Fig. 3: Genome-wide comparative genome analysis between prototrophs and auxotrophs.
From: Metabolic adaptation to vitamin auxotrophy by leaf-associated bacteria
Genomes obtained from RefSeq with the accession numbers in Source Data 5. In all panels, 139 strains that grew in liquid cultures (Supplementary Fig.1) and for which COG annotations were available were included. Auxotrophy status was predicted using the models in Fig. 2 and Table 1. a Genome sizes between auxotrophs and prototrophs. b Number of reactions that require each vitamin-derived coenzyme (x-axis) in strains that are auxotrophic vs. prototrophic for each coenzyme (in separate plots). For example, the first plot at the top left shows a comparison of coenzyme usage of 6 coenzymes between biotin auxotrophs and prototrophs. Metabolic models were obtained by executing CarveMe [33] on the RefSeq accession numbers. c Pathways on which >20% of genes were differentially present between auxotrophs and prototrophs for each vitamin. Here, “underrepresented” refers to less abundant in auxotrophs.
