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. 2006 Oct 27;73(1):278–288. doi: 10.1128/AEM.01177-06

FIG. 4.

FIG. 4.

Evaluation of 16S rRNA and rpoB genes as phylogenetic markers at the subspecies level. (A) Best maximum likelihood tree for the 16S rRNA genes of Escherichia coli and Shigella flexneri strains (all seven copies from each strain are included). (B) Random sampling analysis of 16S rRNA paralogous gene copies from multiple E. coli and S. flexneri strains. One thousand trees were constructed by randomly choosing one 16S rRNA gene copy from each strain for every tree. Values above the nodes represent the numbers of trees in which the given nodes were recovered. (C) Best maximum likelihood tree for the 16S rRNA genes of E. coli and S. flexneri strains for which positions displaying intragenomic heterogeneity were recoded as ambiguous. (D) Best maximum likelihood tree for the rpoB genes of E. coli and S. flexneri strains.