Phylogenetic relationships among wild Triticum and Aegilops species, bread wheat (Triticum aestivum) cultivars, and durum wheat (T. turgidum) cultivars were investigated using random amplified polymorphic DNA (RAPD) technique. Fourteen RAPD primers generated 328 polymorphic bands in 22 wheat species/cultivars which have the same or different genomes. DNA fragment size ranged from 290 bp to 2570 bp. In the RAPD analysis, wild Triticum and Aegilops species clustered together and were separated from all other wheat cultivars based on their genome constitution. T. monococcum and T. boeticum were closer to Aegilops species than to other wheat cultivars. T. turgidum cultivars were genetically less diverse than T. aestivum cultivars. RAPD markers specific to the D and U genomes were detected. There was a weak correlation between RAPD data and pedigree records of the cultivars sharing common ancestor(s). The results suggest that RAPD analysis can be used to distinguish wild Triticum and Aegilops species, and wheat cultivars. In addition, RAPD technique can be used to develop genome-specific markers.