Table 1.

(A) Identification of potential virulence factors in the genome of Bacteroides ovatus ELH-B2 according to VFDB database; (B) prediction of putative genomic islands of over 30 kb in the genome of B. ovatus ELH-B2; (C) comparison of Bacteroides-specific virulence genes in B. ovatus ELH-B2 and JCM5824.

(A)
VFDB_ID	Name	Description	Original source	Identity	Coverage	e-value
VFG000077	clpP	ATP-dependent Clp protease proteolytic subunit	Listeria monocytogenes EGD-e	54%	76%	3.00E-67
VFG000165	pchF	Pyochelin synthetase PchF	Pseudomonas aeruginosa PAO1	71%	88%	6.00E-04
VFG000321	rfbD	GDP-D-mannose dehydratase	Helicobacter pylori 26695	59%	74%	2.00E-136
VFG000366	ybtQ	Inner membrane ABC-transporter YbtQ	Yersinia pestis CO92	56%	72%	3.00E-04
VFG000574	mgtB	Mg2+ transport protein	Salmonella enterica subsp. enterica serovar Typhimurium str. LT2	55%	72%	0.00E+00
VFG000696	bexA	ATP-dependent polysaccharide export protein BexA	Haemophilus influenzae str. 1007	49%	78%	1.00E-07
VFG001266	pchI	ABC transporter ATP-binding protein	Pseudomonas aeruginosa PAO1	53%	76%	1.00E-05
VFG001269	cyaB	Cyclolysin secretion ATP-binding protein	Bordetella pertussis Tohama I	59%	75%	8.00E-04
VFG001301	cap8E	Capsular polysaccharide synthesis enzyme Cap8E	Staphylococcus aureus subsp. aureus MW2	63%	78%	1.00E-137
VFG001303	cap8G	Capsular polysaccharide synthesis enzyme Cap8G	Staphylococcus aureus subsp. aureus MW2	57%	72%	1.00E-140
VFG001341	cpsJ	Glycosyl transferase CpsJ(V)	Streptococcus agalactiae 2603V/R	58%	78%	6.00E-10
VFG001342	cpsO	Glycosyl transferase CpsO(V)	Streptococcus agalactiae 2603V/R	56%	76%	3.00E-14
VFG001374	cps4J	Capsular polysaccharide biosynthesis protein Cps4J	Streptococcus pneumoniae TIGR4	72%	85%	1.00E-160
VFG001375	cps4K	Capsular polysaccharide biosynthesis protein Cps4K	Streptococcus pneumoniae TIGR4	61%	78%	1.00E-169
VFG001376	cps4L	UDP-N-acetylglucosamine 2-epimerase	Streptococcus pneumoniae TIGR4	79%	90%	0.00E+00
VFG001855	htpB	Hsp60, 60K heat shock protein HtpB	Legionella pneumophila subsp. pneumophila str. Philadelphia 1	59%	77%	2.00E-168
VFG001937	Cj1136	Glucosyltransferase	Campylobacter jejuni NCTC11168	48%	70%	7.00E-14
VFG001939	Cj1138	Glycosyltransferase	Campylobacter jejuni NCTC11168	47%	74%	2.00E-13
VFG001940	wlaN	Beta-1,3 galactosyltransferase	Campylobacter jejuni NCTC11168	50%	76%	1.00E-12
VFG001968	Cj1440c	Sugar transferase	Campylobacter jejuni NCTC11168	49%	70%	1.00E-11
VFG002181	cpsJ	ABC transporter, ATP-binding protein	Enterococcus faecalis V583	58%	76%	1.00E-03
VFG002187	cpsD	Glycosyl transferase, group 2 family protein	Enterococcus faecalis V583	36%	71%	3.00E-12
VFG002225	gmd	GDP-mannose 4,6-dehydratase	Brucella melitensis bv. 1 str. 16M	69%	81%	2.00E-156
VFG002365	gmd	GDP-mannose 4,6-dehydratase	Yersinia enterocolitica 8081	64%	78%	2.00E-151
VFG002368	wbcG	Putative glycosyltransferase	Yersinia enterocolitica 8081	50%	78%	2.00E-09
VFG002376	ddhB	CDP-glucose 4,6-dehydratase	Yersinia enterocolitica 8081	49%	71%	5.00E-113
VFG002377	ddhA	Glucose-1-phosphate cytidylyltransferase	Yersinia enterocolitica 8081	58%	74%	2.00E-94
VFG002440	bprB	Two-component response regulator	Burkholderia pseudomallei K96243	50%	72%	6.00E-07
VFG002480	tssH-5/clpV	Clp-type ATPase chaperone protein	Burkholderia pseudomallei K96243	56%	74%	2.00E-83
VFG002563	wzt2	ATP-binding ABC transporter capsular polysaccharide export protein	Burkholderia pseudomallei K96243	51%	80%	3.00E-06
VFG005773	cylZ	3R-hydroxymyristoyl ACP dehydratase CylZ	Streptococcus agalactiae 2603V/R	52%	86%	5.00E-04
VFG011414	kdsA	2-dehydro-3-deoxyphosphooctonate aldolase	Brucella melitensis bv. 1 str. 16M	53%	70%	1.00E-65
VFG011430	acpXL	Acyl carrier protein	Brucella melitensis bv. 1 str. 16M	64%	80%	2.00E-24
VFG012509	iroC	ATP binding cassette transporter	Escherichia coli CFT073	45%	71%	4.00E-05
VFG013354	kfiC	Lipopolysaccharide biosynthesis protein	Haemophilus influenzae Rd KW20	47%	83%	2.00E-14
VFG013368	rffG	dTDP-glucose 46-dehydratase	Haemophilus influenzae Rd KW20	50%	70%	3.00E-99
VFG013471	lgtA	N-acetylglucosamine glycosyltransferase	Haemophilus influenzae Rd KW20	48%	80%	2.00E-10
VFG037028	katA	Catalase	Neisseria meningitidis MC58	71%	82%	0.00E+00
VFG037386	bauE	Ferric siderophore ABC transporter, ATP-binding protein BauE	Acinetobacter baumannii ACICU	42%	70%	8.00E-05
VFG038722	AHA_1389	CobQ/CobB/MinD/ParA family protein	Aeromonas hydrophila ATCC7966	51%	71%	5.00E-04
VFG038918	rtxE	RTX toxin transporter, ATPase protein	Aeromonas hydrophila ATCC7966	63%	77%	2.00E-05
VFG043373	cheA	Histidine kinase CheA	Helicobacter pylori 26695	39%	70%	5.00E-04
VFG043394	cheA	Chemotaxis histidine kinase	Campylobacter jejuni NCTC11168	34%	70%	7.00E-04
VFG045340	ricA	Rab2 interacting conserved protein A	Brucella melitensis bv. 1 str. 16M	43%	75%	6.00E-07

