ABSTRACT Two populations of the Southwestern Atlantic burrowing crab, Neohelice granulata (Dana, 1851), are separated by only 190 km. They inhabit bays that drain into a Patagonian gulf in the southernmost limit of the geographical distribution of the species: San Antonio Bay (SAO) and San José Gulf (RSJ). The population from SAO has been extensively studied, whereas that of RSJ has not. The main goal of this study is to compare the ecological and habitat characteristics of the two populations, based on samples collected on successive days during the middle of the reproductive season of the crab. The substrate of SAO is composed of a high proportion of gravel and scarce organic matter, whereas the substrate of RSJ presents twice as much silt and clay, and greater organic matter content. Crabs of both sexes were larger at RSJ. Fecundity and reproductive output were greater at RSJ. The size of females at maturity was smaller and their range was shorter at RSJ. Burrows were longer and wider at RSJ. Our results indicate that there are strong differences between the two populations, which might be correlated with local environmental differences, mainly substrate granulometry and food availability.