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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).