Protein signature characterizing Helicobacter pylori strains of patients with autoimmune atrophic gastritis, duodenal ulcer and gastric cancer

De Re, Valli; Repetto, Ombretta; Zanussi, Stefania; Casarotto, Mariateresa; Caggiari, Laura; Canzonieri, Vincenzo; Cannizzaro, Renato

doi:10.1186/s13027-017-0133-x

Table 2 Differentially expressed proteins of Helicobacter pylori related to autoimmune atrophic gastritis (AAG), duodenal ulcer (DU) or gastric cancer (GC)

From: Protein signature characterizing Helicobacter pylori strains of patients with autoimmune atrophic gastritis, duodenal ulcer and gastric cancer

ID^(a)	Fold △^(b)	Spot nr.	MW Da/pI	Accession number^(c)	Protein name, gene name^(d)	H. pylori strain	Score	Sequence Coverage	p-value	MS
AAG	9.31	13	27557/9.68	gi\|238057731	tRNA pseudouridine synthase A, truA	H. pylori P12	32	26%	0.0024	MALDI-TOF
AAG	7.15	254	6644/10.96	gi\|226703094	50S ribosomal protein L30, rpmD	Leptothrix cholodnii	37	30%	0.0045	MALDI-TOF
AAG	4.75	168	22335/5.88	gi\|2507172	Probable peroxiredoxin or 26 kDa antigen, trxB	H. pylori	82	52%	0.00072	MALDI-TOF
DU	3.25	212	30558/6.6	O25984	4-diphosphocytidyl-2-C-methyl-D-erythritol kinase, ispE	H. pylori	32	11%	0.043	MALDI-TOF
DU	3.13	227	13411/6.1	B2UW13	10 kDa chaperonin or GroES protein, groS	H. pylori Shi470	80	42%	3.71E10-3	MALDI-TOF
DU	2.92	77	41655/5.92	gi\|15611604	2-oxoglutarate-acceptor oxidoreductase subunit, oorA	H. pylori P12	216	31%	3.42E-03	LC-MS/MS
DU	2.92	273	42658/6.04	METK_HELPG	S-adenosylmethionine synthase, metK	H. pylori G27	112	31%	3.42E-03	LC-MS/MS
DU	2.75	149	28658/7.3	E1PY38	Putative heme iron utilization protein, HPSJM 01705	H. pylori SJM180	78	50%	6.27E10-3	MALDI-TOF
DU	2.67	204	16812/5.69	gi\|560032	Neutrophil activating protein, napA	H. pylori	416	43%	0.029	LC-MS/MS
AAG	2.65	33	61816/5.64	gi\|57014163	Urease β subunit, ureB	H. pylori J99	102	46%	0.014	MALDI-TOF
DU	2.49	85	38364/6.2	E1Q554	Aliphatic amidase, amiE	H. pylori PeCan4	80	31%	0.020	MALDI-TOF
AAG	2.48	57	67136/4.99	gi\|226738136	Chaperone protein dnaK or Heat shock 70 kDa protein, grpE	H. pylori Shi470	32	8%	0.0075	MALDI-TOF
AAG	2.44	34	61846/5.64	gi\|57014163	Urease β subunit, ureB	H. pylori P12	75	37%	0.0024	MALDI-TOF
DU	2.36	267	58700/8.6	B5Z7N5	Catalase, katA	H. pylori G27	43	24%	1.38E-03	MALDI-TOF
DU	2.36	268	58700/8.6	B5Z7N5	Catalase, katA	H. pylori G27	79	34%	1.38E-03	MALDI-TOF
AAG	2.22	166	22335/5.88	gi\|2507172	Probable peroxiredoxin or 26 kDa antigen, trxB	H. pylori P12	97	48%	0.0013	MALDI-TOF
DU	2.21	258	22314/5.16	SCOB_HELPJ	Succinyl-CoA:3-ketoacid coenzyme A transferase subunit B, scoB	H. pylori	325	16%	8.92E10-3	LC-MS/MS
AAG	2.11	39	58706/8.70	gi\|2493545	Catalase, katA	H. pylori	106	30%	0.0033	MALDI-TOF
DU	2.08	190	18528/5.1	B6JKY5	3-dehydroquinate dehydratase, aroQ	H. pylori	32	24%	4.37E-04	MALDI-TOF
DU	1.97	265	52416/6.48	gi\|317181962	Aspartate ammonia-lyase, aspA	H. pylori F57	345	29%	1.76E-05	LC-MS/MS
DU	1.9	266	55022/6.50	gi\|317009453	Leucyl aminopeptidase, pepA	H. pylori India7	283	25%	1.76E-08	LC-MS/MS
DU	1.9	249	14685/4.65	gi\|122695106	Inorganic phyrophosphatase, ppa	H. pylori	425	34%	4.22E10-3	LC-MS/MS
DU	1.8	168	22335/5.9	P21762	Probable peroxiredoxin, tsaA	H. pylori	48	56%	0.02	MALDI-TOF
