The intra-species polymorphism of E. histolytica and E. dispar species in endemic area is an important tool for geographic distribution and spread mechanism studies. Since E. dispar and E. histolytica shears ecological niche, cell cycle, and transmission mechanism for human host, we studied the intra-specie variation and distribution of E. dispar strains obtained from cyst passers, in two neighbor rural communities in Morelos Mexico. We analyzed the polymorphic region of the quitinase protein gene in isolates of E. dispar. In 45 isolates from one community we identified 12 different CHI patterns while in 15 isolates from the other community we identified 5 different patterns. However both communities share 4 patterns. This finding suggests the presence of strains with different geographic mobility.