Region Amplified | Primer designation | Primer sequence (5' to 3') | Size of PCR product | PCR cycles |
---|---|---|---|---|
CagA | ||||
C-5' | D008 | GGTCAAAATGCGGTCATGG | 297-bp 19 | 1 cycle of 94°C for 5 min, 35 cycles of 94°C for 1 min, 55°C for 1 min and 72°C for 90 sec, 1 cycle of 72°C for 5 min |
R008 | TTAGAATAATCAACAAACATCACGCCAT | |||
Vac A alleles | ||||
S1a | SS1-F | GTCAGCATCACACCGCAAC | 190-bp 19 | 1 cycle of 95°C for 5 min; 35 cycles of 95°C for 1 min, 52°C for 1 min and 72°C for 1 min; 1 cycle of 72°C for 5 min |
VA1-R | CTGCTTGAATGCGCCAAAC | |||
S1b | SS3-F | AGCGCCATACCGCAAGAG | 187-bp 19 | |
VA1-R | CTGCTTGAATGCGCCAAAC- | |||
S2 | SS2-F | GCTAACACGCCAAATGATCC | 199-bp19 | |
VA1-R | CTGCTTGAATGCGCCAAAC | |||
m1 | VA3-F | GGTCAAAATGCGGTCATGG | 290- bp 19 | |
VA3-R | CCATTGGTACCTGTAGAAAC3' | |||
m2 | VA4-F | GGAGCCCCAGGAAACATTG | 352- bp 19 | |
VA4-R | CATAACTAGCGCCTTGCAC | |||
i1 | Vac-F1 | GTTGGGATTGGGGGAATGCCG | 426- bp14 | 1 cycle of 95°C for 90 sec; 35 cycles of 95°C for 30 sec, 53°C for 60 sec and 72°C for 30 sec; 1 cycle of 72°C for 5 min |
C1R | TTAATTTAACGCTGTTTGAAG' | |||
i2 | Vac-F1 | GTTGGGATTGGGGGAATGCCG | 432- bp14 | |
C2R | GATCAACGCTCTGATTTGA |