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Genealogical histories in structured populations

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  • Kumagai, Seiji
  • Uyenoyama, Marcy K.

Abstract

In genealogies of genes sampled from structured populations, lineages coalesce at rates dependent on the states of the lineages. For migration and coalescence events occurring on comparable time scales, for example, only lineages residing in the same deme of a geographically subdivided population can have descended from a common ancestor in the immediately preceding generation. Here, we explore aspects of genealogical structure in a population comprising two demes, between which migration may occur. We use generating functions to obtain exact densities and moments of coalescence time, number of mutations, total tree length, and age of the most recent common ancestor of the sample. We describe qualitative features of the distribution of gene genealogies, including factors that influence the geographical location of the most recent common ancestor and departures of the distribution of internode lengths from exponential.

Suggested Citation

  • Kumagai, Seiji & Uyenoyama, Marcy K., 2015. "Genealogical histories in structured populations," Theoretical Population Biology, Elsevier, vol. 102(C), pages 3-15.
    • Handle: RePEc:eee:thpobi:v:102:y:2015:i:c:p:3-15
    DOI: 10.1016/j.tpb.2015.01.003
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    References listed on IDEAS

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    1. Thomas Mailund & Julien Y Dutheil & Asger Hobolth & Gerton Lunter & Mikkel H Schierup, 2011. "Estimating Divergence Time and Ancestral Effective Population Size of Bornean and Sumatran Orangutan Subspecies Using a Coalescent Hidden Markov Model," PLOS Genetics, Public Library of Science, vol. 7(3), pages 1-15, March.
    2. Wilkinson-Herbots, Hilde M., 2008. "The distribution of the coalescence time and the number of pairwise nucleotide differences in the “isolation with migration†model," Theoretical Population Biology, Elsevier, vol. 73(2), pages 277-288.
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    Cited by:

    1. Costa, Rui J. & Wilkinson-Herbots, Hilde M., 2021. "Inference of gene flow in the process of speciation: Efficient maximum-likelihood implementation of a generalised isolation-with-migration model," Theoretical Population Biology, Elsevier, vol. 140(C), pages 1-15.
    2. Hobolth, Asger & Siri-Jégousse, Arno & Bladt, Mogens, 2019. "Phase-type distributions in population genetics," Theoretical Population Biology, Elsevier, vol. 127(C), pages 16-32.

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