Inter- and intra-specific differences in removal activities, filtering rates (FR) and production of feces-and pseudo-feces (PF) between a native freshwater bivalve in Korea, Anodonta woodiana Lea and Unio douglasiae Griffith et Pidgeon, were compared using a continuous removal of organic matters (CROM) system. The CROM system comprised five steps; input of polluted water, control of water flow, mussel treatment, analysis of water quality and discharge of clean water. The study was designed to compare the removal activity of organic matters between A. woodiana and U. douglasiae, and the intra-specific differences between density and length in A. woordiana. Results clearly indicate that two kinds of mussels had obvious removal activities of seston in the eutrophic reservoir. First, if both are similar in shell length, there were no significant inter-specific differences in removal activity between A. woordiana and U. douglasiae (P>0.5), but FRs of U. douglasiae was relatively high due to low ash-fee dry weight. Second, if both are same in animal density, the smaller mussels (1$sim$2 years old) showed a higher filtering rate and production of feces- and pseudo-feces and less release of ammonium than the larger mussels. Third, if both are same in biomass, FRs and PF of mussels were higher in the low-density tank than the high-density tank, While the Concentration of $NH_4$-N and $PO_4$-P released WRS similar to each other (P>0.5). Therefore, these results suggest that CROM system using a young bivalve A. woordiana can be applied to control the nuisance seston in eutrophic lake system, if a relevant species and density were selected. Additional pilot tests to optimize the age and density of domestic bivalves were needed for the generalization of CROM operation.