Functional categorization of non-synonymous SNVs.

* = Genes were grouped into functional categories based on their COG annotation in the Burkholderia.com database [39]. SNVs included in this analysis were only those for which there was a confident base-pair call in all three isolates (C3921, C8963 and C9343). In addition to these SNVs, 4 others were detected in C8963 for which there was not a confident base-pair call in C9343, these were 2 genes involved in secretion (BCAL1679 and BCAL3527/gspD); one gene involved in iron acquisition (BCAL1698/orbK); and one gene involved in antibiotic resistance (BCAM2615/penA). There were also 4 genes with SNVs in C8963 and C9343 relative to J2315 for which there weren’t confident base-pair call. These were 1 gene involved in antibiotic resistance (BCAL2957/gyrA) and, 3 SNVs in 2 genes of unknown function (2 in BCAM0467 and 1 in BCAM0468)Functional categorization of non-synonymous SNVs.