Coalescence times for three genes provide sufficient information to distinguish population structure from population size changes

Journal of Mathematical Biology
Simona GruseaOlivier Mazet

Abstract

The increasing amount of genomic data currently available is expanding the horizons of population genetics inference. A wide range of methods have been published allowing to detect and date major changes in population size during the history of species. At the same time, there has been an increasing recognition that population structure can generate genetic data similar to those generated under models of population size change. Recently, Mazet et al. (Heredity 116(4):362-371, 2016) introduced the idea that, for any model of population structure, it is always possible to find a panmictic model with a particular function of population size-change having an identical distribution of [Formula: see text] (the time of the first coalescence for a sample of size two). This implies that there is an identifiability problem between a panmictic and a structured model when we base our analysis only on [Formula: see text]. In this paper, based on an analytical study of the rate matrix of the ancestral lineage process, we obtain new theoretical results about the joint distribution of the coalescence times [Formula: see text] for a sample of three haploid genes in a n-island model with constant size. Even if, for any [Formula: see text], it is...Continue Reading

References

Oct 1, 1991·Genetical Research·M Slatkin
Jan 1, 1990·Journal of Mathematical Biology·M Notohara
Apr 1, 1983·Theoretical Population Biology·R R Hudson
Jun 29, 1994·Philosophical Transactions of the Royal Society of London. Series B, Biological Sciences·R C Griffiths, S Tavaré
Sep 1, 1993·Journal of Molecular Evolution·M Nei, N Takahata
Jan 19, 2006·PLoS Biology·Benoît GoossensMichael W Bruford
Mar 7, 2008·Theoretical Population Biology·Simon MyersNick Patterson
Jul 25, 2012·Proceedings of the National Academy of Sciences of the United States of America·Erwan QuéméréLounès Chikhi
Jun 24, 2014·Nature Genetics·Stephan Schiffels, Richard Durbin
Dec 17, 2014·Theoretical Population Biology·Junhyong KimNathan Ross
Jun 10, 2015·Proceedings of the National Academy of Sciences of the United States of America·Jonathan Terhorst, Yun S Song
Jul 4, 2017·ELife·Daniel B Weissman, Oskar Hallatschek

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Citations

Apr 13, 2020·Theoretical Population Biology·Elise KerdoncuffGuillaume Achaz
May 19, 2021·Journal of Genetics and Genomics = Yi Chuan Xue Bao·Zeqi YaoXionglei He

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