Diversity of Helicobacter pylori genotypes in Iranian patients with different gastroduodenal disorders

Table 1 Primers used in this study

Gene	Primers (5’→3’)	PCR product (bp)	Annealing temperature (°C)	Ref.
vacA (s1/s2)	VA1F: ATGGAAATACAACAAACACAc	259-286	55	[6]
	VA1R: CTGCTTGAATGCGCCAAAC
vacA (m1/m2)	VACm1m2F: CAATCTGTCCAATCAAGCGAG	567-642	55	[15]
	VACm1m2R: GCGTCAAAATAATTCCAAGG
cagA	CagAF: AATACACCAACGCCTCCAAG	400	59	[16]
	CagAR: TTGTTGCCGCTTTTGCTCTC
iceA1	iceA1F: TATTTCTGGAACTTGCGCAACCTGAT	approximately 900	58	[17]
	M.Hpy1R: GGCCTACAACCGCATGGATAT
iceA2	iceA2 F: CGGCTGTAGGCACTAAAGCTA	approximately 800	58	[17]
	iceA2 R: TCAATCCTATGTGAAACAATGATCGTT
babA	babAF: CCAAACGAAACAAAAAGCGT	271	58	[18]
	babAR: GCTTGTGTAAAAGCCGTCGT
glmM	GlmM2-F GGATAAGCTTTTAGGGGTGTTAGGGG	296	52	[19]
	GlmM1-R GCTTACTTTCTAACACTAACGCGC

Table 2 Association of combined genotypes with pathological conditions in Helicobacter pylori isolates

Combination of genotypes	SCG	SACG2	MACG	MiACG	MCG	H	M	GC	D	Total	P value1
cagA+/vacAs1m2/iceA1+iceA2/babA+	1	12	2	0	0	0	1	0	1	17
cagA+/vacAs1m1/iceA2/babA+	0	3	0	0	0	0	0	0	1	4	0.0252
cagA+/vacAs1m2/iceA1/babA+	0	3	1	0	0	0	1	0	2	7
cagA+/vacAs1m1/iceA1+iceA2/babA+	0	6	1	0	1	0	0	0	0	8
cagA+/vacAs2m2/iceA1+iceA2/babA+	0	1	1	0	0	0	0	0	0	2
cagA+/vacAs0m2/iceA2/babA+	0	0	0	0	0	0	0	0	1	1
cagA+/vacAs1m2/iceA2/babA+	0	1	0	0	0	0	0	1	0	2
cagA+/vacAs2m2/iceA1/babA+	0	0	1	0	0	0	0	0	0	1
cagA+/vacAs2m2/iceA-/babA+	0	1	0	0	0	0	0	0	0	1
cagA+/vacAs1m2/iceA-/babA+	0	1	0	0	0	0	0	0	0	1
cagA-/vacAs1m2/iceA-/babA+	0	3	2	0	1	0	0	0	1	7
cagA-/vacAs1m1/iceA-/babA+	0	1	0	0	1	0	0	0	0	2
cagA-/vacAs2m2/iceA2/babA+	1	0	0	0	2	0	0	0	0	3
cagA-/vacAs1m2/iceA2/babA+	0	2	2	0	0	1	0	0	0	5
cagA-/vacAs2m2/iceA1/babA+	0	1	0	0	0	0	0	0	0	1
cagA-/vacAs1m1/iceA2/babA+	0	0	1	0	0	0	0	0	0	1
cagA-/vacAs2m2/iceA-/babA+	0	3	1	0	0	0	0	0	0	4
cagA-/vacAs1m2/iceA1+iceA2/babA+	0	1	0	0	0	0	0	0	0	1
cagA-/vacAs1m2/iceA1+iceA2/babA-	0	0	0	1	0	0	0	0	0	1
cagA-/vacAs2m2/iceA1/babA-	0	0	1	0	0	0	0	0	1	2
Total	2	39	13	1	5	1	2	1	7	71

¹Only P < 0.05 are indicated;

²This P value is related to severe active chronic gastritis (SACG). SCG: Severe chronic gastritis; MACG: Moderate active chronic gastritis; MiACG: Mild active chronic gastritis; MCG: Moderate chronic gastritis; H: Hyperplasia; M: Metaplasia; GC: Gastric cancer; D: Duodenitis.