Table 1.
Details on PCR primers and protocols
| PCR assay | Target gene | Primer | Primer sequence | Thermocycling conditions | Amplicon size (bp) | Refs. |
|---|---|---|---|---|---|---|
| Helicobacter genus | 16 S rRNA | Hcom1 | FW (5′-GTAAAGGCTCACCAAGGCTAT-3′) |
5′ 94 °C 40 × (1′ 94 °C + 1′ 63 °C + 1′72 °C) 5′ 72 °C |
390 | [26] |
| Hcom2 | RV (5′-CCACCTACCTCTCCCACACTC-3′) | |||||
| H. pylori | UreAB | BFHpyl_F1 | FW (5′-AAAGAGCGTGGTTTTCATGGCG-3′) |
4′ 95 °C 45 × (30″ 94 °C + 30″ 59 °C + 1′ 72 °C) 10′ 72 °C |
217 | [27] |
| BFHpyl_R1 | RV (5′-GGGTTTTACCGCCACCGAATTTAA-3′) | |||||
| H. pylori | glmM (UreC) | Hpy3F | FW (5′-TTATCGGTAAAGACACCAGAAA-3′) |
15′ 94 °C 45 × (45″ 94 °C + 45″ 58 °C + 45″ 72 °C) 7′ 72 °C |
144 | [23] |
| Hpy3R | RV (5′-ATCACAGCGCATGTCTTC-3′) | |||||
| First PCR of nested PCR for H. pylori | 23 S rRNA | Hp23S 1835 F | FW (5′-GGTCTCAGCAAAGAGTCCCT-3′) |
2′ 95 °C 5 × (30″ 94 °C + 30″ 57 °C + 30″ 72 °C) 30 × (15″ 94 °C + 15″ 57 °C + 20″ 72 °C) 5′ 72 °C |
493 | [28] |
| Hp23S 2327R | RV (5′CCCACCAAGCATTGTCCT-3′) | |||||
| Second PCR of nested PCR for H. pylori | Hp23S 1942 F | FW (5′-AGGATGCGTCAGTCGCAAGAT-3′) |
2′ 95 °C 15 × (10″ 94 °C + 20″ 63 °C) 5′ 72 °C |
367 | ||
| Hp23S 2308R | RV (5′-CCTGTGGATAACACAGGCCAGT-3′) |