Figure 3

Ancestral state reconstruction of Glycoside hydrolase family 32 (GH32) gene number across the phylogeny of sequenced fungal genomes. Shown is a Bayesian consensus phylogeny inferred from RNA polymerase amino acid sequences, with molecular-clock like maximum likelihood branches calculated using TREE-PUZZLE v.5.3 [47]. All branches were supported with Bayesian posterior probabilities ≥ 0.95 except for the branch supporting the relationship between Saccharomyces mikatae, S. bayanus and S. kudriavzevii. The majority of branches were also supported by maximum likelihood bootstrap replicate frequencies ≥ 70%, those that were not supported are indicated with asterisk (*) symbols. Ancestral state reconstruction of GH32 gene number was computed from the clock-corrected phylogeny using the program CAFE v.2.0 [48]. Color of branches represents the predicted GH32 gene number for each ancestral node. GH32 gene numbers in extant taxa are shown in the colored circle to the right of the terminal branch of each species in the phylogeny. Ecological strategies of taxa are also illustrated to the right of each terminal branch (see figure legend for description of symbols corresponding to ecology). Arrows indicate branches for which the rate of gene gain (upward arrow) or gene loss (downward arrow) is significantly different. Clade classification is abbreviated by the following: Agar. = Agaricomycetes C. = Chytridiomycota, Dothid. = Dothideomycetes, Eurot. = Eurotiales, He. = Helotiales, M. = Microsporidia, Onyg. = Onygenales, P. = Pucciniomycotina, Saccharo. = Saccharomycetales, Sordario. = Sordariomycetes, Taph. = Taphrinamycotina, Us. = Ustilaginomycotina, Z. = Zygomycota.