The NEMURO model is aimed to efficiently understand the interaction among factors of lower trophic level of a marine ecosystem, using data on solar radiation and sea water temperature. In this study, we analyzed the seasonal pattern of nutrients and planktons, and estimated productivity and biomass of planktons from 2002 to 2005. Nutrients($NO_3$, $NH_4$, and $Si(OH)_4$) which were used by phytoplankton showed a high concentration before the bloom of phytoplankton. Nutrients (DON, PON, and Opal) which were a byproduct of phytoplankton showed a high concentration in the same period as the bloom of phytoplankton. Both phytoplankton and zooplankton had two peaks in March and August. Estimated phytoplankton biomass from the NEMURO model showed a similar pattern with observed chlorophyll a concentrations. Biomasses of phytoplankton were bigger than those of zooplankton. Annual mean biomasses of small and large phytoplankton were estimated at 30.961 and $14.070;{mu}g;l^{-1}$ respectively. Annual mean biomass of predatory zooplankton was greater than those of small and large zooplankton.