Sequence variability of the 5′ UTR in isolates of hepatitis C virus in China

Hepatobiliary and Pancreatic Diseases International

Volumn 1, Issue 4, 2002, Pages 541-552

  Chen, Yuan Ding ^a   Liu, Ming Ying ^a   Yu, Wen Lin ^b   Li, Jia Qi ^a   Peng, Mei ^a   Dai, Qing ^a   Wu, Jun ^a   Liu, Xiao ^a   Zhou, Zhen Quan ^b  

^a INSTITUTE OF MEDICAL BIOLOGY   (China)

^b Kunming Hospital for Infectious Dis   (China)

Author keywords

5 UTR sequence variability; China; Genotypes; Hepatitis C; Hepatitis C virus

Indexed keywords

5' UNTRANSLATED REGION; ADOLESCENT; ADULT; AGED; ARTICLE; CHINA; CLADISTICS; CLINICAL ARTICLE; CONTROLLED STUDY; FEMALE; GENOTYPE; HEPATITIS C; HEPATITIS C VIRUS; HUMAN; MALE; NONHUMAN; NUCLEOTIDE SEQUENCE; PHYLOGENY; SCHOOL CHILD; SEQUENCE ANALYSIS; VIRUS CLASSIFICATION; VIRUS ISOLATION;

5' UNTRANSLATED REGIONS; ADOLESCENT; ADULT; AGED; BASE SEQUENCE; CHILD; CHINA; CLONING, MOLECULAR; DNA TRANSPOSABLE ELEMENTS; FEMALE; GENE DELETION; GENOTYPE; HEPACIVIRUS; HEPATITIS C, CHRONIC; HUMANS; INCIDENCE; MALE; MIDDLE AGED; MOLECULAR SEQUENCE DATA; VARIATION (GENETICS);

EID: 0038375939     PISSN: 14993872     EISSN: None     Source Type: Journal    
DOI: None     Document Type: Article

References (53)

