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Volume 75, Issue 5

Heterogeneity of Hepatitis C Virus Genotypes in France Free

Abstract

The genotypes of French hepatitis C virus (HCV) isolates were investigated by amplification of a domain from the non-structural region 3 (NS3) using nested PCR, followed by hybridization with two genotype- specific probes, FI (HCV type I-specific) and F2 (HCV type II-specific). Among 119 HCV RNA-positive sera, 91 % of samples were NS3 PCR positive. Most samples (83·2 %) hybridized with one or the other probe only, whereas a few samples (4·2 %) hybridized with both F1 and F2 probes (HB). A small percentage (3·4%) of samples appeared unable to hybridize with either probe (HN). For some of these samples (HB1, HB2, HN1, HN2, HN3, HN4), part of the NS3, core and envelope regions were sequenced and the corresponding deduced consensus sequences were compared with those of prototype isolates of the four HCV genotypes (types I to IV). A phylogenetic tree was constructed to illustrate the relationship between these isolates. The results obtained showed that (i) HN4 appears to be more closely related to type III than to type IV HCV genotypes, which suggests that in France there may exist additional although minor genotypes besides the two major types, FI and F2. (ii) HB1, HB2, HN1, HN2 and probably HN3 belong to the type II HCV genotype. The association between sequence diversity and putative biological difference for isolates within the same genotype remains to be elucidated.

