Institute of Crop Sciences/National Key Facility for Crop Gene Resources and Genetic Improvement, Chinese Academy of Agricultural Sciences, 12 South Zhong-Guan-Cun Street, Beijing, China.
Shenzhen Institute of Breeding and Innovation, Chinese Academy of Agricultural Sciences, Shenzhen, China.
Sci Rep. 2018 Apr 25;8(1):6505. doi: 10.1038/s41598-018-24946-3.
To facilitate developing rice varieties tolerant to salt stress, a panel of 208 rice mini-core accessions collected from 25 countries were evaluated for 13 traits associated with salt tolerance (ST) at the germination and seedling stages. The rice panel showed tremendous variation for all measured ST traits and eight accessions showing high levels of ST at either and/or both the germination and seedling stages. Using 395,553 SNP markers covering ~372 Mb of the rice genome and multi-locus mixed linear models, 20 QTN associated with 11 ST traits were identified by GWAS, including 6 QTN affecting ST at the germination stage and 14 QTN for ST at the seedling stage. The integration of bioinformatic with haplotype analyses for the ST QTN lets us identify 22 candidate genes for nine important ST QTN (qGR3, qSNK1, qSNK12, qSNC1, qSNC6, qRNK2, qSDW9a, qSST5 and qSST9). These candidate genes included three known ST genes (SKC1, OsTZF1 and OsEATB) for QTN qSNK1 qSST5 and qSST9. Candidate genes showed significant phenotypic differences in ST traits were detected between or among 2-4 major haplotypes. Thus, our results provided useful materials and genetic information for improving rice ST in future breeding and for molecular dissection of ST in rice.
为了促进耐盐水稻品种的开发，从 25 个国家收集了 208 个水稻 mini-core 品系，对与发芽和幼苗期耐盐性相关的 13 个性状进行了评价。该水稻品系在所有测定的耐盐性状上表现出巨大的变异，8 个品系在发芽和幼苗期的任一个或两个阶段都表现出高水平的耐盐性。利用覆盖水稻基因组约 372Mb 的 395,553 个 SNP 标记和多基因混合线性模型，通过 GWAS 鉴定了与 11 个耐盐性状相关的 20 个 QTN，包括影响发芽期耐盐性的 6 个 QTN 和幼苗期耐盐性的 14 个 QTN。耐盐 QTN 的生物信息学与单倍型分析的整合使我们能够鉴定出 9 个重要耐盐 QTN（qGR3、qSNK1、qSNK12、qSNC1、qSNC6、qRNK2、qSDW9a、qSST5 和 qSST9）的 22 个候选基因。这些候选基因包括三个已知的耐盐基因（SKC1、OsTZF1 和 OsEATB），它们与 QTN qSNK1、qSST5 和 qSST9 有关。在 2-4 个主要单倍型之间或之间检测到候选基因与耐盐性状的显著表型差异。因此，我们的研究结果为未来的育种中提高水稻耐盐性提供了有用的材料和遗传信息，并为水稻耐盐性的分子解析提供了依据。