1. Houghton M, Weiner A, Han J, et al. Molecular biology of the hepatitis C virus: implications for diagnosis, development and control of viral disease. Hepatology 1991;14:381-388.
2. Collett MS, Anderson DK, Retzel E. Comparisons of the pestivirus, bovine viral diarrhoea virus with members of the Flaviviridae. J Gen Virol 1988;69:2637-2643.
3. Wengler G, Brandley DW, Collen MS, et al. Flavivirusidae. In: Murphy FA, Fauquet CM, Bishop DHL, Ghabrial SA, Jarvis AW, Martelli GP, Mayo MA, Summera MD (eds). Virus Taxonomy, Classification and Nomenclature of Viruses. Sixth Report of the International Committee on Taxonomy of Viruses. Springer, Wien New York. 1995, 415-427 ( Arch Virol [Suppl] 10).
4. Takamizawa A, Mori C, Fuke I, et al. Structure and organization of the hepatitis C virus genome isolated from human carriers. J Virol 1991;65:1105-1113.
5. Choo QL, Kuo G, Weiner AJ, et al. Isolation of a cDNA derived from a blood-borne non-A, non-B hepatitis genome. Science 1989;244:359-362.
6. Kleter GEM, van Doorn LJ, Brouwer JT, et al. Sequence analysis of the 5′ untranslated region in isolates of at least four genotypes of hepatitis C virus in the Netherlands. J Clin Microbiol 1994;32:306-310.
7. Simmonds P, McOmish F, Yap PL, et al. 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 1993;74:661-668.
8. Simmonds P, Mellor J, Sakuldamrongpanich T, et al. Revolutionary analysis of variants of hepatitis C virus found in South-East Asia: comparison with classifications based upon sequence similarity. J Gen Virol 1996;77:3013-3024.
9. Ohba KI, Mizokami M, Ohno T, et al. Classification of hepatitis C virus into major types and subtypes based on molecular analysis. Virus Res 1995;36:201-214.
10. Tisminetzky SG, Gerotto M, Pontisso P, et al. Genotypes of hepatitis C virus in Italian patients with chronic hepatitis C. Int Hepatol Commun 1994;2:105-112.
11. Ausubel FM, Bret R, Kingston RE, et al. Short protocols in molecular biology. Third ed. John Wiley & Sons Inc. 1995.
12. Choo QL, Richman KH, Han JH, et al. Genetic organization of the hepatitis C virus. Proc Nat Acad Sci USA 1991;88:2451-2455.
13. Sambrook L, Fritsch EF, Maniatis TM ( eds). Molecular Cloning. A Laboratory Manual, 2nd ed. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, New York, 1989.
14. Felsenstein J. PHYLIP (Phylogeny Inference Package) version 3. 5c. Distributed by the author. Department of Genetics, University of Washington, Seattle, USA, 1993.
15. Stuyver L, Wyseur A, van Arnhem W, et al. Hepatitis C virus genotyping by means of 5′ -UR/core line probe assays and molecular analysis of untypeable samples. Virus Res 1995;38:137-157.
16. Niu J, Kumar U, Pan Y, et al. Hepatitis C virus type I (1a) in northern China. J Med Virology 1995; 46:56-60.
17. Kato N, Hijikata M, Ootsuyama Y, et al. Molecular cloning of the human hepatitis C virus genome from Japanese patients with non-A, non-B hepatitis. Proc Nat Acad Sci USA 1990;87:9524-9528.
18. Wang Y, Okamoto H, Tsuda F, et al. Prevalence, genotypes and an isolate (HC-C2) of hepatitis C virus in Chinese patients with liver disease. J Med Virol 1993;40:254-260.
19. Wang C, Wang W, Lu H, et al. The single strand conformation polymorphism analysis and sequencing of the PCR products of HCV 5′ untranslated region. J Fourth Milit Med Univ 1997;18:250-253.
20. Ren X, Ou W, Li Q, et al. Detection of nucleotide variations of K-ras and HCV 5′ NTR genes by PCR-based cycle DNA sequencing. Acad J SUMS 1998; 19:153-157.
21. Bi S, Bai X, Cong M, et al. Primary structure and variation of Chinese hepatitis C virus Genome. Chin J Virol 1993;9:114-127.
22. Chen PJ, Lin MH, Tai KF, et al. The Taiwannese hepatitis C virus genome: sequence determination and mapping the 5′ termini of viral genomic and antigenomic RNA. Virology 1992;188:102-113.
23. Yeh CT, Lu SC, Chu CM, et al. Molecular cloning of a defective hepatitis C virus genome from the ascitic fluid of a patient with hepatocellular carcinoma. J Gen Virol 1997;78:2761-2770.
24. Okamoto H, Okada S, Sugiyami Y, et al. 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 1991;72:2697-2704.
25. Okamoto H, Kurai K, Okada SI, et al. Full length sequence of a hepatitis C virus genome having poor homology to reported isolates: comparative study of four distinct genotypes. Virology 1992;188:331-341.
