Additional file 4 of Antero-posterior patterning in the brittle star Amphipholis squamata and the evolution of echinoderm body plans

Additional file 4: Fig. 4. Phylogenetic trees of Amphipholis squamata orthologues. Phylogenetic relationship of Amphipholis squamata genes investigated in this study. A, Hox phylogeny. B, ANTP class homeobox transcription factors phylogeny. C, PRD class homeobox transcription factors phylogeny. D, Zic transcription factors phylogeny. E, SINE and TALE class homeobox transcription factors phylogeny. F, Myosin Heavy Chains phylogeny. G, Elav RNA binding proteins phylogeny. H, Hedgehog ligands phylogeny. I, Frizzled and secreted frizzled receptors phylogeny. Phylo­genetic trees are based on sequences from mouse, amphioxus, hemichordate, echinoids, asteroid, ophiuroidand polychaete. GenBank accession numbers are indicated between brackets. Trees were calculated using both Maximum Likelihoodand Bayesian Inferencemethods. Only the MLor BItrees are shown, with branch lengths being representative of sequence substitution rates, and branch support indicated as posterior probabilities from the BI analysis/bootstrap percentages from the ML analysis. “–” indicates that the branching patterns of the ML and BI analyses diverged at this node.