A series of mesocosm experiments has been conducted to investigate the effects of sediment on the qualities of superficial water over the tidal flats. The experiments involved two different kinds of sediments (Silt and Fine Sand) to mimic the natural habitats. Other environmental conditions in the mesocosm were kept as natural as possible. The mesocosm coincided with the annual patterns of the natural water qualities and was identical with the composition of benthic organisms of three reference sites of natural tidal flats. DIP has been leached out from sediment from June to October, but not for ammonium and DIN. The mesocosm was successfully able to simulate the environmental situations of natural tidal flat and will be a useful tool to assess the environmental impacts by human activities.