Dissecting the bacterial type VI secretion system by a genome wide in silico analysis: what can be learned from available microbial genomic resources?

Table 1 Conserved T6SS homologs

COG id	Gene name	Pseudomonas aeruginosa	Vibrio cholerae	Rhizobium leguminosarum	Salmonella enterica	Edwardsiella tarda	Burkholderia pseudomallei	Burkholderia mallei	Aeromonas hydrophila
		AE004091_GR^a	AE003853_GR^b	AF361470^c	AJ320483^d	AY424360^e	BX571966_GR^f	CP000011_GR^g	CP000462_GR^h
COG3913		PA0076	-	impM	sciT	-	-	-	-
COG3523*	icmf	PA0077	VC_A0120	impL	sciS	evpO	BPSS1511	BMAA0729.1 (tssM)	AHA_1845
COG3455*	ompA/motB/dotU	PA0078	VC_A0115	impK	sciP	evpN	BPSS1510	BMAA0731 (tssL)	AHA_1840
COG3522*		PA0079	VC_A0114	impJ	sciO	evpM	BPSS1509	BMAA0732 (tssK)	AHA_1839
COG3521*		PA0080	VC_A0113	-	sciN	evpL	BPSS1508	BMAA0733 (tssJ)	AHA_1838
COG3456	fha1	PA0081	VC_A0112	impI	-	-	-	-	AHA_1837
COG3515*		PA0082	VC_A0119, VC_A0121	impA	sciA	evpK	BPSS1493	BMAA0747 (bimE)	AHA_1844, AHA_1846
COG3516*	iglA	PA0083	VC_A0107	impB	sciH	evpA	BPSS1496	BMAA0744 (tssA)	AHA_1832
COG3517*	iglB	PA0084	VC_A0108	impC, impD	sciI	evpB	BPSS1497	BMAA0743 (tssB)	AHA_1833
COG3157*	hcp1	PA0085	-	-	sciK, sciM	evpC	BPSS1498	BMAA0742	AHA_1826
COG4455		PA0086	-	impE	sciE	-	-	-	-
COG3518*		PA0087	VC_A0109	impF	sciD	evpE	BPSS1499	BMAA0741 (tssC)	AHA_1834
COG3519*		PA0088	VC_A0110	impG	sciC	evpF	BPSS1500	BMAA0740 (tssD)	AHA_1835
COG3520*		PA0089	VC_A0111	impH	sciB	evpG	BPSS1501	BMAA0739 (tssE)	AHA_1836
COG0542*	clpV1	PA0090	VC_A0116	-	sciG	evpH	BPSS1502	BMAA0738	AHA_1841
COG3501*	vgrG	PA0091, PA0095	VC_A0123	-	vrgS	evpI	BPSS1503	BMAA0737	AHA_1827, AHA_1848
localisation for complete chromosome		83380..122266	115142..141407				2036034..2064669	735641..771918	1990515..2021714
Reference		[4]	[3]	[7]	[49]	[9]	[50]	[8]	[28]

Conserved T6SS homologs together with gene and COG names, encoded in experimentally studied T6SS. ^aPseudomonas aeruginosa (strain LMG 12228/ATCC 15692/PRS 101/1C/PAO1); ^bVibrio cholerae (serovar O1, strain ATCC 39315/El Tor Inaba N16961); ^cRhizobium leguminosarum bv. trifolii imp gene locus, complete sequence; ^dSalmonella enterica subsp. enterica serovar Typhimurium DNA for centisome 7 genomic island; ^eEdwardsiella tarda strain PPD130/91 putative transporting ATPase and hypothetical proteins genes, complete cds; type VI secretion system gene cluster; ^fBurkholderia pseudomallei (strain K96243); ^gBurkholderia mallei (strain ATCC 23344); ^hAeromonas hydrophila (subsp. hydrophila, strain ATCC 7966/NCIB 9240). Not included in tab: Escherichia coli EC042 (no annotated sequence published) [51], Francisella tularensis tularensis (see Result and Discussion) (AJ749949_GR 717996..738073) [33]

ISSN: 1471-2164