mRNA expression profiling reveals a role of Helicobacter pylori vacuolating toxin in escaping host defense

Table 1 Differentially expressed genes related to immune evasion

GeneBank_ID	Definition	Fold change
		2 h	6 h	10 h	24 h
NM_004517	Integrin-linked kinase (ILK)	0.717	0.218	0.245	0.454
NM_001964	Early growth response 1 (EGR1)	3.184	1.149	—	— -
NM_022555	Major histocompatibility complex, class II, DR beta 3 (HLA-DRB3)	1.000	0.448	0.518	0.621
NM_002116	Major histocompatibility complex, class I, A (HLA-A)	0.584	0.322	0.336	— -
NM_002124	Major histocompatibility complex, class II, DR beta 1 (HLA-DRB1)	—	0.661	0.485	0.567
NM_002817	Proteasome (prosome, macropain) 26S subunit, non-ATPase, 13 (PSMD13)	0.445	0.122	0.333	0.402
NM_004159	Proteasome (prosome, macropain) subunit, beta type, 8	0.573	0.150	0.304	0.254
	(large multifunctional protease 7) (PSMB8)
NM_000616	CD4 antigen (p55) (CD4)	0.855	0.560	0.317	0.831
NM_015953	eNOS interacting protein (NOSIP),	0.857	0.517	0.450	0.463
NM_020998	Macrophage stimulating 1 (hepatocyte growth factor-like) (MST1)	0.690	0.562	0.353	— -
NM_005944	Antigen identified by monoclonal antibody MRC OX-2 (MOX2)	1.514	1.027	2.042	— -
NM_021138	TNF receptor-associated factor 2 (TRAF2)	0.817	0.773	0.713	0.465
NM_004001	Fc fragment of IgG, low affinity IIb, receptor for (CD32) (FCGR2B)	0.581	0.569	0.467	— -
NM_001100	Actin, alpha 1, skeletal muscle (ACTA1)	0.368	0.266	0.139	— -
NM_001615	Actin, gamma 2, smooth muscle, enteric (ACTG2)	0.419	0.229	0.191	- —
NM_005718	Actin related protein 2/3 complex, subunit 4 (20 ku) (ARPC4)	0.461	0.362	0.370	0.611
NM_020040	Tubulin, beta polypeptide 4, member Q (TUBB4Q)	0.462	0.345	0.335	0.573
NM_006009	Tubulin, alpha 3 (TUBA3)	1.062	0.710	0.484	0.885
NM_001665	ras homolog gene family, member G (rho G) (ARHG)	0.590	0.445	0.524	0.590
AB055890	c-lbc mRNA for guanine nucleotide exchange factor Lbc	1.065	0.315	0.701	0.433
NM_006400	Dynactin 2 (p50) (DCTN2)	0.865	0.361	0.334	— -
NM_005428	vav 1 oncogene (VAV1)	0.510	0.421	0.387	— -
NM_005993	Tubulin-specific chaperone d (TBCD)	0.770	0.485	0.524	— -
NM_001747	Capping protein (actin filament), gelsolin-like (CAPG)	0.512	0.213	0.191	0.323

Table 2 Ratio of expression values obtained in U937 cells cocultured with H pylori NCTC11638 versus those cocultured with 11638-△vacA as assessed by microarray analysis and Northern blot

GeneBank ID	Gene product	Microarray ratio				Northern blot ratio
		2 h	6 h	10 h	24 h	2 h	6 h	10 h	24 h
NM_002817	PSMD13	0.445	0.122	0.333	0.402	0.07	0.71	0.25	0.33
NM_004517	ILK	0.717	0.218	0.245	0.454	0.57	0.19	0.43	0.15