Studying the mating system of obligate aquatic organisms that inhabit river ecosystems is important for understanding its evolution as well as the role of biological and environmental factors in modulating population dynamics and species distributional patterns. Here, we studied the reproductive strategy of the Chilean endemic freshwater snail, Chilina dombeiana, in the Biobio River, one of the largest rivers in Chile. This species has a low potential for dispersal given the absence of a free-swimming larval stage (benthic larval development) and given that adults have a low capacity for mobility. We hypothesized that: 1. Females would mate with different males (polyandry) resulting in intrabrood multiple paternity, 2. Individuals from closer sites would be more related than individuals from distant sites, and 3. Male parental contributions would be unevenly distributed within broods. Individuals from three different sites were sampled along the river: upper, mid, and river mouth. In the laboratory, hatching juveniles from a total of 15 broods were collected for paternity analyses. We used microsatellite markers and the programs GERUD and COLONY to determine whether multiple paternity exists and to estimate the contribution of different males to the brood. We found that multiple paternity was very common at all of the sites analyzed with as many as 8 males fertilizing a single female and a mean of 4.2 fathers per brood estimated by COLONY. Sire contribution was skewed to particular males in several broods. In addition, overall relatedness among broods for the three sites ranged from 0.17 to 0.45 with evidence of many half-siblings. Relatedness differed among the three sites. Particularly in upstream sites or in anthropogenically disturbed populations, the high levels of multiple paternity observed in C. dombeiana may be an efficient strategy to avoid inbreeding and prevent the loss of genetic diversity within populations.