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Fig. S1 Phylogenies resulting from Maximum Parsimony analyses of the tef1 nrDNA (a) Pestalotiopsis microspora agg., (b) Colletotrichum cf. gloesporioides, and (c) Trichoderma harzianum agg.

Fig. S2 Phylogenies resulting from Maximum Parsimony analyses of the gdp nrDNA (a) Pestalotiopsis microspora agg., (b) Colletotrichum cf. gloesporioides, and (c) Trichoderma harzianum agg.

Fig. S3 A maximum-likelihood ITS (ITS1 + 5.8 S + ITS2) phylogeny of 106 endophytic ascomycetes collected from leaves and sapwood of wild Hevea guianensis.

Table S1 All strains used in the study (including outgroups), their origin, and their Genbank accession number for the three loci.

Table S2 All strains used in the study case (LA), their origin, and their abundance.

Table S3 Characteristics of the data and results of phylogenetic analyses.

Table S4 Number of OUTs inferred by the different phylogenetic approaches based on single and multiple loci.

Table S5 Comparison of the number of operational taxonomic units (OTUs) based on complete ITS locus for each data set included in the study.

Table S6 ITS p-distances Pestalotiopsis microspora agg.

Table S7 ITS p-distances Colletotrichum gloeosporioides agg.

Table S8 ITS p-distances Trichoderma harzianum agg.

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