Key Laboratory of Plant Functional Genomics of the Ministry of Education / Jiangsu Key Laboratory of Crop Genomics and Molecular Breeding / Jiangsu Co-Innovation Center for Modern Production Technology of Grain Crops / Joint International Research Laboratory of Agriculture and Agri-Product Safety of Ministry of Education of China, Yangzhou University, Yangzhou, 225009, China.
Theor Appl Genet. 2024 Feb 26;137(3):58. doi: 10.1007/s00122-024-04562-8.
SNP-based and InDel-based GWAS on multi-environment data identified genomic regions associated with barley grain size. Barley yield and quality are greatly influenced by grain size. Improving barley grain size in breeding programs requires knowledge of genetic loci and alleles in germplasm resources. In this study, a collection of 334 worldwide two-rowed barley accessions with extensive genetic diversity was evaluated for grain size including grain length (GL), grain width (GW), and thousand-grain weight (TGW) across six independent field trials. Significant differences were observed in genotype and environments for all measured traits. SNP- and InDel-based GWAS were applied to dissect the genetic architecture of grain size with an SLAF-seq strategy. Two approaches using the FarmCPU model revealed 38 significant marker-trait associations (MTAs) with PVE ranging from 0.01% to 20.68%. Among these MTAs, five were on genomic regions where no previously reported QTL for grain size. Superior alleles of TGW-associated SNP233060 and GL-associated InDel11006 exhibited significantly higher levels of phenotype. The significant MTAs could be used in marker-assisted selection breeding.
基于 SNP 和 InDel 的多环境数据 GWAS 鉴定了与大麦粒大小相关的基因组区域。大麦的产量和品质受粒大小的影响很大。在育种计划中提高大麦的粒大小需要了解遗传基因座和种质资源中的等位基因。在这项研究中，对来自全球的 334 个二棱大麦品种进行了广泛的遗传多样性评估，包括在六个独立的田间试验中测量的粒长 (GL)、粒宽 (GW) 和千粒重 (TGW)。在所有测量的性状中，基因型和环境之间都存在显著差异。利用 SLAF-seq 策略，基于 SNP 和 InDel 的 GWAS 被用于剖析粒大小的遗传结构。使用 FarmCPU 模型的两种方法揭示了 38 个与 PVE 范围为 0.01%至 20.68%的显著标记-性状关联 (MTA)。在这些 MTA 中，有 5 个位于以前没有报道过的与粒大小相关的 QTL 所在的基因组区域。与 TGW 相关的 SNP233060 和 GL 相关的 InDel11006 的优异等位基因表现出显著更高的表型水平。这些显著的 MTA 可用于标记辅助选择育种。
