Helicobacter pylori cagA, iceA and vacA genotypes in patients with gastric cancer in Taiwan

Table 1 Oligonucleotide primers used for cagA, vacA and iceA genotyping

Region detected	Primer designation	Primer sequence	Size of PCR product (bp)	References
s1 and s2	VA1-F	5’ATGGAAATACAACAAACACACC3’	259/286	14
	VA1-R	5’CTGCTTGAATGCGCCAAACTTTATC3’
s1a	SS1-F	5’GTCAGCATCACACCGCAAC3’	190	20
s1b	SS3-F	5’AGCGCCATACCGCAAGAG3’	187	20
s1c	S1C-F	5’CTYGCTTTAGTRGGGYTA3’	213	26
M1	VA3-F	5’GGTCAAAATGCGGTCATGG3’	290	20
	VA3-R	5’CCATTGGTACCTGTAGAAAC3’
M1T	m1T-F	5’GGTCAAAATGCGGTCATGG3’	290	14
	m1T-R	5’CTCTTAGTGCCTAAAGAAACA3’
M2	VA4-F	5’GGAGCCCCAGGAAACATTG3’	352	20
	VA4-R	5’CATAACTAGCGCCTTGCAC3’
iceA1	iceA1F	5’GTGTTTTTAACCAAAGTATC3’	247	21
	iceA1R	5’CTATAGCCASTYTCTTTGCA3’
iceA2	iceA2F	5’GTTGGGTATATCACAATTTAT3’	229	21
	iceA2R	5’TTRCCCTATTTTCTAGTAGGT3’
lcagA	lcagAD008	5’ATAATGCTAAATTAGACAACTTGAGCGA3’	297	8
	lcagAR008	5’TTAGAATAATCAACAAACATCACGCCAT3’

Table 2 Genotypes of H pylori in patients with non-gastric cancer (chronic gastritis, gastric ulcer and duodenal ulcer) (%)

Diagnosis	No of Patients	s1a	s1b	s1c	s2	s1a + s1c	s1as + s1b	s1b + s2	s1a + s1b + s1c	m1	m1T	m2	m1T + m2	cagA	iceA1	iceA2	iceA1 + iceA2
Chronic gastritis	25	21 (84)	0 (0)	14 (56)	0 (0)	11 (44)	0 (0)	0 (0)	0 (0)	0 (0)	8 (32)	12 (48)	2 (8)	22 (88)	22 (88)	2 (8)	0 (0)
Gastritic ulcer	77	59 (77)	1 (1)	42 (55)	0 (0)	36 (47)	0 (0)	0 (0)	0 (0)	0 (0)	11 (14)	45 (58)	1 (1)	63 (82)	54 (70)	17 (22)	3 (4)
Duodenal ulcer	66	47 (71)	8 (12)	37 (56)	2 (3)	30 (45)	7 (11)	2 (3)	4 (6)	2 (3)	14 (21)	27 (41)	7 (11)	54 (82)	49 (74)	10 (15)	3 (5)

P > 0.05 for all genotypes among three groups.

Table 3 Genotypes of H pylori in patients with gastric cancer (GC) and non-gastric cancer (non-GC) (%)

Diagnosis	No of Patients	s1a	s1b	s1c	s2	s1a + s1c	s1a + s1b + s2	s1a + s1b + s1c	m1	m1T	m2	m1T + m2	cagA	iceA1	iceA2	iceA1 + iceA2
GC	66	35b (53)	1 (2)	13l (20)	1 (2)	7 (11)	1 (2)	0 (0)	1 (2)	23a (35)	32h (48)	4 (6)	50 (76)	39f (59)	15 (23)	2 (3)
Non-GC	168	127d(76)	9 (5)	93l (55)	2 (1)	77 (46)	2 (2)	4 (2)	2 (2)	33a (20)	84j (50)	10 (6)	139 (83)	125f (74)	29 (17)	6 (4)

^bP < 0.001 vs s1b, s1c and s2 of non-GC,

^dP < 0.0001 vs m1T, m1 of non-GC,

^fP < 0.0001 vs ice A2 of non-GC,

^hP < 0.001 vs s1c, s1b and s2 of GC,

^jP < 0.0001 vs m1 of GC,

^lP < 0.0001, aP = 0.02.

Table 4 Genotypes of H pylori in patients with early or advanced gastric cancer (%)

Diagnosis	No of Patients	s1a	s1b	s1c	s2	s1a + s1c	s1a + s1b + s2	m1	m1T	m2	m1T + m2	cagA	iceA1	iceA2	iceA1 + iceA2
EGC	7	4 (57)	0 (0)	2 (29)	0 (0)	1 (14)	0 (0)	0 (0)	1 (14)	3 (43)	0 (0)	6 (86)	4 (57)	1 (4)	0 (0)
AGC	59	31 (53)	1 (2)	11 (19)	1 (2)	6 (10)	1 (2)	1 (2)	22 (37)	29 (49)	4 (7)	44 (75)	35 (59)	14 (24)	2 (3)

Table 5 Genotypes of H pylori in patients with advanced gastric cancer according to Borrmann’s classification (%)

Diagnosis	No of Patients	s1a	s1b	s1c	s2	s1a + s1c	s1a + s1b + s2	m1	m1T	m2	m1T + m2	cagA	iceA1	iceA2	iceA1 + iceA2
I	7	4 (57)	0 (0)	2 (29)	0 (0)	1 (14)	0 (0)	0 (0)	5 (71)	1 (14)	0 (0)	5 (71)	5 (71)	1 (14)	0 (0)
II	28	15 (54)	1 (4)	3 (11)	1 (4)	3 (11)	1 (4)	1 (4)	8 (29)	13 (46)	1 (4)	20 (71)	17 (61)	6 (21)	1 (4)
III	13	6 (46)	0 (0)	5 (38)	0 (0)	2 (15)	0 (0)	0 (0)	3 (23)	8 (62)	1 (8)	11 (85)	8 (62)	3 (23)	0 (0)
IV	10	5 (50)	0 (0)	1 (10)	0 (0)	0 (0)	0 (0)	0 (0)	5 (50)	7 (70)	2 (20)	8 (80)	5 (50)	4 (40)	1 (10)

Table 6 Genotypes of H pylori in patients with gastric cancer according to histological classification (%)

Diagnosis	No of Patients	s1a	s1b	s1c	s2	s1a + s1c	s1a + s1b + s2	m1	m1T	m2	m1T + m2	cagA	iceA1	iceA2	iceA1 + iceA2
Intestinal	28	15 (54)	0 (0)	5 (18)	0 (0)	3 (5)	0 (0)	0 (0)	7 (25)	16 (57)	2 (7)	21 (75)	16 (57)	8 (29)	1 (4)
Diffuse	24	12 (50)	1 (4)	4 (17)	1 (4)	2 (8)	1 (4)	0 (0)	9 (38)	10 (42)	1 (4)	18 (75)	15 (63)	4 (17)	1 (4)
mixed	11	5 (45)	0 (0)	3 (27)	0 (0)	1 (9)	0 (0)	1 (9)	5 (45)	5 (45)	1 (9)	9 (82)	6 (55)	3 (27)	0 (0)