We analysed hydromedusa assemblages of South America (from 22°S to 56°S and from 040°W to 080°W), their association with water masses and the influence of the life cycle on medusa distributions. The geographic distribution of 130 species of hydromedusae was compiled from literature reports (62 publications between 1913 and 2012). Seven areas were defined: Atlantic Magellanic, Argentinean, Pacific intermediate zone, Pacific Magellanic, Peruvian-Chilean, South Brazilian and Oceanic. The variance of the species-environment relationship was explained by depth and temperature. Distribution patterns of Atlantic hydromedusae are associated with neritic water masses, supporting previously proposed biogeographical provinces. Assemblages on the Pacific side of South America are under the influence of the Humboldt Current system, with a break in species distribution around Chiloé Island. Only the oceanic assemblage contained the same species in both the Pacific and Atlantic zones. We found that meroplanktonic medusae contributed more to define the neritic assemblages, while the oceanic assemblage was better defined by holoplanktonic medusae. Therefore, our data suggest that meroplanktonic hydromedusae appeared to be more restricted in distribution than holoplanktonic ones.