The study was conducted to assess the extent of genetic variability and to determine the association between quality traits and SNP markers in Ethiopian durum wheat genotypes. Field experiment was conducted at Debre Elias and Debre Tabor, and One hundred durum wheat genotypes were evaluated in partially balanced lattice design, 10 by 10 arrangements with two replications. The analysis of variance revealed highly significant variation (P≤0.01) among the tested genotypes. GCV and PCV values ranged from 3.71% (ash content) to 46.12% (RDSM) and 5.78 (ash content) to 60.1% (RDSM), respectively. H 2 and GAM ranged from 6.6% (NET) and 81% (SL) and 1.49% (ash content) and 81% (RDSM), respectively. Grain yield showed highly significant (P<0.01) genotypic and phenotypic correlation with biomass (0.77, 0.79), respectively. The cluster analysis grouped the genotypes into 8 and 12 major groups consisting of one to 86 genotypes at Debre Tabor and Debre Elias, respectively. The first six principal components explained 78.1% and 78.88% of the total variation at Debre Tabor and Debre Elias, respectively. The same genotypes were also evaluated for genome wide association study (GWAS) using 4809 single nucleotide polymorphisms (SNPs) with the general linear model. Highly significant differences among genotypes were detected for all traits. Totally, 75 MTAs for agronomic, quality and disease traits were identified on all chromosomes. A total of 75 highly significant (P < 0.001) MTAs were identified with R2 ranged from 17.03 to 32.86%. The study revealed association of molecular markers with agronomic and quality traits. However, the field study was conducted for one season at two locations, which needs to testing subsequent breeding trials at different locations to develop high yielding variety and the amenable of GWAS. Keywords: SNP, QTL, GWAS, Durum wheat, Morphological marker