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QTL identification for salt tolerance related traits at the seedling stage in indica rice using a multi-parent advanced generation intercross (MAGIC) population
Plant Growth Regulation ( IF 4.2 ) Pub Date : 2020-07-19 , DOI: 10.1007/s10725-020-00644-x
Ya Zhang , Kimberly S. Ponce , Lijun Meng , Panchali Chakraborty , Qingyuan Zhao , Longbiao Guo , Zhenyu Gao , Yujia Leng , Guoyou Ye

Salinity is one of the most important abiotic stresses, which seriously affects rice production. In this study, a multiparent advanced generation intercross population, DC1, derived from intercrossing four elite indica varieties, was used to identify QTLs conferring salt tolerance. The whole population and four parents were genotyped with a 55K rice SNP array. A total of 7 QTLs delineated from 186 significant marker-trait associations were detected on chromosomes 1, 2, 5 and 9, which accounted for 7.42–9.38% of the total phenotypic variations. Among these QTLs, one novel QTL (qRRL2) on chromosome 2 for relative root length and one multi-trait QTL (qSLST1/qRDSW1/qRB1) on chromosome 1 affecting shoot length, root dry weight and root biomass under salt treatment were detected. Gene expression analysis revealed that a transcription factor gene (LOC_Os01g66280) within the multi-trait QTL is the potential candidate gene for salt tolerance. Interestingly, we identified one significant nonsynonymous SNP in the coding region of this candidate gene. These results will facilitate fine mapping of the candidate gene and QTL pyramiding to genetically improve salt tolerance in rice.

中文翻译:

利用多亲先进世代互交(MAGIC)群体鉴定籼稻苗期耐盐相关性状的QTL

盐度是最重要的非生物胁迫之一,严重影响水稻生产。在这项研究中,来自四个优良籼稻品种的多亲代互交种群 DC1 用于鉴定赋予耐盐性的 QTL。使用 55K 水稻 SNP 阵列对整个种群和四个亲本进行基因分型。在 1、2、5 和 9 号染色体上共检测到 186 个显着标记-性状关联的 7 个 QTL,占总表型变异的 7.42-9.38%。在这些 QTL 中,检测到 2 号染色体上的 1 个新的 QTL(qRRL2)与相对根长相关,1 号染色体上的 1 个多性状 QTL(qSLST1/qRDSW1/qRB1)影响盐处理下的枝条长度、根干重和根生物量。基因表达分析表明,多性状QTL中的一个转录因子基因(LOC_Os01g66280)是耐盐性的潜在候选基因。有趣的是,我们在该候选基因的编码区发现了一个重要的非同义 SNP。这些结果将有助于候选基因的精细定位和 QTL 的聚合,以遗传改善水稻的耐盐性。
更新日期:2020-07-19
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