Journal
MOLECULAR BIOLOGY AND EVOLUTION
Volume 27, Issue 5, Pages 1162-1172Publisher
OXFORD UNIV PRESS
DOI: 10.1093/molbev/msq006
Keywords
coalescent; weak selection; gene genealogies; interference; multisite selection
Funding
- National Science Foundation [DBI-0906018]
- Div Of Biological Infrastructure
- Direct For Biological Sciences [0906018] Funding Source: National Science Foundation
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Coalescent theory provides an elegant and powerful method for understanding the shape of gene genealogies and resulting patterns of genetic diversity. However, the coalescent does not naturally accommodate the effects of heritable variation in fitness. Although some methods are available for studying the effects of strong selection (Ns >> 1), few tools beyond forward simulation are available for quantifying the impact of weak selection at many sites. Here, we introduce a continuous-state coalescent capable of accurately describing the distortions to genealogies caused by moderate to weak natural selection affecting many linked sites. We calculate approximately the full distribution of pairwise coalescent times, the lengths of coalescent intervals, and the time to the most recent common ancestor of a sample. Weak selection (Ns approximate to 1) is found to substantially decrease the tree depth, primarily through a shortening of the lengths of the basal coalescent intervals. Additionally, we demonstrate that only two parameters, population size and the variance of the distribution describing fitness heritability, are sufficient to describe most changes.
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