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The brackish-water calanoid copepod known as Pseudodiaptomus inopinus in the mainland of Japan consists of two genetically separate species. One is P. japonicus, which was once synonymized with P. inopinus but was recently revived. This paper describes the other species as Pseudodiaptomus yamato n. sp., which is confirmed to have morphological differences from P. inopinus s.s. based on specimens from the type locality (Lake Taihu, China) of the latter. We also redescribe P. japonicus and P. inopinus s.s. for comparative purposes. The three species are distinguishable by the combination of the following morphologies: 1) weak or prominent posterior round projections of the female last pediger; 2) relative length of posterior processes of the female genital operculum; 3) presence or absence of medial spinules on the first exopodal segment of the female leg 5; and 4) the size of spinules at the center of the ventral surface of the male second urosomite. Significant inter-population variation is observed in some spinules of P. japonicus. The past and present records indicate that Pseudodiaptomus yamato n. sp. is endemic to Japan and confined to the coasts affected by the warm Kuroshio Current from western Kyushu to the middle of Honshu, while P. japonicus is widespread in northern East Asia without overlapping the range of P. yamato n. sp. The range of Pseudodiaptomus inopinus s.s. most certainly does not extend to those of P. yamato n. sp. and P. japonicus. [ABSTRACT FROM AUTHOR]