Ten meristic traits and seven morphological characteristics of marbled sole, Pleuronectes yokohamae (78 individuals), collected from Penglai, North Korea and Kamaishi populations, were measured and compared by the principal component analysis method, multivariate analysis method and one way ANOVA. The multivariate analysis and one way ANOVA results show that there are significant differences (P=0.05) among the three populations in two to five morphological characteristics. Discriminant analysis on the high contributing morphological parameters show that there are extremely significant differences among the three populations of P. yokohamae, with 83.3%～100.0% identification accuracy and 92.31% synthetic identification accuracy. There are significant differences between Chinese population and Japanese population, and a certain extent of geographical variances existed in the three populations