Table 1.
Characteristics of 26 Peruvian H. pylori isolates obtained from Amerindians and distribution, presence/absence and or rearrangement of various gene loci in their genomes; 0 – region not amplified, 1 – region present.
| Strains | Diagnostic PCR | Phylogenetic placement | oipA status | cagA genotype | cag-PAI spanning PCR | ||||||||||||
| cagA | GlmM | FAFLP/MLST | babB | oipA | No. of CT | Frame | gene | EPIYA motif | cagAP1 | cagAP2 | cagA1 | cagA2 | cagE | cagT | LEC1 | LEC2 | |
| A) Native Peruvian Strains | |||||||||||||||||
| SJM184 | 1 | 1 | hp Europe | Modern | Eastern | 5 | Out | 1 | EPIYA A, B, C | 1 | 1 | 1 | 1 | 1 | 1 | 1 | 1 |
| SJM80 | 1 | 1 | hp Europe | Modern | Western | 6 | Out | 1 | EPIYA A, B, C | 1 | 1 | 0 | 1 | 1 | 1 | 1 | 1 |
| SJM83 | 1 | 1 | hsp Amerind | Amerind | Western | 6 | Out | 1 | EPIYA A, B, C | 1 | 1 | 1 | 1 | 1 | 1 | 1 | 1 |
| SJM92 | 1 | 1 | hsp Amerind | Amerind | Eastern | 3 | In | 1 | EPIYA A, B, C | 1 | 1 | 1 | 1 | 1 | 1 | 1 | 1 |
| SJM93 | 1 | 1 | hp Europe | Modern | Western | 6 | In | 1 | EPIYA A, B, C | 1 | 1 | 0 | 1 | 1 | 1 | 1 | 0 |
| SJM10 | 1 | 1 | hsp Amerind | Amerind | Western | 6 | In | 1 | EPIYA A, B, C | 1 | 1 | 0 | 1 | 1 | 1 | 1 | 1 |
| SJM12 | 1 | 1 | hsp Amerind | Amerind | Eastern | 4 | In | 1 | EPIYA A, B, C | 1 | 1 | 0 | 1 | 1 | 1 | 1 | 1 |
| SJM148 | 1 | 1 | hp Europe | Modern | Western | 6 | In | 1 | EPIYA A, B, C | 1 | 1 | 1 | 1 | 1 | 1 | 1 | 1 |
| SJM14 | 1 | 1 | hp Europe | Modern | Western | 7 | Out | 1 | EPIYA A, B, C | 1 | 1 | 0 | 1 | 1 | 1 | 1 | 1 |
| SJM179 | 1 | 1 | hp Europe | Modern | Western | 6 | In | 1 | EPIYA A, B, C | 1 | 1 | 1 | 1 | 1 | 1 | 1 | 1 |
| SJM180 | 1 | 1 | hp Europe | Modern | Western | 6 | In | 1 | EPIYA A, B, C | 1 | 1 | 0 | 1 | 1 | 1 | 1 | 1 |
| SJM189 | 1 | 1 | hp Europe | Modern | Western | 6 | In | 1 | EPIYA A, B, C | 1 | 0 | 1 | 1 | 1 | 1 | 1 | 1 |
| SJM18 | 1 | 1 | hp Europe | Modern | Eastern | 4 | In | 1 | EPIYA A, B, C | 1 | 1 | 0 | 1 | 1 | 1 | 1 | 1 |
| SJM19 | 1 | 1 | hp Europe | Modern | Eastern | 4 | Out | 1 | EPIYA A, B, C, C | 1 | 0 | 1 | 1 | 1 | 1 | 1 | 1 |
| SJM1 | 0 | 1 | hp Europe | Modern | Western | 6 | In | 1 | EPIYA A, B, C | 0 | 0 | 0 | 1 | 1 | 1 | 1 | 1 |
| SJM20 | 1 | 1 | hp Europe | Modern | Western | 6 | In | 1 | EPIYA A, B, C | 1 | 1 | 1 | 1 | 1 | 1 | 1 | 1 |
| SJM21 | 1 | 1 | hp Europe | Modern | Western | 6 | In | 1 | EPIYA A, B, C | 1 | 1 | 0 | 1 | 1 | 1 | 1 | 1 |
| SJM23 | 1 | 1 | hsp Amerind | Amerind | Western | 6 | In | 1 | EPIYA A, B, C | 1 | 1 | 0 | 1 | 1 | 1 | 1 | 1 |
| SJM37 | 1 | 1 | hp Europe | Modern | Western | 6 | In | 1 | EPIYA A, B, C | 1 | 1 | 1 | 1 | 1 | 0 | 1 | 1 |
| SJM38 | 1 | 1 | hp Europe | Modern | Western | 6 | In | 1 | EPIYA A, B, C | 1 | 0 | 1 | 1 | 1 | 0 | 1 | 1 |
| SJM41 | 1 | 1 | hp Europe/WAfrica | Modern | Eastern | 2 | Out | 1 | EPIYA A, B, C | 1 | 1 | 1 | 1 | 1 | 1 | 1 | 1 |
| SJM45 | 1 | 1 | hp Europe | Modern | Western | 8 | In | 1 | EPIYA A, B, C, C | 1 | 1 | 1 | 1 | 1 | 1 | 1 | 1 |
| SJM50 | 1 | 1 | hp Europe | Modern | Eastern | 5 | Out | 1 | EPIYA A, B, C, C | 1 | 1 | 1 | 1 | 0 | 1 | 1 | 1 |
| SJM53 | 0 | 1 | hp Europe | Modern | Western | 6 | In | 1 | EPIYA A, B, C | 0 | 0 | 1 | 1 | 1 | 1 | 1 | 1 |
| SJM63 | 1 | 1 | hp Europe | Modern | Western | 6 | Out | 1 | EPIYA A, B, C | 1 | 1 | 0 | 1 | 1 | 1 | 1 | 1 |
| SJM69 | 1 | 1 | hp Europe | Modern | Western | 6 | In | 1 | EPIYA A, B, C | 1 | 1 | 0 | 1 | 1 | 1 | 1 | 1 |
| B) Other Strains | |||||||||||||||||
| Spain (HUPB76) | 1 | 1 | hp Europe | Modern | Western | 9 | In | 1 | EPIYA A, B, C, C | 1 | 0 | 1 | 1 | 1 | 0 | 1 | 1 |
| Japan (HU178) | 1 | 1 | hp East Asia | East Asia | Eastern | 4 | In | 1 | EPIYA A, B, D | 1 | 1 | 1 | 1 | 1 | 1 | 1 | 1 |
| Africa (10) | 1 | 1 | hp S Africa | Modern | Western | 6 | In | 1 | EPIYA A, B, C | 0 | 1 | 1 | 1 | 1 | 1 | 1 | 1 |
| India (MS8) | 1 | 1 | hp Europe | Modern | Western | 6 | In | 1 | EPIYA A, B, C | 1 | 1 | 1 | 1 | 1 | 1 | 0 | 0 |