Figure 5
From: Phylogenomic analysis of glycogen branching and debranching enzymatic duo
Bayesian phylogeny of GDE_C domain containing (putative) debranching enzymes (EC 3.2.1.33). Only select protein names are shown (such as human AGL and yeast GDB1). The GDE_C domain is shown in bright green, GDE_N in light blue, hGDE-amylase in blue, hGDE_central in orange, and hGDE_N in purple. The E-value cutoff used for domains was 10-3. For this figure, only representative species were analyzed (see Additional file 4); some taxonomy dependent colors are: red—animals, light blue—Alveolata, light gray—Archaea, dark gray—Bacteria. The tree shown was inferred by MrBayes [49] based on a MAFFT [50] multiple sequence alignment. The support values shown are: minimal evolution based bootstrap values normalized to 1.0 (ML distances calculated by TREE-PUZZLE [51], tree inference by FastME [52]) /ML based probabilities inferred by PhyML [53] /posterior probabilities calculated by MrBayes. Support values are only shown for branches for which all three values are at least 0.5. Branch length distances are proportional to expected changes per site. High-confidence gene duplication is shown as red circle [54].