Enterococcus faeciumphylogenetics. 4A. A maximum-likelihood phylogenetic tree using 628 core genes. Distance bar indicates the sequence divergence. Strains isolated from the community are labeled with branches in red. An asterisk (*) indicates a strain within the HA clade lacking IS16. 4B. A hierarchical clustering using Jaccard distance of gene content by unweighted pair group method with arithmetic mean (UPGMA) (see Materials and Methods). The core, distributed and unique gene counts are also presented in the right panel. 1:1 ortholog, orthologs present with one copy in all strains; N:N ortholog, orthologs present with multiple copies in all strains; N:M ortholog, orthologs present in some strains.
Qin et al. BMC Microbiology 2012 12:135 doi:10.1186/1471-2180-12-135