Deciphering Genetics Underlying Stable Anaerobic Germination in Rice: Phenotyping, QTL Identification, and Interaction Analysis
Deciphering Genetics Underlying Stable Anaerobic Germination in Rice: Phenotyping, QTL Identification, and Interaction Analysis
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DOI：
10.1186/s12284-019-0305-y
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发表时间：
2019-07-15
期刊：
影响因子：
5.5
通讯作者：
Dixit, Shalabh
中科院分区：
文献类型：
--
作者：
Ghosal, Sharmistha;Casal, Carlos, Jr.;Dixit, Shalabh
水稻的厌氧发芽是直播稻获得成功的重要性状。水稻通常在厌氧条件下发芽率低，这导致播种后下雨时DSR中的作物林分较差。水稻在水下发芽的能力降低了作物生长不良的风险。此外，这允许使用水作为杂草控制的方法。鉴定导致高厌氧发芽的遗传因素是开发改良的DSR品种所必需的。在本研究中，两个BC 1F 2：3作图家庭涉及一个共同的父母与厌氧发芽潜力，Kalarata，籼稻地方品种，和两个轮回父母，NSIC Rc 222和NSIC Rc 238，被使用。在两种环境条件下进行表型分型，并通过KASP SNP基因分型平台进行基因分型。共185个和189个个体的基因型与170和179个多态性SNPs用于QTL分析的两个群体，Kalarata/NSIC Rc 238和Kalarata/NSIC Rc 222，分别。在整个群体和筛选条件下，在第3、5、6、7和8号染色体上共鉴定了5个存活率（SUR）QTL，在第1、3（两个位置）和7号染色体上共鉴定了4个苗高（SH）性状QTL。除第5和第8染色体上的QTL外，具有AG潜力的亲本Kalarata贡献了所有其他QTL。在5个SUR QTL中，第二大QTL（qSUR 6 -1）是新发现的，在遗传背景和筛选条件下稳定表达，可解释11.96%~ 16.01%的表型变异。SH的QTL（qSH 1 -1）也是新的。在不同遗传背景和不同筛选条件下，检测到的SUR性状的QTL解释表型变异的范围为57.60%~ 73.09%，SH性状的QTL解释表型变异的范围为13.53%~ 34.30%。
Anaerobic germination (AG) is an important trait for direct-seeded rice (DSR) to be successful. Rice usually has low germination under anaerobic conditions, which leads to a poor crop stand in DSR when rain occurs after seeding. The ability of rice to germinate under water reduces the risk of poor crop stand. Further, this allows the use of water as a method of weed control. The identification of the genetic factors leading to high anaerobic germination is required to develop improved DSR varieties. In the present study, two BC1F2:3 mapping families involving a common parent with anaerobic germination potential, Kalarata, an indica landrace, and two recurrent parents, NSIC Rc222 and NSIC Rc238, were used. Phenotyping was done under two environmental conditions and genotyping was carried out through the KASP SNP genotyping platform. A total of 185 and 189 individuals genotyped with 170 and 179 polymorphic SNPs were used for QTL analysis for the two populations, Kalarata/NSIC Rc238 and Kalarata/NSIC Rc222, respectively. A total of five QTLs on chromosomes 3, 5, 6, 7, and 8 for survival (SUR) and four QTLs on chromosomes 1, 3 (two locations), and 7 for the trait seedling height (SH) across the populations and over the screening conditions were identified. Except for the QTLs on chromosomes 5 and 8, the parent with AG potential, Kalarata, contributed all the other QTLs. Among the five QTLs for SUR, the second-largest QTL (qSUR6-1) was novel for AG potential in rice, showing a stable expression in terms of genetic background and screening conditions explaining 11.96% to 16.01% of the phenotypic variation. The QTL for SH (qSH1-1) was also novel. Considering different genetic backgrounds and different screening conditions, the QTLs identified for the trait SUR explained phenotypic variation in the range of 57.60% to 73.09% while that for the trait SH ranged from 13.53% to 34.30%.