Fig 1.
Experimental setup and map of sites (see Acknowledgments for map copyright notice).
Fig 2.
Most abundant (i.e. > 1% of reads) bacterial (A) phyla, (B) families and (C) genera across the experimental treatments. Colours in B and C refer to phylum classification.
Fig 3.
Differences in microbial α diversity between agroecological and conventional farming at low and high altitude.
(A) Inverse Simpson index (IS), (B) Abundance Coverage Estimator (ACE), (C) Shannon-Weiner index (H) and(D) Faith’s Phylogenetic Diversity (PD). Significant differences as detected by ANOVA are indicated.
Table 1.
Hypothesis testing framework and consensus approach (see methods) to verify differences in α and β microbial diversity (detailed results in S2 Table).
Fig 4.
Principal Coordinates Analysis (PCoA) of the microbial communities observed in agroecological and conventional farming at low and high altitude.
Results are based on either ASVs frequencies or centered log-ratio transformed, compositional data (CLR-CoDa). For the different groups, 95% confidence ellipses are indicated.
Fig 5.
Abundance of Romboutsia in conventional and agroecological farming at high altitude.
Fig 6.
Abundance of Lysinibacillus, Empedobacter, Propionispira and Erysipelothrix in conventional and agroecological farming at high altitude.