Ecotoxicity tests are key to predict environmental hazards resulting from chemical and biological pesticides in non-target species. In order to assess the effects of microbial pesticides it is important to determine if they cause infection in test organisms. At present the microbial elimination rate or clearance is not included in ecotoxicological regulatory protocols. This study evaluated the elimination of Bacillus thuringiensis and Bacillus sphaericus from fish and snails, after 30 days' exposure to commercial formulations of such entomopathogens. Data obtained showed that in clean water the tendency to eliminate microbial agents from the body of the exposed organisms is gradual over time but after 7 days the fish and snails were free of the two tested Bacillus spp.