Figure 1

Phylogenomic relationships and the ancestral state reconstruction analysis between H. oryzae and related species.

(a) Maximum likelihood (ML) phylogenetic tree was constructed using the LG + I + G amino acid substitution model showing the evolutionary relationships of 5 symbiotic (red) species, 8 pathogenic (blue) species and 3 saprophytic (green) species. (b) ML phylogenetic tree of H. oryzae R5-6-1 and related Magnaporthaceae species based on six combined sequences and the results of an ancestral state reconstruction analysis of physiological characters (endophytic, pathogenic and saprophytic) based on ML and Bayesian inference (BI) approaches. The ML bootstrap values, posterior probability values and maximum parsimony (MP) bootstrap values are sequentially indicated above the branches and asterisks indicate that all three values are 100. The results of an ancestral state reconstruction analysis using ML and BI methods were mapped onto the best ML tree (the results of the MP analysis were the same as the ML results, which are not shown). The external small pie charts on the tree represent the relative likelihoods of alternative character states based on the ML analysis and the internal large pie charts are based on Bayesian MCMC methods.