This dataset includes generated genome annotation for the 17 strains as Data S1, and comparative statistics and orthogroup analyses for these genomes, performed using OrthoFinder, as Data S2. R scripts utilized for analyzing the data, are stored in a code repository in Data S5. Comparative statistics and orthogroup information for 675 publicly available Xanthomonas genomes which include a type T3SS are detailed in Data S6, along with their respective genome accession numbers. Raw DESeq2 results and MultiQCs of read mapping, PCA, MA and Volcano plots are available in Data S3. Finally, information on the coverage of hrpG*/hrpG transcript reads against the endogenous hrpG gene is available id Data S4.