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Table 3 Brucella genes in the gene-VO network

From: Ontology-based Brucella vaccine literature indexing and systematic analysis of gene-vaccine association network

Locus Tag

Gene symbol

Gene name

# of associated VO terms

# of papers - All VO terms (Live Attenuated vaccines)

Virulence factor or Protective antigen

Sub-cellular localization (PSORTb 3.0 score)

Nucleotide transport and metabolism

BMEI0296

purE

phosphoribosylaminoimidazole carboxylase, catalytic subunit

11

4 (4)

V

U (2.00)

BMEI0295

purK

phosphoribosylaminoimidazole carboxylase ATPase subunit

4

1 (1)

 

CM (7.88)

Signal transduction mechanisms

BMEI2035

bvrS

sensor histidine kinase BvrS, putative

10

3 (1)

V

CM (10.00)

BMEI0190

ptsP

phosphoenolpyruvate-protein phosphotransferase

5

1 (1)

 

C (9.97)

BMEI2036

bvrR

DNA-binding response regulator BvrR, putative

10

4 (2)

V

C (9.97)

Cell motility

BMEII0150

fliC

flagellin family protein

5

3 (0)

V

E (9.71)

Transcription

BMEII0665

rnr

exoribonuclease, VacB/RNase II family

6

1 (1)

 

C (9.97)

BMEII0427

eryD

erythritol transcriptional regulator

2

1 (0)

 

C (8.96)

BMEII1116

vjbR

transcriptional regulator, LuxR family

10

3 (2)

V

U (2.00)

BMEI0749

rpoB

DNA-directed RNA polymerase subunit beta

6

5 (1)

 

C (9.97)

BMEI1649

ureG-1

urease accessory protein UreG

2

1 (0)

 

C (9.97)

BMEI2036

bvrR

DNA-binding response regulator BvrR, putative

10

4 (2)

V

C (9.97)

Amino acid transport and metabolism

BMEII0404

leuB

3-isopropylmalate dehydrogenase

5

1 (1)

 

C (9.97)

BMEI0101

cysK

Cysteine synthase A

6

1 (1)

V

C (9.26)

BMEI1653

ureB-1

urease subunit beta

3

2 (0)

 

C (9.26)

BMEII0561

gcvP

glycine dehydrogenase

5

1 (0)

V

C (9.97)

BMEI1654

ureA-1

urease subunit gamma

3

2 (0)

 

C (9.26)

BMEII0193

potA

ABC transporter

6

3 (2)

 

C (9.12)

BMEII1054

hisG

ATP phosphoribosyltransferase catalytic subunit

2

1 (0)

 

C (9.97)

BMEII0205

dppF

ABC transporter

6

3 (2)

 

CM (7.88)

BMEI1324

pepN

aminopeptidase N

5

1 (1)

V

C (9.12)

BMEII0407

asd

aspartate-semialdehyde dehydrogenase

6

1 (0)

 

C (9.97)

BMEI1652

ureC-1

urease subunit alpha

3

3 (0)

 

C (9.97)

BMEI0933

cysK

cysteine synthase A

6

1 (1)

V

C (9.97)

Secondary metabolites biosynthesis, transport and catabolism

BMEI1111

acpXL

acyl carrier protein

5

2 (0)

 

C (9.97)

BMEI1475

acpP

acyl carrier protein

5

1 (0)

 

C (9.26)

BMEI0546

pncA

pyrazinamidase/nicotinamidase

2

1 (0)

V

C (9.97)

Cell wall/membrane/envelope biogenesis

BMEI1829

ropB

outer membrane protein, putative

23

37 (17)

 

OM (10.00)

BMEI1237

galE

epimerase/dehydratase family protein, putative

6

3 (1)

V

C (8.96)

BMEI1249

omp25

outer-membrane protein Omp25

11

17 (4)

V, P

OM (10.00)

BMEI0402

omp31-1

outer membrane protein Omp31

23

22 (9)

P

OM (10.00)

BMEII0844

omp31-2

outer membrane protein, 31 kDa

19

17 (7)

 

OM (10.00)

BMEI1413

gmd

GDP-mannose 4,6-dehydratase

5

2 (0)

V

C (9.97)

BMEI0997

wbdA

glycosyl transferase, group 1 family protein

16

3 (1)

V

U (2.00)

BMEI1416

rfbE

O-antigen export system ATP-binding protein RfbE

6

3 (2)

