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Joint identity among loci under mutation and regular inbreeding

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  • Uyenoyama, Marcy K.

Abstract

This study describes a compact method for determining joint probabilities of identity-by-state (IBS) within and between loci in populations evolving under genetic drift, crossing-over, mutation, and regular inbreeding (partial self-fertilization). Analogues of classical indices of associations among loci arise as functions of these joint identities. This coalescence-based analysis indicates that multi-locus associations reflect simultaneous coalescence events across loci. Measures of association depend on genetic diversity rather than allelic frequencies, as do linkage disequilibrium and its relatives. Scaled indices designed to show monotonic dependence on rates of crossing-over, inbreeding, and mutation may prove useful for interpreting patterns of genome-scale variation.

Suggested Citation

  • Uyenoyama, Marcy K., 2024. "Joint identity among loci under mutation and regular inbreeding," Theoretical Population Biology, Elsevier, vol. 159(C), pages 74-90.
    • Handle: RePEc:eee:thpobi:v:159:y:2024:i:c:p:74-90
    DOI: 10.1016/j.tpb.2024.08.002
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    References listed on IDEAS

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    1. VanLiere, Jenna M. & Rosenberg, Noah A., 2008. "Mathematical properties of the r2 measure of linkage disequilibrium," Theoretical Population Biology, Elsevier, vol. 74(1), pages 130-137.
    2. Uyenoyama, Marcy K. & Takebayashi, Naoki & Kumagai, Seiji, 2019. "Inductive determination of allele frequency spectrum probabilities in structured populations," Theoretical Population Biology, Elsevier, vol. 129(C), pages 148-159.
    3. Kumagai, Seiji & Uyenoyama, Marcy K., 2015. "Genealogical histories in structured populations," Theoretical Population Biology, Elsevier, vol. 102(C), pages 3-15.
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