Approximate genealogies under genetic hitchhiking.

TitleApproximate genealogies under genetic hitchhiking.
Publication TypeJournal Article
Year of Publication2006
AuthorsPfaffelhuber, P, Haubold, B, Wakolbinger, A
JournalGenetics
Volume174
Issue4
Pagination1995-2008
Date Published2006 Dec
ISSN0016-6731
KeywordsAlleles, Animals, Crossing Over, Genetic, Genealogy and Heraldry, Gene Frequency, Humans, Models, Genetic, Models, Theoretical, Selection, Genetic
Abstract

The rapid fixation of an advantageous allele leads to a reduction in linked neutral variation around the target of selection. The genealogy at a neutral locus in such a selective sweep can be simulated by first generating a random path of the advantageous allele's frequency and then a structured coalescent in this background. Usually the frequency path is approximated by a logistic growth curve. We discuss an alternative method that approximates the genealogy by a random binary splitting tree, a so-called Yule tree that does not require first constructing a frequency path. Compared to the coalescent in a logistic background, this method gives a slightly better approximation for identity by descent during the selective phase and a much better approximation for the number of lineages that stem from the founder of the selective sweep. In applications such as the approximation of the distribution of Tajima's D, the two approximation methods perform equally well. For relevant parameter ranges, the Yule approximation is faster.

DOI10.1534/genetics.106.061887
Alternate JournalGenetics