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Inferring multi-locus selection in admixed populations.

Nicolas M Ayala1,2, Maximilian Genetti1,2, Russell Corbett-Detig1,2

  • 1Genomics Institute, University of California, Santa Cruz; Santa Cruz, California, United States of America.

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Summary
This summary is machine-generated.

Admixture introduces many selected alleles, making linked sites important for adaptive evolution. New methods reveal linkage impacts, correcting overestimations from single-site analyses in admixed populations.

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Area of Science:

  • Evolutionary genetics
  • Population genetics
  • Genomics

Background:

  • Admixture, the exchange of genetic material between populations, is a key driver of adaptive genetic variation.
  • Unlike single mutations, admixture can introduce multiple selected alleles simultaneously, potentially enhancing the effects of linkage.
  • Current methods for detecting selection in admixed populations often overlook the influence of linked selected sites.

Purpose of the Study:

  • To develop and validate a novel method for identifying and quantifying the effects of multiple linked selected sites in admixed populations.
  • To investigate the evolutionary significance of linkage among selected alleles in admixed populations.
  • To address the limitations of existing single-site selection analyses.

Main Methods:

  • Numerical calculation of the expected local ancestry landscape under multi-locus selection models.
  • Likelihood maximization to infer selection parameters.
  • Application to admixed populations of Drosophila melanogaster and Passer italiae.

Main Results:

  • The developed method successfully identifies and quantifies the effects of multiple linked selected sites.
  • Linkage between selected sites significantly contributes to natural selection in admixed populations.
  • Analyses ignoring linkage overestimate selection coefficients and the number of selected sites.

Conclusions:

  • Linkage among selected sites is a crucial evolutionary force in admixed populations.
  • The new tool provides a generalized approach for studying these phenomena in diverse populations.
  • Accurate inference of selection requires consideration of linkage effects.