Fig. 3

Structure, diversity and composition of the rhizosphere bacterial communities associated with two common bean cultivars non-inoculated or inoculated with Fusarium oxysporum (Fox). Principal coordinate analsyis (CAP) comparing the communities structures in rhizosphere microbiome using (A) 16S and (B) metagenome data. Significant clusters (PERMANOVA, P < 0.05) are indicated by lines in the CAP graphs. (C) Diversity measurements in the rhizosphere microbiome. Asterisks in the diversity graphs indicate signifcant differences based on Tukey’s test (P < 0.05). Linear discriminant analysis (LDA) Effect Size (LEfSe) of microbial taxa enriched after Fox inoculation in the rhizosphere of the fox-resistant cultivar at (D) family and (E) genus level. Comparison of the microbial taxa enriched in the rhizosphere of fox-resistant and susceptible cultivar with fox inoculation at (F) family and (G) genus level. Filled squares at the left side of the graphs indicate the datasets were the differential taxa were found. R = fox-resistant cultivar; Rfox = fox-resistant cultivar infected; S = susceptible cultivar; Sfox – susceptible cultivar infected; Bulk = bulk soil