Table 3.

H. pylori ORFs that were up- or down-regulated under acidic culture conditionsa

GroupLevel of expression at ptt: ORF no.Putative gene product (gene)
5.57.2
i49,4660HP0110Cochaperone and heat shock protein (grpE)
46,6044,073HP0634Guinone-reactive Ni-Fe hydrogenase (hydD)
96,4644,680HP0632Quinone-reactive Ni-Fe hydrogenase, large subunit (hydB)
113,9520HP1131ATP synthase F1, subunit epsilon (atpC)
68,4100HP1374ATP-dependent protease, ATPase subunit (clpX)
75,5810HP1134ATP synthase F1, subunit alpha (atpA)
49,0900HP1174Glucose-Galactose transporter (gluP)
77,1730HP1263NADH-ubiquinone oxidoreductase, NQO4 subunit (NQO4)
51,0342,264HP0010-2Chaperone and heat shock protein (groEL)
19,0240HP1562Iron(III) ABC transporter, periplasmic iron-binding protein (ceuE)
54,5760HP1072Copper-transporting ATPase, P type (copA)
40,839879HP0853ABC transporter, ATP-binding protein (yheS)
72,5523,597HP0300Dipeptide ABC transporter, permease protein (dppC)
22,5051,879HP1011Dihydroorotate dehydrogenase (pyrD)
40,4940HP0194Triosephosphate isomerase (tpi)
80,2300HP0140l-Lactate permease (lctP)
ii66,5570HP0150Hypothetical protein
18,0290HP0831Conserved hypothetical ATP binding protein
91,9344,092HP0487Hypothetical protein
52,2183,854HP0406Hypothetical protein
29,7901,756HP1440Hypothetical protein
41,7831,735HP1363Conserved hypothetical integral membrane protein
58,2743,196HP1335Conserved hypothetical protein
39,3150HP1175Conserved hypothetical integral membrane protein
18,625988HP0595Hypothetical protein
64,3830HP0156Hypothetical protein
34,0195,719HP0746Hypothetical protein
103,79919,796HP1037Conserved hypothetical protein
109,2480HP1162Conserved hypothetical integral membrane protein
61,191654HP1163Hypothetical protein
39,2041,668HP1211Hypothetical protein
62,7610HP0270Hypothetical protein
68,3240HP0880Hypothetical protein
104,1570HP1214Conserved hypothetical protein
50,423887HP0222Hypothetical protein
92,4855,194HP0983Conserved hypothetical integral membrane protein
58,3922,075HP0232Secreted protein involved in flagellar motility
iii52,0510HP1201Ribosomal protein L1 (rpl1)
92,2560HP1300Preprotein translocase subunit (secY)
54,2640HP0588Ferrodoxin-like protein
40,8180HP0911rep helicase, single-stranded DNA-dependent ATPase (rep)
49,9730HP1304Ribosomal protein L6 (rpl6)
94,1543,953HP1104Cinnamyl-alcohol dehydrogenase ELI3-2 (cad)
75,662898HP1470DNA polymerase I (polA)
80,2920HP0196UDP-3-0-(3-hydroxymyristoyl) glucosamine N-acyltransferase (lpxD)
84,5451,021HP0214Sodium-dependent transporter (huNaDC-1)
28,5052,112HP0743Rod shape-determining protein (mreB)
89,3361,948HP0830Amidase
58,5420HP0331Cell division inhibitor (minD)
42,2860HP0237Porphobilinogen deaminase (hemC)
63,7281,477HP0265Cytochrome c biogenesis protein (ccdA)
38,5110HP0295Flagellin B homolog (fla)
88,959865HP1209Ulcer-associated gene restriction endonuclease (iceA)
15,8160HP1050Homoserine kinase (thrB)
21,6970HP1539Ubiquinol cytochrome coxidoreductase, cytochrome b subunit (fbcH)
53,7771,371HP1540Ubiquinol cytochrome coxidoreductase, Rieske 2Fe-2S subunit (fbcF)
30,0780HP1035Flagellar biosynthesis protein (flhF)
42,5400HP0680Ribonucleoside-diphosphate reductase 1, alpha subunit (nrdA)
79,4271,565HP0786Preprotein translocase subunit (secA)
57,4991,007HP0103methyl-accepting chemotaxis protein (tlpB)
109,9743,501HP1069Cell division protein (ftsH)
19,7210HP1543toxR-activated gene (tagE)
108,0011,634HP0825Thioredoxin reductase (trxB)
72,7621,842HP1190Histidyl-tRNA synthetase (hisS)
59,3531,438HP0348Single-stranded-DNA-specific exonuclease (recJ)
5.57.2
21,0810HP0286Cell division protein (ftsH)
50,4330HP0370Biotin carboxylase (accC)
72,2580HP0480GTP-binding protein, fusAproduct homolog (yihK)
26,3810HP0123Threonyl-tRNA synthetase (thrS)
21,9510HP0099methyl-accepting chemotaxis protein (tlpA)
71,2101,754HP0183Serine hydroxymethyltransferase (glyA)
115,4740HP0407Biotin sulfoxide reductase (bisC)
12,2660HP1139SpoOJ regulator (soj)
84,90711,995HP0634Quinone-reactive Ni-Fe hydrogenase (hydD)
53,4685,219HP0572-2Adenine phosphoribosyltransferase (apt)
166,460HP1372Rod shape-determining protein (mreC)
107,01614,166HP0632Quinone-reactive Ni-Fe hydrogenase, large subunit (hydB)
104,7050HP1290Nicotinamide mononucleotide transporter (pnuC)
21,7404,465HP1448Ribonuclease P, protein component (rnpA)
Down-regulated4,01629,484HP0947Hypothetical protein
1,30811,868HP0918Hypothetical protein
3,71223,231HP1271NADH-ubiquinone oxidoreductase, NQO12 subunit (NQO12)
2,77931,518HP1272NADH-ubiquinone oxidoreductase, NQO13 subunit (NQO13)
  • a A total of 80 ORFs had increased expression levels during acid stress: group i, ORFs that were known corresponded to acid stress; group ii, those without database match; and group iii, ORFs that were not reported to be related to acid response. Four ORFs had decreased expression levels under acid conditions (Down-regulated).