Journal
MOLECULAR ECOLOGY
Volume 22, Issue 21, Pages 5278-5294Publisher
WILEY
DOI: 10.1111/mec.12488
Keywords
admixture; hidden Markov model; introgression; Markov chain Monte Carlo; population genetics
Funding
- National Science Foundation [DDIG-1011173, DEB-1050149]
- Division Of Environmental Biology
- Direct For Biological Sciences [1050947, 1050149, 1050355] Funding Source: National Science Foundation
- Division Of Environmental Biology
- Direct For Biological Sciences [1050726] Funding Source: National Science Foundation
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Gene flow and recombination in admixed populations produce genomes that are mosaic combinations of chromosome segments inherited from different source populations, that is, chromosome segments with different genetic ancestries. The statistical problem of estimating genetic ancestry from DNA sequence data has been widely studied, and analyses of genetic ancestry have facilitated research in molecular ecology and ecological genetics. In this review, we describe and compare different model-based statistical methods used to infer genetic ancestry. We describe the conceptual and mathematical structure of these models and highlight some of their key differences and shared features. We then discuss recent empirical studies that use estimates of genetic ancestry to analyse population histories, the nature and genetic basis of species boundaries, and the genetic architecture of traits. These diverse studies demonstrate the breadth of applications that rely on genetic ancestry estimates and typify the genomics-enabled research that is becoming increasingly common in molecular ecology. We conclude by identifying key research areas where future studies might further advance this field.
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