Here, we apply a method (IMa3) that provides an estimate of a population phylogeny while allowing for complex histories of gene exchange.
RESULTS
Results strongly support a topology with M. m. domesticus as sister to M. m. castaneus and M. m. musculus. In addition, we find evidence of gene flow between all pairs of subspecies, but that gene flow is most restricted from M. m. musculus into M. m. domesticus. Estimates of other key parameters are dependent on assumptions regarding generation time and mutation rate in house mice. Nevertheless, our results support previous findings that the effective population size, N
CONCLUSIONS
Joint demographic and phylogenetic analyses of genomic data provide a clearer picture of the history of divergence in house mice.
Identifiants
pubmed: 32933487
doi: 10.1186/s12862-020-01666-9
pii: 10.1186/s12862-020-01666-9
pmc: PMC7493149
doi:
Banques de données
Dryad
['10.5061/dryad.qrfj6q5cp']
Types de publication
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.
Langues
eng
Sous-ensembles de citation
IM
Pagination
120Subventions
Organisme : Office of Advanced Cyberinfrastructure
ID : XSEDE: MCB180131
Pays : International
Organisme : National Science Foundation
ID : 1564659
Pays : International
Organisme : National Science Foundation
ID : 1625061
Pays : International
Organisme : NIH HHS
ID : S10 OD020095
Pays : United States
Organisme : U.S. Army
ID : W911NF-16-2-0189
Pays : International
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