Use of autosomal loci for clustering individuals and populations of East Asian origin
Use of autosomal loci for clustering individuals and populations of East Asian origin
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DOI：
10.1007/s00439-005-1334-8
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发表时间：
2005-10-01
期刊：
影响因子：
5.3
通讯作者：
Kidd, KK
中科院分区：
文献类型：
--
作者：
Kim, JJ;Verdu, P;Kidd, KK
我们基于等位基因频率差异研究了东亚人群之间的遗传关系，以阐明东亚人群之间的相对相似性，并特别关注已知遗传相似的韩国人、日本人和中国人之间的关系。目标是找到适当的标记来区分特定的种群。在这项研究中，没有关于韩国人的先前数据，并选择了区分中国人和日本人的标记。我们用AB TaqMan方法对来自8个东亚人群(旧金山汉族、台湾汉族、客家人、韩国人、日本人、阿美人、泰雅人和柬埔寨人)和1个西伯利亚人(雅库特人)的386个个体的43个高度选择的主要是独立的双等位基因位点上的单核苷酸多态(SNP)进行了分型。分别用DISTANCE、Neighbor、LSSEARCH和DRAWTREE计算种群间的遗传距离，计算邻接树和最小二乘树，并绘制出计算得到的树。平均而言，在三个中国人组中，52%的人被分配到一个组中，而分别有78%和69%的韩国人和日本人被分配到不同的组中。韩国人与中国人不同，在主成分分析(PCA)和最佳最小二乘树上与日本人聚在一起。大多数韩国人很难与日本人区分开来。这项研究表明，相对较少的精选标记可以在一定范围内区分密切相关的群体。
We studied the genetic relationships among East Asian populations based on allele frequency differences to clarify the relative similarities of East Asian populations with a specific focus on the relationships among the Koreans, the Japanese, and the Chinese populations known to be genetically similar. The goal is to find markers appropriate for differentiating among the specific populations. In this study, no prior data existed for Koreans and the markers were selected to differentiate Chinese and Japanese. We typed, using AB TaqMan assays, single-nucleotide polymorphisms (SNPs) at 43 highly selected mostly independent diallelic sites, on 386 individuals from eight East Asian populations (Han Chinese from San Francisco, Han Chinese from Taiwan, Hakka, Koreans, Japanese, Ami, Atayal, and Cambodians) and one Siberian population (Yakut). We inferred group membership of individuals using a model-based clustering method implemented by the STRUCTURE program and population clustering by using computer programs DISTANCE, NEIGHBOR, LSSEARCH, and DRAWTREE, respectively, calculating genetic distances among populations, calculating neighbor-joining and least-squares trees, and drawing the calculated trees. On average 52% of individuals in the three Chinese groups were assigned into one cluster, and, respectively, 78 and 69% of Koreans and Japanese into a different cluster. Koreans differentiated from the Chinese groups and clustered with the Japanese in the principal component analysis (PCA) and in the best least-squares tree. The majority of Koreans were difficult to distinguish from the Japanese. This study shows that a relatively few highly selected markers can, within limits, differentiate between closely related populations.