Evaluation of the genetic diversity and genome-wide linkage disequilibrium of Chinese maize inbred lines.
Evaluation of the genetic diversity and genome-wide linkage disequilibrium of Chinese maize inbred lines.
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发表时间：
2011
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通讯作者：
Ming Wang;Xiaobo Zhang;Jiuran Zhao;Wei Song;Yong-lian Zheng
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作者：
Ming Wang;Xiaobo Zhang;Jiuran Zhao;Wei Song;Yong-lian Zheng
研究玉米的遗传多样性、群体结构和连锁不平衡将有助于提高玉米育种效率的亲本选择。本研究对中国地区具有重要商业价值和/或亲本选育的173个自交系的遗传多样性、连锁不平衡和群体结构进行了研究。利用基于模型的贝叶斯聚类分析，可以将这些品系划分为LAN、P、REID和TSPT四个亚群，其中大部分与信息家系一致。利用78个SSR标记，每个座位的遗传多样性平均为8.1个等位基因(范围2~17)。多态信息含量和基因多样性的平均值分别为0.667和0.704。位于同一染色体上的547对SSR在0.01水平上表现出显著的连锁不平衡。我们的结果表明，该群体可能适合于未来的标记-表型关联分析。此外，观察到的LD的比例高于预期LD的比例，这表明我们在使用关联图谱时要注意高风险的虚假关联，这可能是由于种群分层而产生的。本研究的遗传多样性、群体结构和LD分析为今后基因和数量性状座位的关联定位提供了依据。
Investigation of the genetic diversity, population structure, and linkage disequilibrium of maize will assist in the selection of parental lines for enhanced efficiency of maize breeding. In the present research, we investigated genetic diversity, linkage disequilibrium, and population structure among 173 inbred lines that were commercially important and/or were parental lines used for breeding in China. Using the model-based Bayesian clustering analysis, these lines could be assigned to four subgroups, Lan, P, Reid, and TSPT, most of which were in agreement with the pedigree of information. Using 78 SSR markers, the genetic diversity was determined to be an average of 8.1 alleles per locus (range 2 to 17). The average values of PIC (Polymorphic information content) and gene diversity were 0.667 and 0.704, respectively. A total of 547 pairs of SSRs on the same chromosome demonstrated significant linkage disequilibrium (LD) at the 0.01 level. Our results suggested that this population may be suitable for future marker-phenotype association analysis. In addition, the proportions of the observed LD were higher than that those of expected LD, indicating that we be careful for a high risk of spurious association, which could be generated by population stratification when using association mapping. The genetic diversity, population structure, and LD analysis in this study provided provide a basis for future association mapping for genes and quantitative trait loci.