The present study was carried out to determine the genetic divergence and phylogenetic relationship for three species of mullet (Mugil cephalus, Liza ramada, and Valamugil seheli) in Egypt using random amplified polymorphic DNA (RAPD) markers. two hundred and twenty-five specimens were randomly collected from Qarun, Manzala, and Burullus lakes and some commercial farms neighboring each of the three lakes. The results indicated that the highest genetic variation of 37.08% in Liza ramada from lake Manzala and the lowest difference genetic variation of 24.97% in Mugil cephalus from lake Manzala were observed. Dendrogramshowed the highest genetic similarity between Liza ramada lake Qarun and surrounding farms. It could be concluded that Liza ramada lake Manzala is best to work for selection programs. There is a need for further genetic studies to give a more complete picture of mullet in Egypt.