GENOME-WIDE ASSOCIATION STUDY OF AGRONOMY AND MORPHOLOGY TRAITS IN ELITE SPRING WHEAT GERMPLASM EVALUATED UNDER SALT STRESS CONDITIONS IN EGYPT
AHMED M. SHAIMAA *
Gene Expression and Regulation Technology Lab, Department of Plant Molecular Biology, Agricultural Genetic Engineering Research Institute (AGERI), Agricultural Research Centre (ARC) Giza, Egypt and Department of Biodiversity and Crop Improvement, International Center for Agriculture Research in the Dry Areas (ICARDA), Giza, Egypt.
KORD A. MAIMONA
Department of Botany and Microbiology, Faculty Of Science, Cairo University Giza, Egypt.
HAFEZ M. REHAB
Department of Botany and Microbiology, Faculty Of Science, Cairo University Giza, Egypt.
MOMTAZ A. OSAMA
Gene Expression and Regulation Technology Lab, Department of Plant Molecular Biology, Agricultural Genetic Engineering Research Institute (AGERI), Agricultural Research Centre (ARC) Giza, Egypt.
AMER N. MOHAMED
Department of Plant Molecular Biology, Agricultural Genetic engineering Research Institute (AGERI), Agricultural Research Centre (ARC) Giza, Egypt.
MOBARAK H. MOHAMED
College of Environmental Agricultural Science, El-Arish University, North Sinai, Egypt.
Al SAMMAN M. ALSAMMAN
Genome Mapping Department , Agricultural Genetic Engineering Research Institute, Giza, Egypt.
HAMWIEH A.
Department of Biodiversity and Crop Improvement, International Center for Agriculture Research in the Dry Areas (ICARDA), Giza, Egypt.
TADESSE W.
Biodiversity and Integrated Gene Management Department, International Center for Agricultural Research in the Dry Areas (ICARDA), Rabat, Morocco.
*Author to whom correspondence should be addressed.
Abstract
Soil salinity is a long-term issue that needs addressing by developing tolerant cultivars. Today, genome-wide association studies (GWAS) is a preferred tool for quantitative trail loci detection for different traits. Ten salinity-related attributes in a broad panel of bread wheat were evaluated in saline field (10 dSm-1 NaCl), at El-Arish, North Sinai, Egypt. We detected genomic loci associated with salt tolerance using over, 24145 single nucleotide polymorphism. One experiment was conducted in two seasons; under saline soil conditions of El-Arish, Sinai, where soil ECe was 8.68 and 9.31 dSm-1 in the first and second season, respectively. Ten trait-marker associations were detected on the 1D, 3A, and 6B chromosomes of bread wheat. For spikes/plant and tillers/plant, seven common SNPs (SNP- BobWhite_c8340_511, SNP- BobWhite_rep_c49102_169, SNP- BS00068520_51, SNP- IAAV3900, SNP- Kukri_c34195_357, SNP- Kukri_c80104_809 and SNP-
wsnp_RFL_Contig429_4978628) were identified on chromosome 3A. For plant height, SNP- Excalibur_c91980_139 was identified on chromosome 6B in the two seasons and for spike length, SNP- D_GA8KES401EYUM8_190 was identified on chromsome 1D. SNP BobWhite_rep_c49102_169 was previously reported to be linked to germination under salt stress. BS00068520_51 was found to be associated to thousand kernel weight while the SNPs Kukri_c34195_357 and Kukri_c80104_809 were associated with flour colour related traits, under non saline conditions. These SNPs were associated with spikes and tillers/plant in the present study. The other six SNPs are novel to be found to salinity tolerance related traits.
Keywords: Field evaluation, salinity tolerance, Triticum aestivum, single nucleotide polymorphism markers, genome-wide association mapping, candidate genes