Fungi belonging to the Colletotrichum genus can be categorized as endophytic or phytopathogenic. These fungi can be infected by viruses, termed mycoviruses, which are know to promote hypovirulence in infected fungi. However, there are few studies that have described mycoviral infections of endophytes. The production of secondary metabolites by endophytes with antimicrobial potential in inhibiting numerous pathogens has gained increasing attention.
The genus Colletotrichum contains many important plant pathogens mainly distributed in tropical areas. Previous studies that utilized morphology or single genes have failed to resolve the phylogenetic relationships among the species. In this study, sequences of β-tubulin, 28S ribosomal DNA, and ITS region from nine species were analyzed separately and combined to establish a fast method to infer the phylogeny of Colletotrichum using maximum parsimony, maximum likelihood, and Bayesian inference methods.