Fig. 1

Enrichment and taxonomic diversity of bacterial taxa in wild and domesticated plant species. a Differential abundance of bacterial OTUs between wild plant accessions and their domesticated counterparts. Presented here are selected pairwise comparisons between (i) wild barley (Hordeum vulgare ssp. spontaneum) and modern barley (Hordeum vulgare ssp. vulgare), (ii) wild lettuce (Lactuca serriola) and cultivated lettuce (Lactuca sativa ssp. capitata), (iii) wild and modern accessions of common bean (Phaseolus vulgaris), and (iv) Cardamine hirsuta and Arabidopsis halleri. Each comparison was made using a zero-inflated Gaussian distribution mixture model followed by moderated t test and a Bayesian approach. Only OTUs significantly enriched in one of the two accessions are shown (FDR < 0.05). The largest circles represent the phylum level, and the inner circles represent the class and family level. The color of the circles represents the OTUs enriched in the rhizosphere/roots of wild relatives (cyan) or of modern crop plants (orange), with the assigned genus in italics. The size of the circle is the mean read relative abundance of the differentially abundant OTU. b Phylogenetic tree of bacterial members of the Bacteroidetes phylum associated with different wild plant species. The Bacteroidetes taxa were selected from microbiome data of wild plant species to construct the phylogenetic tree. The size of the circles corresponds to the relative abundance for each Bacteroidetes taxa. Only the data with a relative abundance higher than 0.1% is depicted in the tree. Each abundance data is the average of at least three samples per plant species and site