Fig. 1.
Phylogenetic tree of selected species of the genus Streptococcus. Phylosift was used to place 34 S. pneumoniae (gold branches), 52 S. pseudopneumoniae, three S. mitis and four S. oralis based on NCBI taxonomy (RefSeq release 84). Note that one S. mitis strain (1042_SPSE) was included as a S. pseudopneumoniae due to information in supplemental data from [29]. The S. pneumonaie cluster is shown with gold branches, while the major S. pseudopneumoniae cluster (including two S. pseudopneumoniae ATCC BAA-960T genomes) is shown with orange branches. S. pseudopneumoniae that fall outside of the orange S. pseudopneumoniae clade are denoted by blue branches and were ultimately excluded from the marker discovery process. Bootstrap support values are indicated in black bold type at the node that separates the S. pneumoniae and S. pseudopneumoniae clades.