 

CM (7.88)

BMEII0847

wbjE

putative glycosyltransferase

5

1 (0)

 

U (2.00)

BMEI1393

wbpZ

glycosyl transferase, group 1 family protein

5

1 (0)

V

C (9.26)

BMEI1335

omp

outer membrane lipoprotein-related protein

12

5 (2)

 

U (2.00)

BMEI0998

wboA

glycosyl transferase WboA

17

16 (10)

V

C (8.96)

BMEI0340

pal

lipoprotein, Pal family

12

7 (3)

P

OM (10.00)

BMEI0830

yaeT

bacterial surface antigen

23

37 (17)

 

OM (10.00)

BMEI1417

wbkB

wbkB protein

5

2 (0)

V

U (2.00)

BMEI0509

lpcC

lipopolysaccharide core biosynthesis mannosyltransferase LpcC

9

2 (1)

 

C (9.97)

BMEI1414

perA

perosamine synthase, putative

10

3 (1)

V

C (9.97)

BMEII0837

hyaD

glycosyl transferase, group 2 family protein

5

1 (0)

 

CM (9.82)

BMEI1404

wbkA

mannosyltransferase, putative

16

7 (3)

V

C (9.26)

BMEII0253

mepA

penicillin-insensitive murein endopeptidase

5

1 (1)

 

P (9.76)

Energy production and conversion

BMEII0404

leuB

3-isopropylmalate dehydrogenase

5

1 (1)

 

C (9.97)

BMEI0474

petB

ubiquinol-cytochrome c reductase, cytochrome b

12

4 (2)

 

CM (10.00)

BMEII0429

eryB

glycerol-3-phosphate dehydrogenase

2

1 (0)

V

C (9.97)

BMEI0137

mdh

malate dehydrogenase

5

1 (1)

 

U (4.99)

BMEI0140

kgd

alpha-ketoglutarate decarboxylase

11

8 (4)

 

C (9.97)

BMEII0076

tycC

enterobactin synthetase, component F, putative

2

1 (0)

 

C (9.97)

BMEI1547

atpI

ATP sythase protein I, putative

6

1 (1)

 

U (2.00)

Replication, recombination and repair

BMEI0147

xerC

site-specific tyrosine recombinase XerC

5

1 (0)

 

C (9.26)

BMEI0215

ialA

dinucleoside polyphosphate hydrolase

1

1 (0)

 

C (9.97)

BMEI0884

gyrA

DNA gyrase subunit A

2

1 (0)

 

C (9.97)

BMEI0040

xerD

site-specific tyrosine recombinase XerD

5

2 (0)

 

C (9.97)

BMEI0880

ssb

single-stranded DNA-binding protein family

5

2 (1)

 

C (9.26)

BMEI1823

gyrB

DNA gyrase subunit B

2

1 (0)

 

C (9.97)

BMEI1200

parC

DNA topoisomerase IV subunit A

2

1 (0)

 

C (9.12)

BMEI0878

uvrA

excinuclease ABC subunit A

5

2 (1)

V

C (9.97)

BMEI1307

xerC

site-specific recombinase, phage integrase family

5

1 (0)

 

C (9.97)

BMEII0676

parE

DNA topoisomerase IV subunit B

2

1 (0)

 

C (9.97)

BMEI1946

mutM

formamidopyrimidine-DNA glycosylase

1

1 (0)

V

C (9.97)

BMEII0739

alkB

alkylated DNA repair protein AlkB

6

1 (1)

 

U (2.00)

BMEII0184

insN

IS3 family element, transposase orfA

6

1 (1)

 

U (2.00)

BR1202

recA

recombinase A

2

1 (0)

V

C (10.00)

Posttranslational modification, protein turnover, chaperones

BMEI1650

ureF

urease accessory protein UreF, putative

2

1 (0)

 

U (2.00)

BMEII1047

groES

co-chaperonin GroES

1

1 (0)

 

C (9.97)

BMEI1041

sufC

ABC transporter, ATP-binding protein

6

3 (2)

 

C (9.97)

BMEI2001

dnaJ

chaperone protein DnaJ

1

1 (0)

 

C (9.97)

BMEI1330

htrA

serine protease

7

6 (3)

V

P (9.76)

BMEI2002

dnaK

molecular chaperone DnaK

12

7 (2)

V, P

C (9.97)

BMEII1048

groEL

chaperonin GroEL

10

9 (5)

