This book presents recent results of collaborative studies in geophysics and ecology, focusing on the relationship between the physical environment and the distribution of the marine coastal ecosystems. The study area, the Sakiyamawan–Amitoriwan nature conservation area in Iriomote Island of Japan, is the only oceanic nature conservation area in the country. The area has no access roads, and the bay perimeter is uninhabited; therefore, it preserves the natural environment with very little human impact. In addition, it has various environmental gradients such as topography and inflows from rivers with mangrove forests which affect the distribution of marine coastal ecosystems such as those containing reef-building corals, sea grasses, and hermit crabs. For these reasons, the area is one of the best places for the study of the relationship between the physical environment and the distribution of the marine coastal ecosystems, a relationship that is important for their conservation buthas not been investigated fully. This book is aimed at students and researchers in the fields of oceanography and marine coastal ecology as well as general readers who are interested in coral reefs, diving, and nature conservation.