Phylogenetic relationships within the Bacilli class and inferred losses of <i>wal</i> genes.

<p>(A) Maximum likelihood phylogeny of Bacilli based on a concatenation of 47 ribosomal proteins comprising 5,945 amino acid positions. The conservation of <i>wal</i> genes in each genome is indicated by circles: <i>walR</i> (red), <i>walK</i> (green), <i>walH</i> (blue), <i>walI</i> (yellow), <i>walJ</i> (purple). Red crosses indicate the loss of <i>walH</i> and <i>walI</i> in Streptococcaceae and of <i>walJ</i> in <i>Leuconostoc</i>. (B) Maximum likelihood phylogeny based on a concatenation of WalR, WalK, WalH, WalI and WalJ protein sequences comprising 1,102 amino acid positions. For both analyses, values at nodes represent bootstrap proportions calculated on 1,000 resamplings of the original data set. For clarity, only the values corresponding to monophyly of families and their evolutionary relationships are shown. The scale bar represents the average number of substitutions per site. For details on analyses, see <a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0151449#sec002" target="_blank">Materials and Methods</a>.