Abstract: In this investigation, association between microsatellite markers and morphological traits of 35 ‘Sardari’ derivative wheat lines was evaluated using 7 morphological characters and 60 microsatellite markers. The numbers of observed polymorphic alleles in each locus varied from 2 to 6. Polymorphic information contents of loci were in the range of 0.11 to 0.83. Cluster analysis based on molecular and morphological data separated the lines into 4 and 5 groups respectively. In the most cases, the lines with similar characteristics were grouped into the same clusters. Distribution of lines within obtained groups using molecular data showed more homogeneity as compared to that of morphological data. The result of multiple regression analysis showed a significant correlation for spiklets in spike with 4B chromosome, number of grain in spike with 5B chromosome, thousand grain weight with 3A, 5A and 6A chromosomes, stem height with 3B chromosome, yield with 6A, 3A and 3D chromosomes, percentage of grain protein with 4A, 5B, 3D and 1A chromosomes and primary root length with 1A and 2B chromosomes. Using of informative markers correlated with yield components, may facilitate preliminary selection of high yielding lines, especially for dryland cultivation.