The mitochondrial DNA (mtDNA) of Candida albicans contains a large inverted duplication. As is the case with most chloroplast DNAs and one other mtDNA, the nonduplicated regions of the molecule occur in two orientations with respect to each other, indicating that internal recombination occurs. Like some other mtDNAs, the C. albicans mtDNA contains a single Sail restriction site located near one end of the large rRNA gene. In contrast to other cases, however, the inverted duplication does not appear to contain any sequences coding for rRNA.The Candida albicans mitochondrial genome is a circle of about 40 kilobase pairs (15). The circular molecule contains a large inverted duplication analogous to that found in almost all chloroplast DNAs (14), in some other mitochondrial DNAs (mtDNAs) (7, 16), and in other isolated instances. In nearly all of the cases of inverted duplications examined, the duplication contains sequences coding for rRNA. In the mtDNA of the water mold Achlya ambisexualis, homologous recombination occurs between the copies of the duplication, leading to two different relative orientations of the nonduplicated segments (7). This phenomenon is also observed in chloroplast DNA and in the yeast 2 ,um circle (1). In this paper, we characterize the C. albicans inverted duplication in more detail. We demonstrate that recombination does occur in this mtDNA. We describe experiments which show that, in contrast to most mtDNAs with inverted duplications, the duplication in C. albicans does not contain sequences coding for rRNA. Finally, we note that a relatively simple and inexpensive method developed for extraction of DNA from filamentous fungi (6) can be adapted for the extraction of yeast mtDNA suitable for restriction fragment analysis and nick translation.We have previously reported the cloning of five of the six EcoRI restriction fragments by ligating a mixture of pBR322 DNA and whole mtDNA from C. albicans H317, both cleaved with EcoRI (15). This procedure did not yield a clone containing the largest fragment, El. Consequently, we cloned this fragment by electroelution of the El fragment from an agarose gel (13) and ligation into plasmid pBR322 (4).Restriction site mapping was carried out as described previously (17), except for the AvaI and BstEII sites in fragments E2 and E3. For these sites, DNA fragments consisting of the unique portions of E2 and E3 were isolated