National Center for Soybean Improvement, National Key Laboratory of Crop Genetics and Germplasm Enhancement, Nanjing Agricultural University, 210095, Nanjing, China.
Theor Appl Genet. 2012 Feb;124(3):447-58. doi: 10.1007/s00122-011-1719-0. Epub 2011 Oct 14.
Genome-wide association analysis is a powerful approach to identify the causal genetic polymorphisms underlying complex traits. In this study, we evaluated a population of 191 soybean landraces in five environments to detect molecular markers associated with soybean yield and its components using 1,536 single-nucleotide polymorphisms (SNPs) and 209 haplotypes. The analysis revealed that abundant phenotypic and genetic diversity existed in the studied population. This soybean population could be divided into two subpopulations and no or weak relatedness was detected between pair-wise landraces. The level of intra-chromosomal linkage disequilibrium was about 500 kb. Genome-wide association analysis based on the unified mixed model identified 19 SNPs and 5 haplotypes associated with soybean yield and yield components in three or more environments. Nine markers were found co-associated with two or more traits. Many markers were located in or close to previously reported quantitative trait loci mapped by linkage analysis. The SNPs and haplotypes identified in this study will help to further understand the genetic basis of soybean yield and its components, and may facilitate future high-yield breeding by marker-assisted selection in soybean.
全基因组关联分析是一种强大的方法，可用于鉴定复杂性状的潜在因果遗传多态性。在这项研究中，我们评估了来自五个环境的 191 个大豆地方品种群体，使用 1536 个单核苷酸多态性（SNP）和 209 个单倍型检测与大豆产量及其组成相关的分子标记。分析表明，研究群体中存在丰富的表型和遗传多样性。该大豆群体可分为两个亚群，在两两地方品种之间未检测到或检测到弱相关性。染色体内连锁不平衡的水平约为 500kb。基于统一混合模型的全基因组关联分析鉴定出 19 个 SNP 和 5 个单倍型，它们在三个或更多环境中与大豆产量及其组成有关。有 9 个标记与两个或更多性状共关联。许多标记位于或靠近先前通过连锁分析映射的数量性状位点。本研究中鉴定的 SNP 和单倍型将有助于进一步了解大豆产量及其组成的遗传基础，并可能通过大豆标记辅助选择促进未来的高产育种。
