Additional file 2: Figure S2. of Two cases of serotypeable and non-serotypeable variants of Streptococcus pneumoniae detected simultaneously during invasive disease

Core genome phylogenetic tree of Case A non-serotypeable isolate and serotype 1 isolates from South Africa. The tree represents phylogenetic comparison of the core genome of a non-serotypeable (NT) co-detected with a serotype 1 isolate in 2009 in South Africa and genomes of serotype 1 isolates (n = 54) that caused invasive disease in South Africa from 1989 to 2013. This maximum likelihood tree was built using core gene sequences which were concatenated and aligned, using MUSCLE (EMBL-EBI). The numbers at the nodes indicate RAxML bootstrap values. Branch lengths are proportional to the number of substitutions per site (see the scale bars). The colour coding is according to sequence type (ST). (PDF 173 kb