Figure 3

AGAMOUS ( AG ) gene tree for the Zingiberales. (A) Bayesian topology generated in MrBayes with 1.5 M generations, under the K80 + G model (best fit model according to jModelTest). The general tree topology agrees with results generated by maximum likelihood (ML) analysis (PhyML), as well as under different models for both Bayesian and ML analyses. Partition of the data set according to codon position rendered an unresolved tree with poor likelihood (data not shown). Only bootstrap support >50% are presented, followed by posterior probabilities (PP). At least two copies of the gene AG can be identified, according to the distribution of ginger clade and banana grade species in the gene tree. (B) Schematic representation of the AG gene tree. Black circles represent sequences from the ginger clade, while gray circles represent sequences from the banana grade. Each circle indicates the position of the corresponding sequences in the gene tree. This schematic tree depicts one clade (ZinAG-2) comprising ginger clade and banana grade sequences, and two early branching lineages comprising banana grade and ginger clade sequences (ZinAG-1).