Genome-wide association for grain yield under rainfed conditions in historical wheat cultivars from Pakistan

• DOI: 10.3389/fpls.2015.00743
• Publication Date: 2015-09-28T08:37:51Z
• Authors: Qurat-ul Ain; Awais Rasheed; Alia Anwar; Tariq Mahmood; Muhammad Imtiaz; Tariq Mahmood; Xianchun Xia; Zhonghu He; Umar M. Quraishi
• Keywords: Genome-wide Association Study; Genetic Association; SNP; Plant Breeding

Genome-wide association studies (GWAS) were undertaken to identify SNP markers associated with yield and yield-related traits in 123 Pakistani historical wheat cultivars evaluated during 2011-2014 seasons under rainfed field conditions. The population was genotyped by using high-density Illumina iSelect 90K single nucleotide polymorphism (SNP) assay, finally 14,960 high quality SNPs used GWAS. Population structure examined 1000 unlinked identified seven subpopulations (K = 7) that representative of different breeding programs Pakistan, addition local landraces. Forty four stable marker-trait associations (MTAs) -log p > 4 for nine traits. Nine multi-trait MTAs found on chromosomes 1AL, 1BS, 2AL, 2BS, 2BL, 4BL, 5BL, 6AL, 6BL, those 5BL 6AL across two seasons. Gene annotation syntey 14 trait-associated linked genes having significant importance plant development. Favorable alleles days heading (DH), height (PH), thousand grain weight (TGW), (GY) showed minor additive effects their frequencies slightly higher released after 2000. However, no selection pressure any favorable allele identified. These genomic regions have historically contributed achieve gains from 2.63 million tons 1947 25.7 2015. Future strategies can be devised initiate marker assisted accumulate these increase yield. Additionally, silico identification 454-contigs corresponding will facilitate fine mapping subsequent cloning candidate functional