Genome-Wide Association Mapping through 90K SNP Array for Quality and Yield Attributes in Bread Wheat against Water-Deficit Conditions

Hafiz Ghulam Muhu-Din Ahmed, Muhammad Sajjad, Yawen Zeng, Muhammad Iqbal, Sultan Habibullah Khan, Aziz Ullah and Malik Nadeem Akhtar
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Hafiz Ghulam Muhu-Din Ahmed: Department of Botany, University of Central Punjab, Punjab Group of Colleges, Bahawalpur 63100, Pakistan
Muhammad Sajjad: Department of Biosciences, COMSATS University Islamabad (CUI), Park Road, Islamabad 45550, Pakistan
Yawen Zeng: Biotechnology and Germplasm Resources Institute, Yunnan Academy of Agricultural Sciences, Kunming 650205, China
Muhammad Iqbal: Department of Plant Breeding and Genetics, Faculty of Agriculture, The Islamia University of Bahawalpur, Bahawalpur 63100, Pakistan
Sultan Habibullah Khan: Center of Agricultural Biotechnology and Biochemistry, University of Agriculture Faisalabad, Faisalabad 38000, Pakistan
Aziz Ullah: Department of Plant Breeding and Genetics, College of Agriculture, University of Sargodha, Sargodha 40100, Pakistan
Malik Nadeem Akhtar: Department of Biosciences, COMSATS University Islamabad (CUI), Park Road, Islamabad 45550, Pakistan

Agriculture, 2020, vol. 10, issue 9, 1-23

Abstract: The decrease in water resources is a serious threat to food security world-wide. In this regard, a genome-wide association study (GWAS) was conducted to identify grain yield and quality-related genes/loci under normal and water-deficit conditions. Highly significant differences were exhibited among genotypes under both conditions for all studied traits. Water-deficit stress caused a reduction in grains yield and an increase in grains protein contents (GPC) and gluten contents (GLC). Population structure divided the 96 genotypes into four sub-populations. Out of 72 significant marker-trait associations (MTAs), 28 and 44 were observed under normal and water-deficit stress conditions, respectively. Pleiotropic loci ( RAC875_s117925_244, BobWhite_c23828_341 and wsnp_CAP8_c334_304253 ) for yield and quality traits were identified on chromosomes 5A, 6B and 7B, respectively, under normal conditions. Under a water-deficit condition, the pleiotropic loci ( Excalibur_c48047_90 , Tdurum_contig100702_265 and BobWhite_c19429_95 ) for grain yield per plant (GYP), GPC and GLC were identified on chromosomes 3A, 4A and 7B, respectively. The pleiotropic loci ( BS00063551_51 and RAC875_c28721_290 ) for GPC and GLC on chromosome 1B and 3A, respectively, were found under both conditions. Besides the validation of previously reported MTAs, some new MTAs were identified for flag leaf area (FLA), thousand grain weight (TGW), GYP, GPC and GLC under normal and water-deficit conditions. Twenty SNPs associated with the traits were mapped in the coding DNA sequence (CDS) of the respective candidate genes. The protein functions of the identified candidate genes were predicted and discussed. Isolation and characterization of the candidate genes, wherein, SNPs were mapped in CDS will result in discovering novel genes underpinning water-deficit tolerance in bread wheat.

Keywords: yield; quality; wheat; MTAs; GWAS; SNP; drought; MAS; QTL; population structure (search for similar items in EconPapers)
JEL-codes: Q1 Q10 Q11 Q12 Q13 Q14 Q15 Q16 Q17 Q18 (search for similar items in EconPapers)
Date: 2020
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