1887

Abstract

Hepatitis C virus (HCV) isolates from 126 hepatitis patients in Jakarta, Indonesia were genotyped by PCR with genotype-specific primers deduced from the HCV core gene. Fifty-five isolates (44%) were classified as genotype II/1b, 15 (12%) as 1c, 33 (26%) as III/2a, and 1 (1%) as V/3a, while the remaining 22 (17%) were not classifiable into any of the five common genotypes (I/1a, II/1b, III/2a, IV/2b and V/3a) or 1c. Sequences of a part of the NS5b region [1093 bp (nucleotides 8279–9371)] of the 22 isolates of unclassifiable genotype were subjected to pair-wise comparison and phylogenetic analysis along with those of 62 isolates of 25 genotypes in nine genetic groups. Seven of the isolates were classified into 2e and two into 2f, representing novel genotypes in genetic group 2, while ten and three were classified into two new genetic groups, 10 and 11, respectively, and their genotypes were provisionally designated 10a and 11a. The isolates of genotype 10a (JK049) and 11a (JK046) were sequenced in full. Comparison of 24 HCV genomes including those of JK049 and JK046, over the entire genome and subgenomic regions, supported the classification of HCV into 11 genetic groups.

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1996-02-01
2024-12-13
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References

  1. Bukh J., Purcell R. H., Miller R. H. 1993; At least 12 genotypes of hepatitis C virus predicted by sequence analysis of the putative E1 gene of isolates collected worldwide. Proceedings of the National Academy of Sciences, USA 90:8234–8238
    [Google Scholar]
  2. Bukh J., Purcell R. H., Miller R. H. 1994; Sequence analysis of the core gene of 14 hepatitis C virus genotypes. Proceedings of the National Academy of Sciences, USA 91:8239–8243
    [Google Scholar]
  3. Bukh J., Miller R. H., Purcell R. H. 1995; Genetic heterogeneity of hepatitis C virus: quasispecies and genotypes. Seminars in Liver Disease 15:41–63
    [Google Scholar]
  4. Cha T. A., Beall E., Irvine B., Kolberg J., Chien D., Kuo G., Urdea M. S. 1992; At least five related, but distinct, hepatitis C viral genotypes exist. Proceedings of the National Academy of Sciences, USA 89:7144–7148
    [Google Scholar]
  5. Enomoto N., Takada A., Nakao T., Date T. 1990; There are two major types of hepatitis C virus in Japan. Biochemical and Biophysical Research Communications 170:1021–1025
    [Google Scholar]
  6. Grakoui A., McCourt D. W., Wychowski C., Feinstone S. M., Rice C. M. 1993; Characterization of the hepatitis C virus- encoded serine proteinase: determination of proteinase-dependent polyprotein cleavage sites. Journal of Virology 67:2832–2843
    [Google Scholar]
  7. Hijikata M., Kato N., Ootsuyama Y., Nakagawa M., Ohkoshi S., Shimotohno K. 1991; Hypervariable regions in the putative glycoprotein of hepatitis C virus. Biochemical and Biophysical Research Communications 175:220–228
    [Google Scholar]
  8. Hino K., Sainokami S., Shimoda K., Iino S., Wang Y., Okamoto H., Miyakawa Y., Mayumi M. 1994; Genotypes and titers of hepatitis C virus for predicting response to interferon in patients with chronic hepatitis C. Journal of Medical Virology 42:299–305
    [Google Scholar]
  9. Houghton M., Weiner A., Han J., Kuo G., Choo Q.-L. 1991; Molecular biology of the hepatitis C viruses: implications for diagnosis, development and control of viral disease. Hepatology 14:381–388
    [Google Scholar]
  10. Mahaney K., Tedeschi V., Maertens G., Di Bisceglie A. M., Vergalla J., Hoofnagle J. H., Sallie R. 1994; Genotypic analysis of hepatitis C virus in American patients. Hepatology 20:1405–1411
    [Google Scholar]
  11. Miyakawa Y., Okamoto H., Mayumi M. 1995; Classifying hepatitis C virus genotypes. Molecular Medicine Today 1:20–25
    [Google Scholar]
  12. Mori S., Kato N., Yagyu A., Tanaka T., Ikeda Y., Petchclai B., Chiewsilp P., Kurimura T., Shimotohno K. 1992; A new type of hepatitis C virus in patients in Thailand. Biochemical and Biophysical Research Communications 183:334–342
    [Google Scholar]
  13. Nei M. 1987; Phylogenetic trees. In Molecular Evolutionary Genetics pp 287–326 Edited by Nei M. New York: Columbia University Press;
    [Google Scholar]
