In the early 1990s, burrowing mayfly species reappeared in sediments of the western basin of Lake Erie after an absence of over 30years due to episodic hypoxia at the sediment–water interface. Long-term monitoring of adult mayflies at shoreline areas had revealed that Hexagenia rigida was more abundant than Hexagenia limbata during the initial recolonization period, but was gradually replaced by H. limbata. We hypothesized that this shift in dominance would be confirmed by the distribution and abundance of nymphs. We identified nymphs collected each spring throughout western Lake Erie from 1997 to 2004. The relative abundances of H. rigida and H. limbata nymphs exhibited the same temporal sequence as adults. Furthermore, the number of sites in the western basin in which H. rigida occurred decreased as the occurrence frequency of H. limbata increased. H. limbata were dominant in the basin by 2004. Hexagenia limbata nymphs persisted in the center-most part of the basin, whereas H. rigida did not, possibly due to differences in tolerance to hypoxia. There were no significant differences in body size between the two populations. Differences in dispersal distance from source populations and the timing and success of egg hatching likely accounted for the initial colonizing success of H. rigida, but the differential ability of H. limbata eggs to overwinter in sediments and possible tolerance of nymphs to hypoxia has possibly led to its current dominance in the western basin.