Inference of population structure using multilocus genotype data: linked loci and correlated allele frequencies.
Inference of population structure using multilocus genotype data: linked loci and correlated allele frequencies.
复制标题
使用多位点基因型数据推断群体结构：连锁位点和相关等位基因频率。
DOI：
10.1093/genetics/164.4.1567
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发表时间：
2003
期刊：
影响因子：
3.3
通讯作者：
Pritchard,JonathanK
中科院分区：
文献类型：
--
作者：
Falush,Daniel;Stephens,Matthew;Pritchard,JonathanK
我们描述了从多位点基因型数据推断种群结构的Pritchardet方法的扩展。最重要的是，我们开发了允许基因座之间链接的方法。新模型解释了在混合种群中出现的连锁位点之间的相关性（“混合连锁不平衡”）。这种修改有几个优点，允许(1)检测更早回到过去的混合事件，(2)推断染色体区域的起源群体，以及(3)当使用连锁位点时更准确地估计统计不确定性。它也有可能用于外加剂制图。此外，我们描述了每个群体中等位基因频率的一个新的先验模型，该模型允许识别使用现有方法无法检测到的微妙群体细分。我们介绍了应用新方法研究非洲裔美国人的混合、幽门螺杆菌的重组和黑腹果蝇种群的漂移的结果。这些方法是在2.0版本的程序结构中实现的，可以在http://pritch.bsd.uchicago.edu上获得。
We describe extensions to the method of Pritchardet al.for inferring population structure from multilocus genotype data. Most importantly, we develop methods that allow for linkage between loci. The new model accounts for the correlations between linked loci that arise in admixed populations (“admixture linkage disequilibium”). This modification has several advantages, allowing (1) detection of admixture events farther back into the past, (2) inference of the population of origin of chromosomal regions, and (3) more accurate estimates of statistical uncertainty when linked loci are used. It is also of potential use for admixture mapping. In addition, we describe a new prior model for the allele frequencies within each population, which allows identification of subtle population subdivisions that were not detectable using the existing method. We present results applying the new methods to study admixture in African-Americans, recombination inHelicobacter pylori, and drift in populations ofDrosophila melanogaster. The methods are implemented in a program,structure, version 2.0, which is available at http://pritch.bsd.uchicago.edu.