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Identification of alkali-tolerant candidate genes using the NGS-assisted BSA strategy in rice

文献类型： 外文期刊

作者： Sun, Jian 1 ; Wang, Jingguo 1 ; Guo, Wei 1 ; Yin, Tianjiao 1 ; Zhang, Shuli 2 ; Wang, Liang 3 ; Xie, Dongwei 4 ; Zou, Det 1 ;

作者机构： 1.Northeast Agr Univ, Key Lab Germplasm Enhancement Physiol & Ecol Food, Chinese Minist Educ, Harbin 150030, Peoples R China

2.Heilongjiang Acad Agr Sci, Biotechnol Inst, Harbin 150086, Peoples R China

3.Kunming Tobacco Co Yunnan Prov, Kunming 650051, Yunnan, Peoples R China

4.Nantong Univ, Sch Life Sci, Nantong 226019, Peoples R China

关键词： Oryza sativa L; Alkali tolerance; TGW; NGS-assisted BSA; QTL; Candidate gene

期刊名称：MOLECULAR BREEDING （ 影响因子：2.589； 五年影响因子：2.75 ）

ISSN： 1380-3743

年卷期： 2021 年 41 卷 8 期

页码：

收录情况： SCI

摘要： Rice (Oryza sativa L.) is a saline-alkali-sensitive crop. Saline-alkali environments can seriously affect the growth, development, and yield of rice. The mechanisms of salt tolerance and alkali tolerance in rice are different; thus, it is very important to study and explore the alkali-tolerant gene loci to improve the saline-alkali tolerance of rice varieties. In this study, the japonica rice varieties Dongnong 425 (DN425) and Changbai 10 (CB10) and a hybridized recombinant inbred line (RIL) population were used as materials to be irrigated with Na2CO3 solution under field test conditions. A resistant pool (R-pool) and a sensitive pool (S-pool) were constructed by selecting the lines with extremely high and extremely low 1000-grain weight (TGW), respectively, from the RIL population under alkali treatment. Four candidate TGW regions on chromosomes (Chr.) 2 and 3 were associated using the bulked segregant analysis (BSA) strategy assisted by next-generation sequencing (NGS) technology (NGS-assisted BSA). Using the linkage analysis, QTL-qATGW2-2 in the candidate region was mapped within a range of 116 Kb between the SSR marker RM13592 and the Indel marker Indel3 of Chr. 2, which contained 18 predictive genes. The BSA sequencing results showed that Os02g39884 contained a nonsynonymous substitution mutation SNP (nsSNP), leading to the transformation of a residue from arginine (cGg) to glutamine (cAg); thus, Os02g39884 was inferred to be the candidate gene of qATGW2-2. The results of the qRT-PCR analysis also confirmed this. This paper provides important information for the rapid and accurate identification of the alkali-tolerant gene loci in rice.

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