Development of Three Sets of High-Throughput Genotyped Rice Chromosome Segment Substitution Lines and QTL Mapping for Eleven Traits

文献类型： 外文期刊

第一作者： Zhang, Bin

作者： Zhang, Bin;Ruan, Banpu;Zhang, Anpeng;Yang, Shenglong;Jiang, Hongzhen;Liu, Chaolei;Gao, Zhenyu;Hu, Jiang;Zeng, Dali;Gu, Longbiao;Qian, Qian;Zhang, Bin;Shang, Lianguang;Hong, Kai;Lin, Hai;Qian, Qian

作者机构：

关键词： Chromosome segment substitution lines (CSSLs); High-throughput resequencing; QTL mapping; Grain length; GWAS

期刊名称：RICE （ 影响因子：4.783； 五年影响因子：5.23 ）

ISSN： 1939-8425

年卷期： 2019 年 12 卷

页码：

收录情况： SCI

摘要： BackgroundDetecting and mapping chromosomal regions that are related to quantitative phenotypic variation in chromosome segment substitution lines (CSSLs) provides an effective means to characterize the genetic basis of complex agronomic trait. CSSLs are also powerful tools for studying the effects of quantitative trait loci (QTLs) pyramiding and interaction on phenotypic variation.ResultsHere, we developed three sets of CSSLs consisting of 81, 55, and 61 lines, which were derived from PA64sx9311, Nipponbare x9311 and PA64sxNipponbare crosses, respectively. All of the 197 CSSLs were subjected to high-throughput genotyping by whole-genome resequencing to obtain accurate physical maps for the 3 sets of CSSLs. The 3 sets of CSSLs were used to analyze variation for 11 major agronomic traits in Hangzhou and Shenzhen and led to the detection of 71 QTLs with phenotypic effect that ranged from 7.6% to 44.8%. Eight QTLs were commonly detected under two environments for the same phenotype, and there were also 8 QTL clusters that were found. Combined with GWAS on grain length and expression profiles on young panicle tissues, qGL1 detected in CSSLs was fine mapped within a 119kb region on chromosome 1 and LOC_Os01g53140 and LOC_Os01g53250 were the two most likely candidate genes.ConclusionsOur results indicate that developing CSSLs genotyped by whole-genome resequencing are powerful tools for basic genetic research and provide a platform for the rational design of rice breeding. Meanwhile, the conjoint analysis of different CSSLs, natural population and expression profiles can facilitate QTL fine mapping.

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