Table 3.
Codon usage analysis of the cagA genes
| Gene | H. pylori Strain | CAI |
|---|---|---|
| UK | 26695 | 0.699 |
| Africa (USA) | J99 | 0.697 |
| Sweden | HPAG1 | 0.695 |
| Peru1 | Shi470 | 0.712 |
| Peru2 | Shi470 | 0.698 |
| Italy | G27 | 0.693 |
| Germany | P12 | 0.690 |
| Venezuela | V225 | 0.702 |
| Vietnam | VietnamHP-No36 | 0.695 |
| Central China | MEL-HP27 | 0.700 |
| Japan | F28 | 0.700 |
| India | 3K | 0.691 |
| Austria | 15818 | 0.686 |
| Hong Kong | 42G | 0.701 |
The codon adaptation index (CAI) was calculated as follows. A codon usage table for the complete H.pylori genome of strain HPAG-1, which comprised 1544 ORFs, was obtained from the Codon Usage Database http://www.kazusa.or.jp/codon. This was used to calculate the CAI for each individual ORF.