Microbial community composition

\label{microbial-community-composition}
We identified a shift in microbial community composition in relation with the farming system, and the magnitude of this shift depend strongly on the site effect. We would like now to identify which taxa are responsible of this pattern, i.e. which taxa respond significantly to the farming system in each site. Results identify 545 bacterial (total 1633) and 379 fungal OTUs (total 562) to respond significantly to the farming system at the sand site.
The same analysis was done at the phylum level.
The response of microbial communities to the farming system at the phylum level was strongly related to the site (Figure XX). For bacteria, we focus on phylum higher than 1% of abundance. At the both sites, Nitrospirae shown to positively respond to organic farming.
Results show Glomeromycota to respond positively to organic farming at the silt site, while no response to the farming system associated to the sand site was noticed. Chytridiomycota also showed a positive response to organic farming at the silt site, while the same phylum responded positively to conventional farming at the sand site.