Distinguishing between selective sweeps and demography using DNA polymorphism data

被引:196
作者
Jensen, JD
Kim, Y
DuMont, VB
Aquadro, CF
Bustamante, CD
机构
[1] Cornell Univ, Dept Mol Biol & Genet, Ithaca, NY 14850 USA
[2] Cornell Univ, Dept Biol Stat & Computat Biol, Ithaca, NY 14850 USA
关键词
D O I
10.1534/genetics.104.038224
中图分类号
Q3 [遗传学];
学科分类号
071007 ; 090102 ;
摘要
In 2002 Kim and Stephan proposed a promising composite-likelihood method for localizing and estimating the fitness advantage of a recently fixed beneficial mutation. Here, we demonstrate that their composite likelihood-ratio (CLR) test comparing selective and neutral hypotheses is not robust to undetected population structure or a recent bottleneck, with some parameter combinations resulting in a false positive rate of nearly 90%. We also propose a goodness-of-fit test for discriminating rejections clue to directional selection (true positive) from those due to population and demographic forces (false positives) and demonstrate that the new method has high sensitivity to differentiate the two classes of rejections.
引用
收藏
页码:1401 / 1410
页数:10
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