Genome-Wide Association Study of Grain Size Traits in Indica Rice Multiparent Advanced Generation Intercross (MAGIC) Population
Genome-Wide Association Study of Grain Size Traits in Indica Rice Multiparent Advanced Generation Intercross (MAGIC) Population
复制标题
籼稻多亲高世代杂交（MAGIC）群体籽粒大小性状的全基因组关联研究
DOI：
10.3389/fpls.2020.00395
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发表时间：
2020-04-24
影响因子：
5.6
通讯作者：
Ye, Guoyou
中科院分区：
文献类型：
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作者：
Ponce, Kimberly;Zhang, Ya;Ye, Guoyou
水稻籽粒大小对决定稻米品质和产量起着至关重要的作用。本研究以2个多亲高世代互交（MAGIC）群体DC 1和BIM为材料，在3种环境下对籽粒大小进行了分析，并分别采用基于55 K微阵列的SNP检测和基因型测序（GBS）技术对籽粒大小进行了基因分型，以确定与粒长、粒宽、粒长宽比、粒厚和千粒重相关的QTL和SNP。共检测到18个QTL，它们对5个粒大小相关性状的贡献率为6.43-63.35%。其中12个QTL与克隆的基因GS 3、GW 5/qSW 5、GW 7/GL 7/SLG 7和GW 8/OsSPL 16共定位，其中前两个基因对粒长和粒宽的效应最强。从这些QTL中还鉴定出4个潜在的新基因，它们既具有遗传背景独立性，又具有环境稳定性，可在今后的研究中验证。此外，所发现的重要SNP标记对于直接利用标记辅助育种来改善水稻籽粒大小具有价值。
Rice grain size plays a crucial role in determining grain quality and yield. In this study, two multiparent advanced generation intercross (MAGIC) populations, DC1 and BIM, were evaluated for grain size across three environments and genotyped with 55K array-based SNP detection and genotype-by-sequencing (GBS), respectively, to identify QTLs and SNPs associated with grain length, grain width, grain length–width ratio, grain thickness, and thousand grain weight. A total of 18 QTLs were identified for the five grain size-related traits and explained 6.43–63.35% of the total phenotypic variance. Twelve of these QTLs colocalized with the cloned genes, GS3, GW5/qSW5, GW7/GL7/SLG7, and GW8/OsSPL16, of which the first two genes showed the strongest effect for grain length and grain width, respectively. Four potential new genes were also identified from the QTLs, which exhibited both genetic background independency and environment stability and could be validated in future studies. Moreover, the significant SNP markers identified are valuable for direct utilization in marker-assisted breeding to improve rice grain size.