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There is a fundamental ecologic differentiation between zooxanthellate and non-zooxanthellate corals. This paper reviews factors which govern the stable carbon and oxygen isotopic composition of these groups of corals. Although the stable carbon and oxygen isotope compositions of coral skeletons are strongly influenced by environmental and physiological factors, the precise mechanisms remain a matter of debate. In particular the oxygen isotopic composition is known to be governed by the temperature and the oxygen isotopic composition of the water and perhaps also by kinetic factors. In contrast the carbon isotopic composition is controlled by a combination of photosynthesis, respiration, autotrophy, heterotrophy, and the isotopic composition of dissolved inorganic carbon. Using a combination of carbon and oxygen isotopes it is possible to distinguish zooxanthellate from non-zooxanthellate corals.