The presence of microcystin-LR -degrading bacteria in an active anthracite biofilter and in Lake Mead, Nevada was investigated. Four bacterial isolates from enrichment culture were identified using 16S rRNA analysis. Microcystin biodegradation tests were performed with both, the enrichment cultures and the respective isolates, using microcystin alone and acetate as carbon sources. A newly recognized microcystin-degrading bacterium, Morganella morganii, was isolated from the biofilter and from Lake Mead. The results of the biodegradation tests indicated that addition of a carbon source (acetate), significantly repressed the degradation of microcystin-LR. The findings of this study inform on the prevalence of microcystin-degrading bacteria in the environment indicating bioaugmentation may not be needed, if biofiltration is used to remove microcystin from waters. The results also imply that, in a biofilter, biodegradable naturally organic matter (NOM) and microcystin will compete and therefore lower toxin removals are likely in waters with higher NOM content. The feasibility of removing microcystin by biofiltration depends on the toxin concentration and the concentration of biodegradable carbon sources in the biofilter.