  14. Nousbaum J. B., Pol S., Nalpas B., Landais P., Berthelot P., Brechot C.& The Collaborative Study Group 1995; Hepatitis C virus type lb (II) infection in France and Italy. Annals of Internal Medicine 122:161–168
    [Google Scholar]
  15. Okamoto H., Kojima M., Okada S., Yoshizawa H., Iizuka H., Tanaka T., Muchmore E. E., Peterson D. A., Ito Y., Mishiro S. 1992a; Genetic drift of hepatitis C virus during an 8-2-year infection in a chimpanzee: variability and stability. Virology 190:894–899
    [Google Scholar]
  16. Okamoto H., Sugiyama Y., Okada S., Kurai K., Akahane Y., Sugai Y., Tanaka T., Sato K., Tsuda F., Miyakawa Y., Mayumi M. 1992b; Typing hepatitis C virus by polymerase chain reaction with type-specific primers: application to clinical surveys and tracing infectious sources. Journal of General Virology 73:673–679
    [Google Scholar]
  17. Okamoto H., Tokita H., Sakamoto M., Horikita M., Kojima M., Iizuka H., Mishiro S. 1993; Characterization of the genomic sequence of type V (or 3a) hepatitis C virus isolates and PCR primers for specific detection. Journal of General Virology 74:2385–2390
    [Google Scholar]
  18. Okamoto H., Kojima M., Sakamoto M., Iizuka H., Hadiwandowo S., Suwignyo S., Miyakawa Y., Mayumi M. 1994; The entire nucleotide sequence and classification of a hepatitis C virus isolate of a novel genotype from an Indonesian patient with chronic liver disease. Journal of General Virology 75:629–635
    [Google Scholar]
  19. Qu D., Li J. S., Vitvitski L., Mechai S., Berby F., Tong S. P., Bailly F., Wang Q. S., Martin J. L., Trepo C. 1994; Hepatitis C virus genotypes in France: comparison of clinical features of patients with HCV type I and type II. Journal of Hepatology 21:70–75
    [Google Scholar]
  20. Sakamoto M., Akahane Y., Tsuda F., Tanaka T., Woodfield D. G., Okamoto H. 1994; Entire nucleotide sequence and characterization of a hepatitis C virus of genotype V/3a. Journal of General Virology 75:1761–1768
    [Google Scholar]
  21. Simmonds P., Holmes E. C., Cha T. A., Chan S. W., McOmish F., Irvine B., Beall E., Yap P. L., Kolberg J., Urdea M. S. 1993; Classification of hepatitis C virus into six major genotypes and a series of subtypes by phylogenetic analysis of the NS-5 region. Journal of General Virology 74:2391–2399
    [Google Scholar]
  22. Simmonds P. 1995; Variability of hepatitis C virus. Hepatology 21:570–583
    [Google Scholar]
  23. Stuyver L., Rossau R., Wyseur A., Duhamel M., Vanderborght B., van Heuverswyn H., Maertens G. 1993; Typing of hepatitis C virus isolates and characterization of new subtypes using a line probe assay. Journal of General Virology 74:1093–1102
    [Google Scholar]
  24. Stuyver L., van Arnhem W., Wyseur A., Hernandez F., Delaporte E., Maertens G. 1994; Classification of hepatitis C viruses based on phylogenetic analysis of the envelope 1 and nonstructural 5B regions and identification of five additional subtypes. Proceedings of the National Academy of Sciences, USA 91:10134–10138
    [Google Scholar]
  25. Tokita H., Shrestha S. M., Okamoto H., Sakamoto M., Horikita M., Iizuka H., Shrestha S., Miyakawa Y., Mayumi M. 1994a; Hepatitis C virus variants from Nepal with novel genotypes and their classification into the third major group. Journal of General Virology 75:931–936
    [Google Scholar]
  26. Tokita H., Okamoto H., Tsuda F., Song P., Nakata S., Chosa T., Iizuka H., Mishiro S., Miyakawa Y., Mayumi M. 1994b; Hepatitis C virus variants from Vietnam are classifiable into the seventh, eighth, and ninth major genetic groups. Proceedings of the National Academy of Sciences, USA 91:11022–11026
    [Google Scholar]
  27. Tokita H., Okamoto H., Luengrojanakul P., Vareesagnthip K., Chainuvati T., Iizuka H., Tsuda F., Okamoto H., Miyakawa Y., Mayumi M. 1995; Hepatitis C virus variants from Thailand classifiable into five novel genotypes in the sixth (6b), seventh (7c, 7d) and ninth (9b, 9c) major genetic groups. Journal of General Virology 76:2329–2335
    [Google Scholar]
  28. Yoshioka K., Kakumu S., Wakita T., Ishikawa T., Itoh Y., Takayanagi M., Higashi Y., Shibata M., Morishima T. 1992; Detection of hepatitis C virus by polymerase chain reaction and response to interferon-alpha therapy: relationship to genotypes of hepatitis C virus. Hepatology 16:293–299
    [Google Scholar]
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