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Fig. S1 Neighbour-joining trees of strains constructed from IAM-based distances DA (Nei et al. 1983): (A) multiplex PCR data set (data set 1) (B) annotated data set (data set 2).

Fig. S2 Relationship between pairwise FST-values calculated among species for data set 1 and data set 2.

Table S1 Specification of primer sequence, concentration, dyes and multiplex PCR design used for fragment analysis.

Table S2 Self-assignment test of strains belonging to collection 2 (11 species, 99 strains) using GeneClass 2 (Piry et al., 2004).

Table S3 Assignment tests of strains originating from two additional communities [undisturbed forest sites in Switzerland (Grünig et al., 2006)] using GeneClass2 (Piry et al., 2004).

Table S4 Suitability of microsatellite markers to recognize clones in two populations of Phialocephala europaea collected in two undisturbed forests from Switzerland.

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