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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. |
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| Strains |
Diagnostic PCR |
Phylogenetic placement |
oipA status |
cagA genotype |
cag-PAI spanning PCR |
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|
|
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| cagA |
GlmM |
FAFLP/MLST |
babB |
oipA |
No. of CT |
Frame |
gene |
EPIYA motif |
cagAP1 |
cagAP2 |
cagA1 |
cagA2 |
cagE |
cagT |
LEC1 |
LEC2 |
|
|
|
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| A) Native Peruvian Strains |
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|
|
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| 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 |
|
|
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| B) Other Strains |
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|
|
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| 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 |
Devi et al. BMC Genomics 2006 7:191 doi:10.1186/1471-2164-7-191 |
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