AbstractAs a contribution to their taxonomy, population genetic data on zoo‐living anoas are reported, and a review of the history of the captive stock is provided. Four different chromosome numbers of 44, 45, 47 and 48 chromosomes have been found, respectively, when karyotyping captive anoas descending from three breeding lines. The number of chromosome arms is 60 throughout, indicating that Robertsonian rearrangements are responsible for this cytogenetic variation. An electrophoretic comparison of isozymes and blood proteins representing 21 genetic loci revealed polymorphism in seven loci: haemoglobin, glyoxalase, superoxide dismutase, phosphoglucomutase, carbonic anhydrase, glucose phosphate isomerase, and an unidentified acid serum protein. Considering the small number of founder specimens and subsequent inbreeding, allozyme variability appears fairly high in anoas. Genetic distances between zoo populations amount to 0.0505 or less. Southern blot hybridizations of restricted DNA from anoas and African buffaloes with a probe from the DRB‐like region of the chimpanzee's MHC class II genes also indicate a low degree of genetic differentiation between mountain and lowland anoas. The relevance of these genetic data for the taxonomic classification of mountain and lowland anoas, and for the conservation of anoas by captive breeding is discus