It has been considered that fishing areas for shrimp beam trawl have been in ruin because Korean local governments have permitted trawling into the areas limited by the fisheries local regulations from 1994. Physical and biological effects of the trawling were investigated in the study. Physical effects were investigated by optical methods such as trawling tracking by side scan sonar and comparing the gear both before and after trawling. Biological aspects were investigated by grab sampling of benthic animals, concentration of trace metals in sediment and a flux evaluation of NH4+, PO4-, and SiO2 by coring. The fishing activity had physical impacts on the seabed but these recovered naturally in less than fourty days naturally, which increased the benthic biodiversity, increases the trace metal concentration of and nutrient flux into the seawater, especially phosphate and silicate. This method and these results can help in further studies looking for disturbances by fishing.