(B)
Island no.	Genes in island	Size (kb)	Potential functional genes within island
1	g0188–g0233	37.2	Zeta-toxin (g0214); antitoxin (g0215)
2	g0842–g0866	35.3	Arabinan endo-1,5-alpha-L-arabinosidase (g0844); SusC/RagA family TonB-linked outer membrane protein (g0846); glycosyl hydrolase (g0842, g0851, g0854)
3	g0978–g1164	170	Thiamine biosynthesis protein ApbE (g0984); tonB-linked outer membrane, SusC/RagA family protein (g1005, g1062, g1092); CepA family class A extended-spectrum beta-lactamase (g1025); xylulokinase (g1107)
4	g1544–g1594	34.9	Type IV secretory pathway TrbF components (g1575)
5	g1605–g1720	105.8	Glycosyl transferase 2 family protein (g1616, g1619); two-component sensor histidine kinase (g1646);, TonB-dependent receptor (g1709)
6	g1837–g1864	32.2	Membrane protein (g1855); iron ABC transporter ATP-binding protein (g1864)
7	g2583–g2631	33.3	Redox-active disulfide protein (g2584); thioredoxin (g2585); conjugal transfer protein TraG (g2600, g2610), TraA (g2605), TraH (g2611), TraJ (g2613), TraK (g2614), TraM (g2616), TraN (g2617)
8	g2866–g2999	91.7	Phage Mu F like family protein (g2947); phage tail tape measure protein, TP901 family, core region (g2955); toxin-antitoxin system, antitoxin component, MerR family (g2998)
9	g3114–g3160	41.2	N-acetylmuramoyl-L-alanine amidase (g3133)

(C)
Potential virulence factors	GenBank accession number	Size (aa)	% Similarity in B. ovatus ELH-B2	% Similarity in B. ovatus JCM5824	Reference
bft	AAF72837.1	63	No hit	No hit	Gutacker et al., 2000
ompW	AAL09385.1	947	95% (904/947)	95% (901/947)	Wei et al., 2001
upaY	AAK68912.1	172	29% (48/163)	30% (48/160)	Coyne et al., 2001
upaZ	AAK68913.1	157	No hit	No hit
wcfR	AAK68921.1	407	20% (88/407)	25% (101/395)
wcfS	AAK68922.1	198	48% (68/141)	48% (68/141)
cfiA	AAK71520	111	No hit	No hit	Gutacker et al., 2002
cfxA	CAP78899.1	306	40% (111/273)	40% (110/273)	Garcia et al., 2008
cepA	AAA21538.1	300	77% (233/299)	77% (233/299)	Rogers et al., 1994