Fig. 2

Principal coordinates analysis (PCoA) plots of Bray–Curtis dissimilarities in the taxonomic (A) and functional (B) groups in root bacterial communities based on count tables derived from the metagenome analysis. A Genus level taxonomy—overall 2630 genera were detected across all 30 samples; similar pattern was observed when using order level as a key for merging the table (Additional file 2: Figure S5). B Functional annotations. Several schemes were used for functional annotation including NOG and SEED and KEGG EC (Additional file 2: Figure S5). Here, we show ordination pattern based on KO annotations. Overall 7741 unique KO categories were identified across all 30 samples. Percentage of variance are indicated in brackets. The treatments were additives (Brassica juncea/Sinapis alba seed meal (BjSa), Brassica napus seed meal and non-treated control-NTC), with two apple rootstocks (M26, G210). Both databases were filtered to at least 50 counts per feature and rarefied