The 297 winter rice accessions of Assam, North East India were genotyped by sequencing (GBS). The 50,985 high-quality SNPs were filtered and assigned to 12 rice chromosomes. The population structure analysis revealed three major subgroups SG1, SG2, and SG3 consisting of 30, 8, and 143 accessions respectively. The remaining 116 accessions were grouped as admixture population. Phenotypic data were recorded on13 agronomical traits for genome-wide association studies (GWAS). The 60 significant marker-trait associations (MTAs) were identified for 11 agronomical traits, which explained 0 to 15% of phenotypic variance (PV). A QTL ‘hot spot’ was detected near the centromeric region on chromosome 6. The identified QTLs may be validated and utilized in ‘genomics assisted breeding’ for improvement of existing rice cultivars of Assam and North East India.

通过测序 (GBS) 对印度东北部阿萨姆邦的 297 个冬稻种质进行了基因分型。筛选出 50,985 个高质量的 SNP，分配给 12 条水稻染色体。种群结构分析揭示了三个主要亚群 SG1、SG2 和 SG3，分别由 30、8 和 143 个种质组成。其余 116 个种质被归类为混合种群。为全基因组关联研究 (GWAS) 记录了 13 个农艺性状的表型数据。为 11 个农艺性状确定了 60 个显着的标记-性状关联 (MTA)，这解释了 0% 到 15% 的表型变异 (PV)。在 6 号染色体着丝粒区域附近检测到一个 QTL“热点”。鉴定的 QTL 可在“基因组学辅助育种”中验证并用于改进阿萨姆邦和印度东北部现有的水稻品种。