Abstract
Hepatitis C virus (HCV) is classified into at least 7 genotypes, HCV-I through -VI and African-type HCV, on the basis of sequence variation of the viral genome. Core and envelope regions of the HCV genome were amplified from sera of Indonesian patients using reverse transcription-polymerase chain reaction (RT- PCR). Sequence analysis of the amplified fragments identified a novel sequence variant (Td-6) that was distinct from all of the reported genotypes. RT-PCR for the NS5 region using genotype-specific primers for HCV-V and -VI further supported the above observation. Also found was another variant (Td-17) that was closely related to, but distinct from HCV-III and -IV on the basis of core region sequence. It thus appears that at least two novel sequence variants exist in HCV in Indonesia, although their prevalence rates may be relatively low. The present results also revealed HCV-II to be the most prevalent HCV genotype in Indonesia.
This is a preview of subscription content, log in via an institution to check access.
Access this chapter
Tax calculation will be finalised at checkout
Purchases are for personal use only
Preview
Unable to display preview. Download preview PDF.
Similar content being viewed by others
References
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
Choo Q-L, Kuo G, Weiner AJ, Overby LR, Bradley DW, Houghton M (1989) Isolation of a cDNA clone derived from a blood-borne non-A, non-B viral hepatitis genome. Science 244: 359–362
Choo Q-L, Richman KH, Han JH, Berger K, Lee C, Dong C, Gallegos C, Coit D, Medina-Selby A, Barr PJ, Weiner AJ, Bradley DW, Kuo G, Houghton M (1991) Genetic organization and diversity of the hepatitis C virus. Proc Natl Acad Sci USA 88: 2451–2455
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. Proc Natl Acad Sci USA 87: 9524–9528
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. J Virol 65: 1105–1113
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. J Gen Virol 72: 2697–2704
Okamoto H, Kurai K, Okada S, Yamamoto K, Iizuka H, Tanaka T, Fukuda S, Tsuda F, Mishiro S (1992) 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
Chen P-J, Lin M-H, Tai K-F, Liu P-C, Lin C-J, Chen D-S (1992) The Taiwanese hepatitis C virus genome: Sequence determination and mapping the 5′ termini of viral genomic and antigenomic RNA. Virology 188: 102–113
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. Biochem Biophys Res Commun 183: 334–342
Chan S-W, McOmish F, Holmes EC, Dow B, Peutherer JF, Follett E, Yap PL, Simmonds P (1992) Analysis of a new hepatitis C virus type and its phylogenetic relationship to existing variants. J Gen Virol 73: 1131–1141
Cha T-A, Beall E, Irvine B, Kolberg J, Chien D, Kuo G, Urdea MS (1992) At least five related, but distinct, hepatitis C viral genotypes exist. Proc Natl Acad Sci USA 89: 7144–7148
Simmonds P, McOmish F, Yap PL, Chan S-W, Lin CK, Dusheiko G, Saeed AA, Holmes EC (1993) Sequence variability in the 5′ non-coding region of hepatitis C virus: Identification of a new virus type and restrictions on sequence diversity. J Gen Virol 74: 661–668
Okamoto H, Sugiyama Y, Okada S, Kurai K, Akahane Y, Sugai Y, Tanaka T, Sato K, Tsuda F, Miyakawa Y, Mayumi M (1992) Typing hepatitis C virus by polymerase chain reaction with type-specific primers: Application to clinical surveys and tracing infectious sources. J Gen Virol 73: 673–679
Kimura M (1983) Rate of evolution at the molecular level. Comparative studies of protein sequences. The neutral theory of molecular evolution. Cambridge University Press, Cambridge, pp 65–76
Ogata N, Alter HJ, Miller RH, Purcell RH (1991) Nucleotide sequence and mutation rate of the H strain of hepatitis C virus. Proc Natl Acad Sci USA 88: 3392–3396
Author information
Authors and Affiliations
Editor information
Editors and Affiliations
Rights and permissions
Copyright information
© 1994 Springer-Verlag Tokyo
About this paper
Cite this paper
Hotta, H. et al. (1994). Sequence Analysis of Hepatitis C Virus Obtained from Indonesian Patients and Identification of Novel Sequence Variants. In: Nishioka, K., Suzuki, H., Mishiro, S., Oda, T. (eds) Viral Hepatitis and Liver Disease. Springer, Tokyo. https://doi.org/10.1007/978-4-431-68255-4_76
Download citation
DOI: https://doi.org/10.1007/978-4-431-68255-4_76
Publisher Name: Springer, Tokyo
Print ISBN: 978-4-431-68257-8
Online ISBN: 978-4-431-68255-4
eBook Packages: Springer Book Archive