Pomphorhynchus patagonicus n. sp. is described from Lake Rosario, Chubut Province, Argentina. It is characterized by a long neck forming an asymmetrical bulb with 2 well differentiated dorsal protruberances and 14 alternating rows of 13 and 14 proboscis hooks, each row with a stout fourth hook. It most closely resembles Pomphorhynchus sebastichthydis Yamaguti, 1939, from Japan, but differs in the bulb protruberances and in having more rows of hooks and more hooks per row and in the shapes of the fourth and basal hooks. Among American species P. patagonicus shows some similarities to Pomphorhynchus yamagutii Schmidt and Hugghins, 1973, from Chile, but differs with respect to the longer neck, bulb protruberances, and proboscis armature. Pomphorhynchus patagonicus is endemic to Patagonia, where its definitive type host is the endemic fish Patagonina hatcheri (Atherinidae) and its intermediate host the endemic freshwater amphipod Hyalella patagonica. It has been found also in autochthonous fishes belonging to the families Galaxiidae and Percichthyidae and in introduced salmonid fishes.