Fig. 4
Principal coordinate analysis (PCoA) by sample compartment of Bray–Curtis dissimilarity. A Berry, B leaf and C root samples, only the root compartment displays clustering by collection site (right panels, Axis 1 v. 2; left panels, Axis 1 v. 3). For PCoA plots displaying compartments together and additional experimental factors, see Additional file 1: Figs. S6 and S7, respectively. Taxonomic barplots with the relative abundance of the top ten phyla subdivided into the top three classes for root samples, D delineated by collection site, each bar represents an individual sample and samples are ordered according to collection date with the black line denoting collection year. Phyla below the top ten are condensed into the “Low Abundance Taxa” category. E A tile plot summarizes the significant (PFDR < 0.05) impact of the experimental factors on the relative abundance of the top ten phyla (Deinococcota and Firmicutes are omitted as no factors were significant)