Genetic tree based on an informative 620 bp segment of vacA gene containing vacAm2 alleles of H. pylori strains determined in this study (strains 1-5) or reported by others. The test strains determined in this study are marked in black bold face. Sequences other than those for the test strains are from public database, as indicated. The tree was generated using DDBJ programme. Each number in this figure indicates the vacAm2 sequence from a given strain, as follows (GenBank accession numbers in parentheses). The strains used are as follows 1.7 [GU441846] 2.16 [GU441848] 3.25 [GU441849] 4.202 [GU441844] 5.220 [GU441850] 6. JapanOK160 [AB190979] 7. JapanOK204 [AB190986] 8. JapanOK205 [AB190987)] 9. JapanOK210 [AB190988] 10. JapanOK129 [AB190972] 11. JapanOK181 [AB190982] 12. GermanyMz28a [AJ006969] 13. GermanyMz26a [AJ006968] 14. India90 [AF220119].

Genetic tree based on informative 620 bp segment of vacA gene containing vacAm1 alleles of H. pylori strains determined in this study (strains 1-4) or reported by others. The test strains determined in this study are marked in black bold face. Sequences other than those for the test strains are from public database, as indicated. The tree was generated using DDBJ program. Each number in this figure indicates the vacAm1 sequence from a given strain, as follows (GenBank accession numbers in parentheses). The strains used are as follows 1. 43 [GU212668], 2. 46 [GU212667], 3. 21 [GU441847] 4. 42675 [GU212669] 5. JapanF35 [AF049625]; 6. JapanF36 [AF049462]; 7. JapanF42 [AF049626]; 8. JapanF47 [AF049629]; 9. JapanF52 [AF049631]; 10. JapanF55 [AF049632]; 11. JapanF57 [AF049634]; 12. JapanF61 [AF049645] 13. JapanF63 [AF049635]; 14. JapanF64 [AF049647]; 15. India19 [AF220111]; 16. India48 [AF220112]; 17. India66 [AF220113]; 18. India89 [AF220114]; 19. India226 [AF220115]; 20. India227 [AF220116]; 21. India230 [AF220117]; 22. Mz19Germany [AJ006967]; 23. ChinaR13A [AF035610]; 24. ChinaR59A [AF035611]; 25. JapanF72 [AF049651]; 26. JapanF73 [AF049652]; 27. JapanF94 [AF049640]; 28. India18 [AF220110]; 29. NCTC11637 (Australia) [AF049653]; 30. NCTC11638 (Australia) [U07145]; 31. J99 (USA) [NC_000921]; 32. Poland 278 [AF097571].

Genetic tree based on an informative 209 bp segment at the 5' end of cagA of H. pylori strains determined in this study (test strains 1-8 and 10) or reported by others. The test strains determined in this study are marked in black bold face. Sequences other than those for the test strains are from public database, as indicated. The tree was generated using DDBJ programme. Each number in this figure indicates the cagA gene sequence from a given strain, as follows (GenBank accession numbers in parentheses). The strains used are as follows. 1. 7 [GU212660], 2. 16 [GU212663], 3. 21 [GU212661], 4. 46 [GU212658], 5. 202 [GU212659], 6. 220 [GU212664], 7. 43 [GU212666], 8. 25 [GU212665], 9. 26695 (Britain) [NC_000915], 10. 42675 [GU212662], 11. ChinaR27 [AJ252979]; 12 ChinaR40 [AJ252982]; 13. ChinaR47 [AJ252985]; 14. Dutch79 [AJ252970]; 15. Dutch107 [AJ252963]; 16. Dutch161A [AJ252965]; 17. Dutch292 [AJ252971]; 18. Dutch419 [AJ252974]; 19. Gambia4659 [AF198468]; 20. Gambia 4797[AF198469]; 21. Hongkong77 [AF198485]; 22. Hongkong81 [AF198486]; 23. Hongkong97_42 [AJ239733];, 24. India3 [AF202219]; 25. India10 [AF202222]; 26. India18 [AF202224]; 27. India19[AF202225]; 28. Lithuania5_1 [AJ239734]; 29. Peru2B [AF198474]; 30. Peru4A [AF198477]; 31. Peru8C [AF198478]; 32. Peru24C [AF198473]; 33. Peru35B [AF198476]; 34. Thailand88-28 [AJ239722]; 35. JapanGC4 [AF198484]; 36. JapanF32 [AJ239726].