  • Received:
  • Accepted:
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© The Journal of General Virology 1994
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1994-05-01
2024-04-19
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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. U.S.A: Proceedings of the National Academy of Sciences 908238–8242
     [Google Scholar]
  2. 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 U.S.A: 897144–7148
     [Google Scholar]
  3. Chan S. -W., Simmonds P., Mcomish F., Yap P. -L., Mitchell R., Dow B., Follett E. 1991; Serological responses to infection with three different types of hepatitis C virus. Lancet 338:1391
     [Google Scholar]
  4. Chan S. -W., Mcomish F., Holmes E. C., Dow B., Peutherer J. F., Follett E., Yap P. L., Simmonds P. 1992; Analysis of a new hepatitis C virus type and its phylogenetic relationship to existing variants. Journal of General Virology 73:1131–1141
     [Google Scholar]
  5. Choo Q. -L., Kuo G., Weiner A. J., Overby L.R, Houghton M. 1989; Isolation of a cDNA derived from a blood- borne non-A, non-B viral hepatitis genome. Science 244:359–362
     [Google Scholar]
  6. Choo Q. -L., Richman K. H., Han J. H., Berger K., Lee C., Dong C., Gallegos C., Coit D., Medina-Selby R., Barr P. J., Weiner A. J., Bradley D. W., Kuo G., Houghton M. 1991; Genetic organization and diversity of the hepatitis C virus. Proceedings of the National Academy of Sciences U.S.A: 882451–2455
     [Google Scholar]
  7. Dessen P., Valencia C. F., Mug C. 1990; BISANCE: a French service for access to biomolecular sequence databases. Computer Applications in the Biosciences 6:335–355
     [Google Scholar]
  8. 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]
  9. Felsenstein J. 1988; Phylogenies from molecular sequences: inference and reliability. Annual Review of Genetics 22:521–565
     [Google Scholar]
  10. Higgins D. G., Sharp P. M. 1988; Clustal: a package for performing multiple sequence alignments on a microcomputer. Gene 73:237–244
     [Google Scholar]
  11. Inchauspe G., Abe K., Zebedee S., Nasoff M., Prince A. M. 1991; Use of conserved sequences from hepatitis C virus for the detection of viral RNA in infected sera by polymerase chain reaction. Hepatology 14:595–600
     [Google Scholar]
  12. Kanai K., Kako M., Okamoto H. 1992; HCV genotypes in chronic hepatitis C and response to interferon. Lancet 339:1543
     [Google Scholar]
  13. Kato N., Hijikata M., Ootsuyama Y., Nakagawa M., Ohkoshi S., Sugimura T., Shimotohno K. 1990; Molecular cloning of the human hepatitis C virus genome from Japanese patients with non-A, non-B hepatitis. Proceedings of the National Academy of Sciences U.S.A: 879524–9528
     [Google Scholar]
  14. Li J. -S., Tong S. -P., Vitvitski L., Lepot D., Trépo C. 1991; Two French genotypes of hepatitis C virus: homology of the predominant genotype with the prototype American strain. Gene 105:167–172
     [Google Scholar]
  15. Li J. -S., Vitvitski L., Tong S. -P., Trjepo C. 1992; PCR detection of HCV RNA among French non-A, non-B hepatitis patients. Archives of Virology Supplementum 4:234–237
     [Google Scholar]
  16. Li W. -H., Wu C. -I., Luo C. -C. 1985; A new method for estimating synonymous and nonsynonymous rates of nucleotide substitution considering the relative likelihood of nucleotide and codon changes. Molecular Biology and Evolution 2:150–174
     [Google Scholar]
  17. Miller R. H., Purcell R. H. 1990; Hepatitis C virus shares amino acid sequence similarity with pestiviruses and flaviviruses as well as members of two plant virus supergroups. Proceedings of the National Academy of Sciences, U.S.A: 872057–2061
     [Google Scholar]
  18. 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]
  19. Nakao T., Enomoto N., Takada N., Takada A., Date T. 1991; Typing of hepatitis C virus genomes by restriction fragment length polymorphism. Journal of General Virology 72:2105–2112
     [Google Scholar]
  20. Okamoto H., Okada S., Sugiyama Y., Kurai K., Iizuka H., Machida A., Miyakawa Y., Mayumi M. 1991; Nucleotide sequence of the genomic RNA of hepatitis C virus isolated from a human carrier: comparison with reported isolates for conserved and divergent regions. Journal of General Virology 72:2697–2704
     [Google Scholar]
  21. Okamoto H., Kurai K., Okada S. I., Yamamoto K., Iizuka H., Tanaka T., Fukuda S., Tsuda F., Mishiro S. 1992a; Full length sequence of a hepatitis C virus genome having poor homology to reported isolates: comparative study of four distinct genotypes. Virology 188:331–341
     [Google Scholar]
  22. Okamoto H., Sugiyama Y., Okada S. I., Kurai K., Akahane Y., Sugai Y., Tanaka T., Sato K., Tsuda F., Miyakawa Y., Mayumi M. 1992b; Typing hepatitis C virus hy polymerase chain reaction with type-specific primers: application to clinical surveys and tracing infectious sources. Journal of General Virology 73:673–679
     [Google Scholar]
  23. Pozzato G., Moretti M., Franzin F., Croce L. S., Tiribelli C., Masayu T., Kaneko S., Unoura M., Kobayashi K. 1991; Severity of liver disease with different hepatitis C viral clones. Lancet 338:509
     [Google Scholar]
  24. Saitou N., Nei M. 1987; The neighbor-joining method: a new method for reconstructing phylogenetic trees. Molecular Biology and Evolution 4:406–425
     [Google Scholar]
  25. Stuyver L., Rossau R., Wyseur A., Duhamel M., Vanderborght B., Vanheuverswyn 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]
  26. Takada N., Takase S., Takoda A., Date T. 1992; HCV genotypes in different countries. Lancet 339:808
     [Google Scholar]
  27. Takamizawa A., Mori C., Fuke I., Manabe S., Murakami S., Fujita J., Onishi E., Andoh T., Yoshida I., Okayama H. 1991; Structure and organization of the hepatitis C virus genome isolated from human carriers. Journal of Virology 65:1105–1113
     [Google Scholar]
  28. Yoshioka K., Kakumu S., Wakita T., Ishikawa T., Itoh Y., Takayangai M., Higashi Y., Shibata M., Morishima T. 1991; Detection of hepatitis C virus by polymerase chain reaction and response to interferon-α therapy: relationship to genotypes of hepatitis C virus. Hepatology 16:293–299
     [Google Scholar]
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Heterogeneity of Hepatitis C Virus Genotypes in France
J. Gen. Virol. 75, 1063 (1994); https://doi.org/10.1099/0022-1317-75-5-1063
/content/journal/jgv/10.1099/0022-1317-75-5-1063
/content/journal/jgv/10.1099/0022-1317-75-5-1063
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