 

C (9.97)

BMEI1655

ureD-1

urease accessory protein UreD

3

2 (0)

 

C (9.26)

BMEI1649

ureG-1

urease accessory protein UreG

2

1 (0)

 

C (9.97)

BMEII0401

trx-2

thioredoxin

5

2 (1)

 

C (9.26)

BMEI1069

tig

trigger factor

10

2 (0)

V, P

C (8.96)

BMEI1651

ureE

urease accessory protein UreE

2

1 (0)

 

C (9.97)

BMEI1060

dsbA

outer membrane protein, putative

23

37 (17)

V

U (2.00)

BMEI2022

trx-1

thioredoxin

5

2 (1)

 

C (9.26)

BMEI1265

surA

peptidyl-prolyl cis-trans isomerase, putative

9

1 (1)

P

P (9.76)

BMEI1492

exsA

ABC transporter, ATP-binding/permease protein

6

1 (1)

V

CM (10.00)

Translation, ribosomal structure and biogenesis

BMEI2010

infC

translation initiation factor IF-3

2

2 (0)

 

C (9.97)

BMEI0826

frr

ribosome recycling factor

5

2 (1)

 

C (9.97)

BMEI0748

rplL

50S ribosomal protein L7/L12

16

17 (6)

P

U (6.49)

BMEI0752

rpsL

30S ribosomal protein S12

5

1 (1)

 

C (9.26)

BMEI1497

tlyA

hemolysin A

1

2 (0)

 

C (8.96)

Inorganic ion transport and metabolism

BMEII0003

modC

molybdenum ABC transporter, ATP-binding protein

6

3 (2)

 

C (9.12)

BMEII0893

katA

catalase

6

2 (0)

 

P (10.00)

BMEII0177

znuC

zinc ABC transporter, ATP-binding protein

6

3 (2)

V

CM (7.88)

BMEI0790

phoA

bacterial alkaline phosphatase

9

7 (2)

 

P (10.00)

BMEII0581

sodC

superoxide dismutase, Cu-Zn

15

14 (8)

V, P

P (10.00)

BMEI1292

fsr

fosmidomycin resistance protein

2

1 (0)

 

CM (10.00)

BMEII0108

tauB

taurine ABC transporter, ATP-binding protein

6

3 (2)

 

CM (9.98)

BMEI0635

cbiO

cobalt ABC transporter, ATP-binding protein

6

3 (2)

 

CM (9.82)

BMEII0704

bfr

bacterioferritin

12

4 (2)

P

C (9.97)

BMEII0178

znuA

zinc ABC transporter, periplasmic zinc-binding protein

9

1 (1)

V

P (9.76)

Coenzyme transport and metabolism

BMEII0589

ribH

riboflavin synthase subunit beta

12

8 (0)

 

C (9.97)

BMEI2029

ahcY

S-adenosyl-L-homocysteine hydrolase

4

1 (1)

 

C (9.97)

BMEI1099

cobT

nicotinate-nucleotide--dimethylbenzimidazole phosphoribosyltransferase

2

1 (0)

 

C (9.97)

BMEI1187

ribH

riboflavin synthase subunit beta

12

8 (0)

 

C (9.97)

Cell cycle control, cell division, chromosome partitioning

BMEII0470

crcB

crcB family protein

5

1 (0)

 

CM (10.00)

General function prediction only

BMEII0288

oppF

peptide ABC transporter, ATP-binding protein

6

3 (2)

 

CM (9.99)

BMEI1081

surE

stationary phase survival protein SurE

8

5 (2)

 

C (8.96)

BMEI0215

ialA

dinucleoside polyphosphate hydrolase

1

1 (0)

 

C (9.97)

BMEI0920

mazG

nucleoside triphosphate pyrophosphohydrolase

5

1 (0)

 

C (8.96)

BMEI1584

ialB

invasion protein B

1

2 (0)

P

U (2.50)

BMEII0355

gal

D-galactose 1-dehydrogenase, putative

5

1 (0)

 

C (9.97)

Lipid transport and metabolism

BMEI1111

acpXL

acyl carrier protein

5

2 (0)

 

C (9.97)

BMEI1553

bacA

transport protein

9

5 (4)

V

CM (10.00)

BMEI1475

acpP

acyl carrier protein

5

1 (0)

 

C (9.26)

Carbohydrate transport and metabolism

BMEII0983

chvE

sugar ABC transporter, periplasmic sugar-binding protein, putative

9

1 (1)

