The major nonmitochondrial isozyme of malate dehydrogenase (MDH2) in Saccharomyces cerevisiae cells grown with acetate as a carbon source was purified and shown by sodium dodecyl sulfate-polyacrylamide gel electrophoresis to have a subunit molecular weight of approximately 42,000. Enzyme assays and an antiserum prepared against the purified protein were used to screen a collection of acetate-nonutilizing (acetate-) yeast mutants, resulting in identification of mutants in one complementation group that lack active or immunoreactive MDH2. Transformation and complementation of the acetate-growth phenotype was used to isolate a plasmid carrying the MDH2 gene from a yeast genomic DNA library. The amino acid sequence derived from complete nucleotide sequence analysis of the isolated gene was found to be extremely similar (49% residue identity) to that of yeast mitochondrial malate dehydrogenase (molecular weight, 33,500) despite the difference in sizes of the two proteins. Disruption of the MDH2 gene in a haploid yeast strain produced a mutant unable to grow on minimal medium with acetate or ethanol as a carbon source. Disruption of the MDH2 gene in a haploid strain also containing a disruption in the chromosomal MDHI gene encoding the mitochondrial isozyme produced a strain unable to grow with acetate but capable of growth on rich medium with glycerol as a carbon source. The detection of residual malate dehydrogenase activity in the latter strain confirmed the existence of at least three isozymes in yeast cells.Two isozymes of malate dehydrogenase in mammalian cells catalyze the interconversion of malate plus NAD+ and oxaloacetate plus NADH. The mitochondrial isozyme functions in the tricarboxylic acid cycle, and the cytosolic isozyme catalyzes a step in gluconeogenesis from pyruvate. Also, as components of the malate/aspartate shuttle cycle, the malate dehydrogenase isozymes control the exchange of metabolic intermediates and reducing equivalents across the mitochondrial membrane. Analyses of amino acid sequences for the isozymes from porcine heart (4, 5) and of nucleotide sequences for the porcine and murine cDNAs (25,26) (MATo leu2 his3-AJ trpl gcrl-J-J; 34) was used for isolation of the nonmitochondrial isozyme of malate dehydrogenase. Yeast strains S173-6B (MATa leu2-3,112 his3-AJ ura3-57 trpl-289; 7) and SAMDH1, a derivative of S173-6B containing a chromosomal disruption of the MDH1 gene (47), were used for transformation, growth studies, and cell fractionation. The parental S. cerevisiae strain MMY011 (MATa ade2-1 his3-11,15 leu2-3,112 trpl-l ura3-1 canl-100) and 370 on April 28, 2019 by guest