Phylogeny of vertebrate lysozyme-like genes. Bayesian phylogenetic tree of vertebrate lysozyme genes. The tree shown was generated with MrBayes [60,61] using DNA sequences of diverse vertebrate lysozyme-like sequences. (For sequences see Additional files 1 and 18: Tables S1 and S2 for sequences.) The alignment used to generate the tree is shown in Additional file 19: Figure S17. The trees were built after 2,000,000 generations with nst = 6 and rates = gamma (the TrNef+I+G model was selected as the best model by ModelTest [66-68]). Insect and amphioxus sequences were used to root the tree. Solid diamonds indicate nodes that represent the gene duplication events that generated the different types of lysozyme-like genes, or subfamilies, found in mammals. The support for each clade containing each subfamily of mammalian lysozyme-like gene is boxed, with posterior probabilities above the lineage and bootstrap support from maximum likelihood analysis below (from Additional file 3: Figure S2). The remaining lineages only display the posterior probabilities from the Bayesian analysis.
Irwin et al. BMC Evolutionary Biology 2011 11:166 doi:10.1186/1471-2148-11-166