BACKGROUND The general combining ability (GCA) of parents in hybrid rice affects not only heterotic level of grain yield and other important agronomic traits, but also performance of grain quality traits of F2 bulk population which is the commodity consumed by humans. In order to make GCA improvement for quality traits in parents of hybrid rice by molecular marker assisted selection feasible, genome-wide GCA loci for quality traits in parents were detected through association analysis between the effects of GCA and constructed single nucleotide polymorphism linkage disequilibrium blocks (SNPLDBs), by using unhusked rice grains harvested from F1 plants of 48 crosses of Indica rice and 78 crosses of Japonica rice. GCA-SNPLDBs association analysis. RESULTS Among the 8 CMS and 6 restorer lines of indica rice subspecies, CMS lines Zhenpin A, Zhenshan97 A, and 257A, and restorers Kanghui98, Minghui63 and Yanhui559 were recognized as good general combiners based on their GCA effect values for the 9 quality traits (brown rice rate, milled rice rate, head rice rate, percentage of chalky grains, chalky area size, chalkiness degree, gelatinization temperature, gel consistency and amylose content). Among the 13 CMS and 6 restorer lines of japonica rice subspecies, CMS 863A, 6427A and Xu 2A, and restorers C418, Ninghui8hao and Yunhui4hao showed elite GCA effect values for the 9 traits. GCA-SNPLDB association analysis revealed 39 significant SNPLDB loci associated with the GCA of the 9 quality-related traits, and the numbers of SNPLDB loci located on chromosome 1, 2, 3, 4, 5, 8, 9, 11 and 12 were 1, 4, 3, 9, 6, 5, 5, 4 and 2, respectively. Number of superior GCA alleles for the 9 traits among the 33 parents ranged from 1 to 26. CONCLUSIONS Thirty-nine significant SNPLDBs loci were identified associated with the GCA of 9 quality-related traits, and the superior SNPLDB alleles could be used to improve the GCA of parents for the traits in the future by molecular marker assisted selection. The genetic basis of trait GCA in parents is different from that of trait itself.

中文翻译：

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杂交水稻（Oryza sativa L.）亲本构建的SNPLDB与9个品质相关性状的GCA效应之间的关联分析。

背景技术杂交稻中父母亲的一般结合能力（GCA）不仅影响谷物产量的杂种水平和其他重要的农艺性状，而且还影响作为人类消费商品的F2散装种群的谷物品质性状的表现。为了通过分子标记辅助选择使杂交水稻亲本品质性状的GCA改良成为可能，通过GCA的影响与构建的单核苷酸多态性连锁不平衡模块之间的关联分析，检测了全基因组全基因组GCA品质性状的基因座（ （SNPLDBs），使用从48个plants稻和78个粳稻的F1植物中收获的去壳稻米。GCA-SNPLDB的关联分析。结果in稻亚种的8个不育系和6个恢复系中，不育系珍品A，基于它们的9个品质性状（糙米率，精米率，糙米率，白垩率，白垩面积）的GCA效应值，Zhenshan97 A和257A以及还原剂Kanghui98，Minghui63和Yanhui559被认为是良好的综合组合大小，白垩度，糊化温度，凝胶稠度和直链淀粉含量）。在粳稻亚种的13个CMS和6个恢复系中，CMS 863A，6427A和Xu 2A以及恢复系C418，Ninghui8hao和Yunhui4hao对这9个性状表现出优良的GCA效应值。GCA-SNPLDB关联分析显示，与9个质量相关性状的GCA相关的39个重要SNPLDB位点，位于染色体1、2、3、4、5、8、9、11和12的SNPLDB位点数量为1 ，4、3、9、6、5、5、4和2。33个亲本中9个性状的优良GCA等位基因数目在1至26之间。结论鉴定出39个重要的SNPLDB基因位点与9个与品质相关的性状的GCA相关，而优良的SNPLDB等位基因可用于改善该特性。未来父母双亲的GCA通过性状标记辅助选择。父母性状GCA的遗传基础不同于性状本身。