TABLE 1.

Primers used for PCR-based genotyping and sequencing of vacA

Primer	Target gene	Nucleotide sequence	Optimal annealing Temp (°C)	Genome positions (expected size [bp])
HP1	16S rRNA	5′GCAATCAGCGTCAGTAATGTTC3′	55	773-1293 (521)a
HP2		5′GCTAAGAGATCAGCCTATGTCC3′
S1a	vacA s1a	5′GTCAGCATCACACCGCAAC3′	55	70-259 (190)a
S-R		5′CTGCTGGAATGCGCCAAAC3′
S1b	vacA s1b	5′AGCGCCATACCGCAAGAG3′	55	73-259 (187)b
S-R		5′CTGCTGGAATGCGCCAAAC3′
S2	vacA s2	5′GCTAACACGGGAAATGATCC3′	55	88-286 (199)c
S2		5′CTGCTGGAATGCGCCAAAC3′
M1	vacA m1	5′GGTCAAAATGCGGTCATGG3′	50	1954-2243 (290)a
M1		5′CCATTGGTACCTGTAGAAAC3′		1948-2237 (290)b
M2	vacA m2	5′GGAGCCCCAGGAAACATTG3′	47	1939-2290 (352)c
M2		5′CATAACTAGCGCCTTGCAC3′

^aH. pylori 26695 (cytotoxic strain with the s1a/m1 vacA type).

^bH. pylori J99 (s1b/m1 vacA type).

^cH. pylori Tx30a (noncytotoxic strain with the s2/m2 vacA type).