 

U (5.02)

BMEI1394

manA

mannose-6-phosphate isomerase

5

1 (0)

 

C (8.96)

BMEI1237

galE

epimerase/dehydratase family protein, putative

6

3 (1)

V

C (8.96)

BMEII0430

eryA

erythritol kinase

5

2 (1)

 

C (9.26)

BMEI0310

gap

glyceraldehyde-3-phosphate dehydrogenase

5

1 (1)

 

C (9.97)

BMEII0750

smoK

sugar ABC transporter, ATP-binding protein

6

3 (2)

 

CM (9.99)

BMEI1416

rfbE

O-antigen export system ATP-binding protein RfbE

6

3 (2)

 

CM (7.88)

BMEII0940

smoK

sugar ABC transporter, ATP-binding protein

6

3 (2)

 

CM (9.99)

BMEII0625

ugpB

glycerol-3-phosphate ABC transporter, periplasmic glycerol-3-phosphate-binding protein

1

1 (0)

V

P (9.76)

BMEI0309

pgk

phosphoglycerate kinase

6

1 (1)

 

C (9.97)

BMEII0899

manB

phosphoglucomutase, putative

10

3 (1)

V

C (9.26)

BMEII0428

eryC

D-erythrulose-1-phosphate dehydrogenase

9

2 (1)

V

C (8.96)

ABM67295

P39

immunogenic 39-kDa protein

15

7 (3)

P

P (9.44)

BMEII0982

rbsA

sugar ABC transporter, ATP-binding protein, putative

5

1 (1)

 

CM (9.82)

BMEII0355

gal

D-galactose 1-dehydrogenase, putative

5

1 (0)

 

C (9.97)

BMEI1396

pmm

phosphomannomutase, putative

10

5 (1)

V

C (9.97)

BMEII0145

xylG

D-xylose ABC transporter, ATP-binding protein

6

3 (2)

 

CM (7.88)

BMEI1886

pgm

phosphoglucomutase

9

2 (1)

V

C (8.96)

BMEII0251

glk

glucokinase

5

1 (1)

 

C (9.97)

Intracellular trafficking, secretion, and vesicular transport

BMEI1077

yajC

preprotein translocase, YajC subunit

6

1 (1)

 

CM (9.82)

BMEI1076

secD

protein-export membrane protein, SecD/SecF family

6

1 (1)

 

CM (10.00)

BMEII0026

virB2

type IV secretion system protein VirB2

9

3 (1)

V

CM (9.46)

BMEII0028

virB4

type IV secretion system protein VirB4

9

4 (1)

V

CM (10.00)

BMEII0029

virB5

type IV secretion system protein VirB5

9

1 (1)

V

U (2.00)

BMEII0032

virB8

type IV secretion system protein VirB8

9

1 (0)

V

U (2.00)

BMEII0025

virB1

type IV secretion system protein VirB1

5

1 (0)

V

E (9.64)

BMEII0034

virB10

type IV secretion system protein VirB10

5

1 (1)

V

U (4.90)

Unclassified (function unknown)

CAA86936

BLS

Brucella lumazine synthase

19

12 (2)

P

C (9.97)

BMEI1305

omp2b

porin Omp2b

16

21 (9)

 

OM (9.93)

BMEI1306

omp2a

porin Omp2a

13

17 (8)

 

OM (9.93)

BMEI0135

omp19

lipoprotein Omp19

12

10 (5)

V, P

OM (10.00)

BMEII0017

omp10

lipoprotein Omp10

9

6 (2)

V

OM (10.00)

BMEI0536

omp28

immunoreactive 28 kDa outer membrane protein

19

15 (11)

P

P (10.00)

BMEI0330

opgC

opgC protein, putative

5

1 (1)

 

CM (10.00)

BMEI0634

crcB

crcB family protein

5

1 (0)

 

CM (10.00)

BMEI0545

pncA

hypothetical protein

5

1 (0)

V

CM (10.00)

  1. Note: Sub-cellular localization was predicted using PSORTb 3.0 implemented in Vaxign. PSORTb score ranges from 0 (0% probability) to 10 (100% probability). Proteins with a score below 7.44 are classed as unknown. The abbreviations in this table are C (Cytoplasmic), CM (CytoplasmicMembrane), E (Extracellular), OM (OuterMembrane), P (Periplasmic) and U (Unknown).
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