ABSTRAC1This paper describes a technique for measuring the in vivo metabolite levels in the chloroplast stroma, the cytosol, and the vacuole of spinach (Spinacia okracea U.S.A. hybrid 424) leaves. Spinach leaves were freeze stopped and the frozen tissue was ground and lyophilized. The dry material was homogenized by sonication in a mixture of carbon tetrachloride and heptane, and fractionated by density gradient centrifuption.Measurements of the activity of marker enzymes in various subcellular compartments show the chloroplastic material mainly appearing in the lightest fractions and the cytosolic material in the middle of the gradient, whereas most of the vacuolar material is found in the heaviest fraction. Using the measured distributions of metabolites and of marker enzymes in each fraction of the gradient, the subcellular distribution of the metabolite can be calculated.As a frst application, the new fractionation technique was used to investigate the subcellular contents of malate and sucrose in spinach leaves. The results show striking diurnal changes of sucrose and malate, with both substances primarily located in the vacuolar compartment. About three times more malate is present at the end of the day than at the end of the night. The sucrose content in the vacuole fails from a maximum of 45 millimolars at the end of the day to an almost undetectable value of approximately I millimolar at the end of the night.An understanding of the metabolism of a plant cell requires information about the metabolite levels in the various metabolic compartments, such as the chloroplast, the mitochondria, the vacuole, and the cytosol. This demands a procedure for tissue fractionation during which the total content and the subcellular distribution of metabolites in these compartments is not altered. Recently, methods have been developed for the assay of subcellular metabolite levels in plant protoplasts in which the protoplasts were ruptured by passage through a nylon net or a capillary tube followed by immediate filtration of the particles either through a layer of silicone oil (8, 15, 18) or a combination of membrane filters (12). The measurement of subcellular metabolite levels in whole leaves is more difficult; one possible approach is to use a nonaqueous fractionation procedure similar to that developed in 1932 by Behrens (2) for the fractionation of nuclei. In this method the tissue is frozen and lyophilized, the dried material homogenized in nonaqueous solvents, and the resulting homogenate is fractionated by centrifugation. The absence of water prevents the enzymic interconversion of metabolites, and the polar enzymes and metabolites are not extracted during the treatment of the cell material with the nonpolar ' Supported by the Deutsche Forschungsgemeinschaft.solvents. This method has also been successfully applied to the separation of chloroplasts (9, 17). The general principle was to purify a chloroplast fraction by several centrifugation steps. Such procedure involves the loss of a large portion ofchloroplasts...