The aquatic entomofauna of four streams of the San Juan river in the department of Chocó (Colombia) was studied.Between February and July 2007, 2,377 specimens belonging to nine orders, 35 families and 52 genera were collected. The order Ephemeroptera was the most representative in terms of abundance (61.09%) and biological richness (11 genera), followed by the order Coleoptera (13.38%). A Shannon-Weaver diversity index of 2.95 and the total number of genera found in the streams showed their high diversity; we found significant differences between them, but not between sampling months. According to the Jaccard index based on the presence of different identified genera, we observed that the Profundo and Colorado streams had high similarity (0.65), while the highest value of dissimilarity was found in the San Francisco stream (0.48). The physical and chemical parameters were within normal ranges and showed little variation, indicating that the streams have good ecological conditions for the establishment of a diverse aquatic community.