Exploring the genetic characteristics of 93-11 and Nipponbare recombination inbred lines based on the Golden Gate SNP assay

作     者：Renbo Yu Wei Yan Manzhong Liang Xiaojun Dai Haodong Chen Yunong Sun Xingwang Deng Xiangding Chen Hang He Liangbi Chen 

作者机构：College of Life Sciences Hunan Normal University State Key Laboratory of Protein and Plant Gene Research Peking-Tsinghua Center for Life Sciences School of Advanced Agriculture Sciences and School of Life Sciences Peking University College of Life Sciences Capital Normal University 

出 版 物：《Science China(Life Sciences)》 (中国科学（生命科学英文版）)

年 卷 期：2016年第59卷第7期

页      面：700-707页

核心收录：

学科分类：0710[理学-生物学] 07[理学] 09[农学] 071007[理学-遗传学] 0901[农学-作物学] 

基　　金：supported by the National High Technology Research and Development Program of China (2012AA10A304, 2014AA10A602) the National Basic Research Program of China (2013CBA01402) the National Natural Science Foundation of China (U1031001) 

主　　题：GoldenGate SNP assay linkage map segregation-distorted markers QTLs 

摘      要：Understanding genetic characteristics in rice populations will facilitate exploring evolutionary mechanisms and gene cloning. Numerous molecular markers have been utilized in linkage map construction and quantitative trait locus （QTL） mappings. However, segregation-distorted markers were rarely considered, which prevented understanding genetic characteristics in many populations. In this study, we designed a 384-marker GoldenGate SNP array to genotype 283 recombination inbred lines （RILs） derived from 93-11 and Nipponbare Oryza sativa crosses. Using 294 markers that were highly polymorpbic between parents, a linkage map with a total genetic distance of 1,583.2 cM was constructed, including 231 segregation-distorted mark- ers. This linkage map was consistent with maps generated by other methods in previous studies. In total, 85 significant quanti- tative trait loci （QTLs） with phenotypic variation explained （PVE） values〉5% were identified. Among them, 34 QTLs were overlapped with reported genes/QTLs relevant to corresponding traits, and 17 QTLs were overlapped with reported sterili- ty-related genes/QTLs. Our study provides evidence that segregation-distorted markers can be used in linkage map construc- tion and QTL mapping. Moreover, genetic information resulting from this study will help us to understand recombination events and segregation distortion. Furthermore, this study will facilitate gene cloning and understanding mechanism of in- ter-subspecies hybrid sterility and correlations with important agronomic traits in rice.