Figure 3.
Recovery Rates and Taxonomic Representation of Root-Derived Fungal and Oomycetal Culture Collections
(A) Comparison of fungal (upper panel) and oomycetal (lower panel) taxonomic composition between culture-dependent and culture-independent methods. Culture collection: taxonomic composition (class level) of the 69 fungal and 11 oomycetal strains isolated from plant roots grown in the CAS and the three natural sites Pulheim, Geyen, and Saint-Dié (Figures S3A and S3B). Culture-independent approach: taxonomic composition of fungal and oomycetal root-associated OTUs (>0.1% RA in at least one site, RDP bootstrap at class level ≥ 0.8) detected in the roots of A. thaliana grown in the same soils used for the culture-dependent approach.
(B) Recovery rates of fungal (upper panel) and oomycetal (lower panel) isolates from the culture collections at different thresholds. The rank abundance plots show the 50 most abundant root-associated fungal and oomycetal OTUs from A. thaliana grown in the above-mentioned soil types together with their cumulative RA. OTUs that have a representative isolate in the culture collections (97% sequence similarity) are highlighted with black bars. The percentages of naturally occurring OTUs recovered as pure cultures are given for OTUs representing 60% and 80% of the total read counts.