A major heavy-oil spill from the Russian tanker Nakhodka occurred in the Sea of Japan on 2 January 1997. We investigated the impacts of this spill on a rocky intertidal ecosystem along the southern coast of the Sea of Japan. We selected Imago-Ura Cove as our study site to observe temporal changes along the oiled shore, because minimal cleaning effort was made in this area. Field surveys were conducted every autumn and spring from 1997 to 2000. We measured coverage by macroalgae in 1 x 1-m(2) quadrats and counted the animals in 5 x 5-m(2) quadrats along the intertidal zone. Changes in the ecosystem caused by the oil spill were analyzed by applying a geographical information system (GIS) to the Sea of Japan for the first time. The GIS showed that following the accident there were heavily oiled areas in sheltered regions, but these decreased over the three years. It also showed that coverage by macroalgae and the number of animals increased, although some species of algae with microscopic sporophyte generations, and some populations of perennial shellfish, remained stable or decreased during the study period. GIS was able to trace temporal changes in intertidal communities resulting from the impacts of heavy oil on flora and fauna at a spatial scale of 10-100 m. GIS is thus a practical tool for visualizing, analyzing, and monitoring changes in an ecosystem polluted by oil, taking into account topographic differences along the coastline.