A genomewide admixture mapping panel for hispanic/latino populations
A genomewide admixture mapping panel for hispanic/latino populations
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DOI：
10.1086/518564
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发表时间：
2007-06-01
影响因子：
9.8
通讯作者：
Parra, Esteban J.
中科院分区：
文献类型：
--
作者：
Mao, Xianyun;Bigham, Abigail W.;Parra, Esteban J.
混合定位（AM）是一种很有前途的方法，用于识别复杂性状和疾病的遗传危险因素，显示人群之间的流行差异。该方法的有效应用需要使用全基因组谱系信息标记（AIMs）来推断混合个体中染色体区域的起源群体。带有标记的全基因组AM面板显示西非和欧洲人群之间的高频率差异，已经可用于非洲裔美国人的疾病基因发现。然而，西班牙裔/拉丁裔人口还没有这样的地图，这是美洲原住民和欧洲人口双向混合的结果，或者是美洲原住民、欧洲人和西非人口三方混合的结果。在这里，我们报告了一个全基因组的2120个AM面板，显示了美洲原住民和欧洲人群之间的高频差异。标记间平均遗传距离为1.7 cM。使用Affymetrix基因芯片人类图谱500K阵列，通过基因分型确定了该小组，其中包括具有欧洲血统的人群样本，包括来自墨西哥的玛雅人和纳瓦人的中美洲样本，以及包括来自玻利维亚的艾马拉/盖丘亚人和来自秘鲁的盖丘亚人的南美样本。标记选择的主要标准是美洲原住民/欧洲血统的高信息含量（以等位基因频率的标准化方差衡量，也称为“f值”）和中美洲和南美洲样本之间的小频率差异。这个全基因组AM面板将使在整个美洲的许多混合种群中应用AM方法成为可能。
Admixture mapping ( AM) is a promising method for the identification of genetic risk factors for complex traits and diseases showing prevalence differences among populations. Efficient application of this method requires the use of a genomewide panel of ancestry-informative markers (AIMs) to infer the population of origin of chromosomal regions in admixed individuals. Genomewide AM panels with markers showing high frequency differences between West African and European populations are already available for disease-gene discovery in African Americans. However, no such a map is yet available for Hispanic/Latino populations, which are the result of two-way admixture between Native American and European populations or of three-way admixture of Native American, European, and West African populations. Here, we report a genomewide AM panel with 2,120 AIMs showing high frequency differences between Native American and European populations. The average intermarker genetic distance is similar to 1.7 cM. The panel was identified by genotyping, with the Affymetrix GeneChip Human Mapping 500K array, a population sample with European ancestry, a Mesoamerican sample comprising Maya and Nahua from Mexico, and a South American sample comprising Aymara/Quechua from Bolivia and Quechua from Peru. The main criteria for marker selection were both high information content for Native American/European ancestry (measured as the standardized variance of the allele frequencies, also known as "f value") and small frequency differences between the Mesoamerican and South American samples. This genomewide AM panel will make it possible to apply AM approaches in many admixed populations throughout the Americas.