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Fig. 1 | BMC Genomics

Fig. 1

From: Genomics and transcriptomics of Xanthomonas campestris species challenge the concept of core type III effectome

Fig. 1

Comparison of 13 publically available and newly sequenced Xanthomonas campestris proteomes. Orthologous proteins were determined using OrthoMCL software using homogenously re-annotated genomes. a A phylogenetic tree of X. campestris core proteomes (3481 orthologous coding sequences, CDS) was generated using the PhyML software (Default parameters). Bootstrap values are indicated in grey for each branch. b Size of X. campestris core ORFeome was determined considering only CDS with a single ortholog per genome. c Numbers above black bars indicate the size of the pan ORFeome. Only one CDS per orthology group was considered. The number of annotated CDS per genome is indicated (open bar). The number of isolate-specific CDS is given (green bars). d Venn diagram illustrating the number of coding sequences shared among the core ORFeomes (as defined in (b)) in the four X. campestris pathovars. Numbers in brackets indicate the number of genes in the core genome of the pathovars. Xcc (blue): X. campestris pv. campestris, Xci (red): X. campestris pv. incanae, Xcr (black): X. campestris pv. raphani, XcNP (green): X. campestris non-pathogenic

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