Abstract The grapsoid crab XenograpsusTakeda & Kurata, 1977 inhabiting shallow-water hydrothermal vents shows a limited distribution in the western Pacific, thus providing a good opportunity to observe how a species expands its distribution and establishes and maintains a metapopulation. We analyzed four Japanese populations of Xenograpsus (Kueishan-dao, Showa Iwo-jima, Shikine-jima, and Omuro-dashi) distributed along the Kuroshio Current to assess whether population connectivity is affected by the current. The reconstructed phylogenetic tree indicated that the specimens analyzed belong to a single clade, including X. testudinatusNg, Huang & Ho, 2000 in Kueishan-dao. We could not include genetic data of X. novaeinsularisTakeda & Kurata, 1977 and tentatively refer to the specimens analyzed as X. testudinatus. All four populations shared the two major haplotypes. Statistically significant population differentiation was nevertheless recognized between Showa Iwo-jima and Omuro-dashi, about 1,000 km apart. The number of individuals analyzed in Shikine-jima (N = 11) and Kueishan-dao (N = 5) might not be enough to detect differences. The relative age of population expansion seemed to correlate with the direction of the Kuroshio Countercurrent. Together with knowledge on the distribution of the planktonic larvae, larvae of X. testudinatus stay and mostly contribute to its source population. The Kuroshio Current system occasionally transports the larvae and juveniles, or even adult individuals on floating pumice and other materials, to eventually settle into newly formed habitats after volcanic eruptions, thus expanding the distributional range of the species.