Fig. 2

Analysis of bacterial communities on seed tubers from different production fields and their roots and daughter tubers the Veenklooster trial field. a Graphic representation of the experimental design. Seed tubers from 3 different production fields of each variety (n = 2) were planted together in a single trial field in Veenklooster (Additional file 1: Fig. S1). For seed tubers from each production field, 4 replicate plots were randomly distributed across this trial field. Roots and daughter tubers from the emerging plants were harvested for microbiome analysis. b PCoA of potato-associated bacterial communities of seed tubers, daughter tubers, and roots. Square symbols represent Variety A and triangle symbols represent Variety B. Colors represent different sample types. Each ellipse represents a 68% confidence region and depicts the spread of data points within each group. c UpSet plot showing the number of bacterial ASVs that are shared between or are unique for seed tubers, daughter tubers and roots of both varieties combined. d Stacked bar chart of the taxonomic composition of bacterial communities of different sample types aggregated at the phylum level. Each stacked column represents an independent sample (n = 216). Different colors within a column represent different phyla. Only the top 10 most-abundant phyla were colored individually, all the rest are colored in gray and listed as “Other phyla”. Samples are clustered by sample type and production field, which is shown by the colored bar on top of the stacked bar chart