Draft genome sequence of Xanthomonas fragariaereveals reductive evolution and distinct virulence-related gene content

Table 3 Major virulence related gene regions in the 5 Xanthomonas genomes compared in the EDGAR analysis

Gene cluster	Xf	Xcc	Xcv	Xoo	Xalb
gum (gumB/gumM)	O1K_14575/O1K_14520	XCC2454/XCC2443	XCV2787/XCV2776	XOO3179/XOO3168	Absent
hrp (hpa2/hpaB)	O1K_02671/O1K_02566	XCC1241/XCC1220	XCV0441/XCV0411	XOO0096/XOO0075	Absent
LPS (metB/etfA)	O1K_19071/O1K_18996	XCC0598/XCC0619	XCV3725/XCV3711	XOO0778/XOO0790	XALc_2712/XALc_2699
rpf (rpfA/rpfG)	O1K_08102/O1K_08072	XCC1860/XCC1854	XCV1924/XCV1917	XOO2865/XOO2871	XALc_1349/XALc_1345
xcs (xcsC/xcsN)	Absent	XCC3416/XCC3426	XCV0755/XCV0765	Absent	Absent
xps (xpsE/xpsD)	O1K_16416/O1K_16366	XCC0660/XCC0670	XCV3658/XCV3668	XOO0847/XOO0857	XALc_2654/XALc_2664
T4SS (virD4/virB6)	O1K_12781/O1K_12736^a	XCC2483/XCC2474^b	XCV2810/XCV2807^c	Absent	XALc_1842/XALc_1835^a,b
Flagellum (fliA/flgM)	O1K_18068/O1K_17833	XCC1906/XCC1955	XCV1977/XCV2036	XOO2621/XOO2836	XALc_1379/XALc_1431

i) the gum gene cluster for extracellular polysaccharide synthesis, ii) the hrp gene cluster for Type III secretion, iii) the gene cluster for lipopolysaccharide (LPS) synthesis, iv) the rpf gene cluster for regulation of pathogenicity, the Type II Secretion System coding gene clusters v) xcs and vi) xps, vii) the gene cluster for the most common Type IV Secretion System in Xanthomonas and viii) the flagellar biosynthesis genes. Gene clusters retrieved in each genome are labeled with the locus tags of their respective first and last genes (names given between parentheses). ^avirD4 absent in this gene region, but replaced by divergent homolog elsewhere in the genome, ^bvirB5 and virB6 missing, ^call genes except virD4, virB8 and virB9 missing.

ISSN: 1471-2164