The coalescent in an island model of population subdivision with variation among demes - PubMed (original) (raw)
The coalescent in an island model of population subdivision with variation among demes
J Wakeley. Theor Popul Biol. 2001 Mar.
Abstract
A simple genealogical structure is found for a general finite island model of population subdivision. The model allows for variation in the sizes of demes, in contributions to the migrant pool, and in the fraction of each deme that is replaced by migrants every generation. The ancestry of a sample of non-recombining DNA sequences has a simple structure when the sample size is much smaller than the total number of demes in the population. This allows an expression for the probability distribution of the number of segregating sites in the sample to be derived under the infinite-sites mutation model. It also yields easily computed estimators of the migration parameter for each deme in a multi-deme sample. The genealogical process is such that the lineages ancestral to the sample tend to accumulate in demes with low migration rates and/or which contribute disproportionately to the migrant pool. In addition, common ancestor or coalescent events tend to occur in demes of small size. This provides a framework for understanding the determinants of the effective size of the population, and leads to an expression for the probability that the root of a genealogy occurs in a particular geographic region, or among a particular set of demes.
Copyright 2001 Academic Press.
Similar articles
- Fixation probability for a beneficial allele and a mutant strategy in a linear game under weak selection in a finite island model.
Ladret V, Lessard S. Ladret V, et al. Theor Popul Biol. 2007 Nov;72(3):409-25. doi: 10.1016/j.tpb.2007.04.001. Epub 2007 Apr 13. Theor Popul Biol. 2007. PMID: 17531280 - Dynamics of Fst for the island model.
Rottenstreich S, Hamilton MB, Miller JR. Rottenstreich S, et al. Theor Popul Biol. 2007 Dec;72(4):485-503. doi: 10.1016/j.tpb.2007.08.007. Epub 2007 Sep 4. Theor Popul Biol. 2007. PMID: 17920093 - Segregating sites in Wright's island model.
Wakeley J. Wakeley J. Theor Popul Biol. 1998 Apr;53(2):166-74. doi: 10.1006/tpbi.1997.1355. Theor Popul Biol. 1998. PMID: 9615475 - Recent trends in population genetics: more data! More math! Simple models?
Wakeley J. Wakeley J. J Hered. 2004 Sep-Oct;95(5):397-405. doi: 10.1093/jhered/esh062. J Hered. 2004. PMID: 15388767 Review. - Coalescent approximation for structured populations in a stationary random environment.
Sagitov S, Jagers P, Vatutin V. Sagitov S, et al. Theor Popul Biol. 2010 Nov;78(3):192-9. doi: 10.1016/j.tpb.2010.06.008. Epub 2010 Jul 7. Theor Popul Biol. 2010. PMID: 20619285 Review.
Cited by
- A continuous-state coalescent and the impact of weak selection on the structure of gene genealogies.
O'Fallon BD, Seger J, Adler FR. O'Fallon BD, et al. Mol Biol Evol. 2010 May;27(5):1162-72. doi: 10.1093/molbev/msq006. Epub 2010 Jan 22. Mol Biol Evol. 2010. PMID: 20097659 Free PMC article. - On the importance of being structured: instantaneous coalescence rates and human evolution--lessons for ancestral population size inference?
Mazet O, Rodríguez W, Grusea S, Boitard S, Chikhi L. Mazet O, et al. Heredity (Edinb). 2016 Apr;116(4):362-71. doi: 10.1038/hdy.2015.104. Epub 2015 Dec 9. Heredity (Edinb). 2016. PMID: 26647653 Free PMC article. - Population genomics of C. melanopterus using target gene capture data: demographic inferences and conservation perspectives.
Maisano Delser P, Corrigan S, Hale M, Li C, Veuille M, Planes S, Naylor G, Mona S. Maisano Delser P, et al. Sci Rep. 2016 Sep 21;6:33753. doi: 10.1038/srep33753. Sci Rep. 2016. PMID: 27651217 Free PMC article. - The two-locus ancestral graph in a subdivided population: convergence as the number of demes grows in the island model.
Lessard S, Wakeley J. Lessard S, et al. J Math Biol. 2004 Mar;48(3):275-92. doi: 10.1007/s00285-003-0230-x. Epub 2003 Aug 20. J Math Biol. 2004. PMID: 14991233 - Gene genealogies in a metapopulation.
Wakeley J, Aliacar N. Wakeley J, et al. Genetics. 2001 Oct;159(2):893-905. doi: 10.1093/genetics/159.2.893. Genetics. 2001. PMID: 11606561 Free PMC article.