The San Francisco Bay system is a complex estuary in which there is an interplay between natural chemical and physical processes, and changes resulting from the works of man. The bay is used for recreation, water-borne commerce, fishing, domestic and industrial waste disposal, and esthetic pleasure. Because some of these uses are competitive, it is desirable to adequately predict the impact of man's activities on this natural system. The reliability of such predictions will be strengthened by long-term observations directed toward understanding the natural processes occurring in the bay. This study is a compilation of one aspect of the U.S. Geological Survey's continuing investigations of the San Francisco Bay system.