Seven streptococcal isolates from the mitis group were analyzed for the presence of pneumococcal gene homologues by comparative genomic hybridization studies with microarrays based on open reading frames from the genomes of Streptococcus pneumoniae TIGR4 and R6. The diversity of pneumolysin (ply) and neuraminidase A (nanA) gene sequences was explored in more detail in a collection of 14 S. pseudopneumoniae and 29 mitis group isolates, respectively. The mitis group isolates used in the microarray experiments included a type strain (NCTC 12261), two S. mitis isolates from the nasopharynxes of children, one S. mitis isolate from a case of infective endocarditis, one S. mitis isolate from a dental abscess, and one S. oralis isolate and one S. pseudopneumoniae isolate from the nasopharynxes of children. The results of the microarray study showed that the 5 S. mitis isolates had homologues to between 67 and 82% of pneumococcal virulence genes, S. oralis hybridized to 83% of pneumococcal virulence genes, and S. pseudopneumoniae hybridized to 92% of identified pneumococcal virulence genes. Comparison of the pneumolysin, mitilysin (mly), and newly identified pseudopneumolysin (pply) gene sequences revealed that mly and pply genes are more closely related to each other than either is to ply. In contrast, the nanA gene sequences in the pneumococcus and streptococci from the mitis group are closely clustered together, sharing 99.4 to 99.7% sequence identity with pneumococcal nanA alleles.Streptococcus pneumoniae, also known as the pneumococcus, is an important human pathogen causing high levels of mortality worldwide. Diseases caused include meningitis, pneumonia, and otitis media. S. pneumoniae is a member of the viridans group streptococci (VGS) and is closely related to Streptococcus mitis and Streptococcus oralis, sharing Ͼ99% homology by 16S rRNA gene analysis (13,23). Recently, a subset of "atypical" pneumococci were identified that were distinct from both S. mitis and S. pneumoniae by housekeeping gene analysis (48). It is likely that these isolates belonged to the species Streptococcus pseudopneumoniae, which has since been identified, with isolates appearing phenotypically similar to S. mitis but undistinguishable from S. pneumoniae in genotypic tests (2). As a result of the close relationships between these species, clear identification can be problematic. A recent study showed that definitive species identification can be achieved by phylogenetic analysis of 4 housekeeping genes. Furthermore, although it has been reported that comparison of superoxide dismutase genes (sodA) was sufficient to identify most species, this did not distinguish between S. pneumoniae and S. pseudopneumoniae isolates (19).Despite the close genetic relationships between these species, while S. pneumoniae can be a severe pathogen, S. oralis and S. mitis are usually commensal organisms of mucous membranes. However, on rare occasions, they are able to cause opportunistic disease in immunocompromised patients, particularly those with replacem...