Abstract: We screened out the molecular makers of 15 microsatellite loci for common carp(Cyprinus carpio), and compared these markers with Huanghe carp (C.carpio haematopterusTemminck et Schlegel), Jian carp (C.carpio var. jian) and Heilongjiang carp (C.carpio haematopterus) populations in aspects of body weight, body length, body width and body depth. The results based on GLM show that Mfw5 is significantly correlated with body depth for Huanghe carp (P < 0.05). For Jian carp population, Hlj013, Cca09 and Mfw7 are significantly correlated with body weight, body length and body depth (P < 0.05); Mfw2 is significantly correlated with body weight and body width (P < 0.05); while Mfw29 is significantly correlated with body weight (P < 0.05). For Heilongjiang carp population, Mfw6 is significantly correlated with body weight, body length, body width and body depth (P < 0.05); Mfw4 is significantly correlated with body weight, body length and body depth (P < 0.05); Mfw11 is significantly correlated with body width and body depth (P < 0.05). Furthermore, the genes and genotypes related to growth traits in the 3 carp populations are found.