Recent history of artificial outcrossing facilitates whole-genome association mapping in elite inbred crop varieties
Recent history of artificial outcrossing facilitates whole-genome association mapping in elite inbred crop varieties
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DOI：
10.1073/pnas.0606133103
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发表时间：
2006-12-05
影响因子：
11.1
通讯作者：
Waugh, Robbie
中科院分区：
文献类型：
--
作者：
Rostoks, Nils;Ramsay, Luke;Waugh, Robbie
全基因组关联研究取决于连锁不平衡（LID）的程度、标记的数量和分布以及所研究群体的潜在结构。远交物种通常表现出有限的LD，因此，需要非常大量的标记进行有效的全基因组关联遗传扫描。相比之下，世界上几种主要的粮食作物都是自交近交的物种，遗传基础狭窄，理论上有广泛的LD。在基于LID的研究中，这些预测一起导致低分辨率和高频率的虚假关联的组合。然而，近交优良植物品种代表了一个独特的人类诱导的假远交种群，已受到强选择的有利等位基因。通过分析1，524个全基因组SNIPS，我们证明，在考虑群体亚结构后，通过使用具有数百至数千个双等位基因SNPs的全基因组关联扫描，可以有效地利用西北欧大麦（一种典型的近交谷类作物）中表现出的LID水平来绘制性状。
Genomewide association studies depend on the extent of linkage disequilibrium (LID), the number and distribution of markers, and the underlying structure in populations under study. Outbreeding species generally exhibit limited LD, and consequently, a very large number of markers are required for effective whole-genome association genetic scans. In contrast, several of the world's major food crops are self-fertilizing inbreeding species with narrow genetic bases and theoretically extensive LD. Together these are predicted to result in a combination of low resolution and a high frequency of spurious associations in LID-based studies. However, inbred elite plant varieties represent a unique human-induced pseudooutbreeding population that has been subjected to strong selection for advantageous alleles. By assaying 1,524 genomewide SNIPS we demonstrate that, after accounting for population substructure, the level of LID exhibited in elite northwest European barley, a typical inbred cereal crop, can be effectively exploited to map traits,by using whole-genome association scans with several hundred to,thousands of biallelic SNPs.