DU	1.75	271	47660/6.7	Q9ZN36	Isocitrate dehydrogenase, icd	H. pylori J99	70	30%	1.76E-03	MALDI-TOF
DU	1.75	270	47660/6.7	Q9ZN36	Isocitrate dehydrogenase, icd	H. pylori J99	49	8%	1.76E-05	MALDI-TOF
DU	1.69	253	12018/5.16	THIO HELPJ	Thioredoxin, trxA	H. pylori J99	1159	56%	1.24E10-3	LC-MS/MS
DU	1.64	176	22518/7.57	gi\|298735719	Orotate phosphoribosyltransferase, pyrE	H. pylori B8	130	13%	1.59E-03	LC-MS/MS
AAG	1.62	65	20180/5.84	gi\|208432952	Peptidoglycan-associated lipoprotein, pal	H. pylori G27	41	17%	0.027	MALDI-TOF
DU	1.6	244	17495/4.45	gi\|108563525	Flavodoxin, fldA	H. pylori HPAG1	1590	79%	4.85E-05	LC-MS/MS
DU	1.5	272	41575/5.98	gi\|317012405	2-oxoglutarate-acceptor oxidoreductase subunit, oorA	H. pylori Lithuania75	173	33%	7.33E–03	LC-MS/MS
AAG	1.47	77	74074/5.11	gi\|12230111	Flagellar hook-associated protein 2, fliD	H. pylori J99	39	10%	0.045	MALDI-TOF
AAG	1.42	111	67838/6.17	gi\|1706274	Bifunctional enzyme cysN/cysC, cysN	Mycobacterium tuberculosis	44	14%	0.073	MALDI-TOF
DU	−1.57	233	11804/10.25	RL21 HELHP	50S ribosomal protein L21, rplU	H. hepaticus ATCC 51449	61	9%	0.026	LC-MS/MS
DU	−1.65	95	38570/5.0	Q9ZJT5	DNA-directed RNA polymerase subunit alpha, rpoA	H. pylori J99	35	18%	3.26E-05	MALDI-TOF
AAG	−1.68	63	43734/5.17	gi\|2494256	Elongation factor Tu, tuf	H. pylori	79	33%	9.00E-05	MALDI-TOF
DU	−1.7	262	25909/5.27	gi\|15611222	Transcriptional regulator, jhp 0381	H. pylori J99	312	36%	0.049	LC-MS/MS
DU	−1.73	234	10402/9.37	DBH HELPJ	DNA-binding protein HU, hup HP 0835	H. pylori J99	52	11%	0.040	LC-MS/MS
DU	−1.79	231	13411/6.12	CH10 HELPS	10 kDa chaperonin, groS	H. pylori Shi470	53	25%	8.96E10–3	LC-MS/MS
DU	−2.1	232	49972/6.6	Q1CTD7	Ribosomal protein S12 methylthiotransferase, rimO	H. pylori HPAG1	32	13%	2.43E–03	MALDI-TOF
DU	−2.39	141	63933/8.9	E1Q0U8	DNA primase, dnaG	H. pylori SJM180	45	17%	9.87E–05	MALDI-TOF
DU	–2.4	89	43734/5.2	P56003	Elongation factor Tu, tuf	H. pylori	87	51%	8.57E–06	MALDI-TOF
AAG	−2.43	40	55280/5.29	gi\|226739893	ATP synthase subunit alpha or F-ATPase subunit alpha, atpA	H. pylori	140	32%	0.0034	MALDI-TOF
AAG	−2.44	42	53252/6.04	gi\|60392282	Flagellin A, flhA	H. pylori J99	88	30%	0.0098	MALDI-TOF
AAG	−2.48	141	63933/8.9	E1Q0U8	DNA primase, dnaG	H. pylori SJM180	45	17%	0.0089	MALDI-TOF
AAG	−2.9	89	43734/5.17	gi\|2494256	Elongation factor Tu, tuf	H. pylori	90	33%	0.00013	MALDI-TOF
AAG	−5.35	248	22335/5.88	gi\|2507172	Probable peroxiredoxin or 26 kDa antigen, trxB	H. pylori	44	34%	0.00095	MALDI-TOF
AAG	−6.58	35	58321/5.44	gi\|226704136	60 kDa chaperonin, GroL	H. pylori P12	68	23%	0.0011	MALDI-TOF

^(a)DU: differential spots of H. pylori isolated from DU versus GC (fold △values >1.5 or <1.5 indicate increase or decrease in content, respectively, in DU-H. pylori); AAG: differential spots of H. pylori isolated from AAG versus GC (fold △values >1.5 or <1.5 indicate increase or decrease in content, respectively, in AAG-H. pylori); ^(b)fold difference calculated as log standardized abundance fold change; ^(c)accession number of NCNInr or SwissProt databases;^(d)gene names released by HUGO Gene Nomenclature Committee, or gene names adopted by STRING when different from HUGO ones

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