东乡野生稻与日本晴多态性标记的开发

东乡野生稻是分布于全球最北端的一种普通野生稻,与亚洲栽培稻基因组差异较大,目前缺少覆盖其全基因组的分子标记。本文以东乡野生稻和日本晴为材料,通过筛选已有的1017个标记,并利用东乡野生稻基因组重测序信息设计的217个InDel标记,共检测出203个标记在东乡野生稻与日本晴间呈现多态性。这些标记均匀分布于12条染色体,平均间隔1.9 Mb,基本覆盖东乡野生稻全基因组区域。通过对籼粳亚种的检验分析,发现该套多态性分子标记在东乡野生稻与粳稻杂交后代群体基因型分析上具有较高的应用价值。本研究结果为发掘东乡野生稻的有利基因以及分子标记辅助选择育种提供了有力的工具。

Development of molecular markers polymorphic between Dongxiang wild rice and Geng rice cultivar ‘Nipponbare’

Dongxiang wild rice is a type of common wild rice (Oryza rufipogon) that has the northernmost natural distribution of any wild rice species. The genome of Dongxiang wild rice differs from that of modern cultivated rice varieties (Oryza sativa). At present, a set of molecular markers that covers the entire genome of Dongxiang wild rice is lacking. In this study, we used Dongxiang wild rice and the Geng rice variety “Nipponbare” as research materials. By screening the existing collection of 1017 SSR and InDel markers and the 217 InDel markers which were designed using Dongxiang wild rice genome resequencing information, we obtained a set of 203 markers polymorphic between Dongxiang wild rice and ‘Nipponbare’, which were relatively uniformly distributed on the 12 rice chromosomes, and basically covered the entire genome, with an average inter-locus distance of 1.9 Mb. Through the genotyping of five Xian and five Geng varieties, we concluded that those 203 polymorphic molecular markers have a high application value in genotype analysis of Dongxiang wild rice and Geng rice offspring population. These results provide a powerful tool for exploring beneficial genes from Dongxiang wild rice as well as marker-assisted breeding and selection.