26. Bhattacherjee V, Prescott LE, Pike I, et al. Use of NS-4 peptides to identify type-specific antibody to hepatitis C virus genotype 1, 2, 3, 4, 5, and 6. J Gen Virol 1995;76:1737-1748.
27. Zhao XN, Xu DZ, Hui HX, et al. Cloning and sequencing of 5′ NCR cDNA of HCV derived from a patient with HCV infection in China. J Fourth Milit Univ 1998;19:181-183.
28. Stuyver L, Arnhem WV, Wyseur A, et al. Classification of hepatitis C viruses based on phylogenetic analysis of the envelope 1 and nonstructural 5B regions and identification of five additional subtypes. Proc Nat Acad Sci USA 1994;91:10134-10138.
29. Chayama K, Tsubota A, Koida I, et al. Nucleotide sequence of hepatitis C virus (type 3b) isolated from a Japanese patient with chronic hepatitis C. J Gen Virol 1994;75:3623-3628.
30. Tokita H, Okamoto H, Tsuda F, et al. Hepatitis C virus variants from Vietnam are classifiable into the seventh, eighth, and ninth major genetic groups. Microbiology 1994;91:11022-11026.
31. Panigrahi AK, Roca J, Acharya SK, et al. Genotype determination of hepatitis C virus from northern India: identification of a new subtype. J Med Virol 1996;48:191-198.
32. Chan SW, McOmish F, Holmes EC, et al. Analysis of a new hepatitis C virus type and its phylogenetic relationship to existing variants. J Gen Virol 1992; 73:1131-1141.
33. Okamoto H, Kojima M, Sakamoto M, et al. The entire nucleotide sequence and classification of a hepatitis C virus isolate of a novel genotype from an Indonesian patient with chronic liver disease. J Gen Virol 1994;75:629-635.
34. Simmonds P. Variability of hepatitis C virus. Hepatology 1995;21:570-583.
35. Miyakawa Y, Okamoto H, Mayumi M. Classifying hepatitis C virus genotypes. Mol Med Today 1995;1: 20-25.
36. Bukh J, Miller RH, Purcell RH. Genetic heterogeneity of hepatitis C virus: quasispecies and genotypes. Semin Liver Dis 1995;15:41-63.
37. Tokita H, Okamoto H, Iizuka H, et al. Hepatitis C virus variants from Jakarta, Indonesia classifiable into novel genotypes in the second ( 2e and 2f ), tenth (10a), eleventh (11a) genetic groups. J Gen Virol 1996;77:239-301.
38. Robertson B, Myers G, Howard C, et al. Classification, nomenclature, and database development for hepatitis C virus (HCV) and related viruses: proposals for standardization. Arch Virol 1998;143:2493-2503.
39. Mori S, Kato N, Yagyu A, et al. A new type of hepatitis C virus in patients in Thailand. Biochem Biophys Res Commun 1992;183:334-342.
40. Lee C, Cheng C, Wang J, et al. Identification of hepatitis C virus with a non-conserved sequence of the 5′ untranslated region. J Clin Microbiol 1992;30: 1602-1604.
41. Ohno T, Mizokami M, Wu RR, et al. New hepatitis C virus ( HCV) genotyping system that allows for identification of HCV genotypes 1a, 1b, 2a, 2b, 3a, 3b, 4, 5a, and 6a. J Clin Microbiol 1997;35:201-207.
42. Yamada N, Tanihara K, Mizokami M, et al. Full-length sequence of the genome of hepatitis C virus type 3a: comparative study with different genotypes. J Gen Virol 1994;75:3279-3284.
43. Bukh J, Purcell H, Miller RH. Sequence analysis of the 5′ noncoding region of hepatitis C virus. Proc Nat Acad Sci USA 1992;89:4942-4946.
44. Cha TA, Beall E, Irvine B, et al. At least five related, but distinct, hepatitis C virus genotypes exist. Proc Nat Acad Sci USA 1992;89:7144-7148.
45. Tokita H, Shrestha SM, Okamoto H, et al. Hepatitis C virus variants from Nepal with novel genotypes and their classification into the third major group. J Gen Virol 1994;75:931-936.
46. Buratti E, Gerotto M, Pontisso P, et al. In vivo translational efficiency of different hepatitis C virus 5′ UTRs. FEBS Latters 1997;411:275-280.
47. Jiang W, Gu S, Hu Y, et al. Genotyping of HCV isolates from different populations in Shanghai by using second generation line probe assay. Chin J Hepatol 1990;7:29-30.
48. Prescott LE, Simmonds P, Lai CL, et al. Detection and clinical features of hepatitis C virus types 6 infections in blood donors from Hong Kong. J Med Virol 1996;50:168-175.
49. Ren C, Wo Q, Chen X. Detection of anti-HCV in 664 donors' sera. Chin J Clin Hepatol 1993;9:12-13.
50. Zhang YY, Lok AS, Chan DT, et al. Great diversity of hepatitis C virus genotypes found in Hong Kong than in mainland China. J Clin Microbiol 1995;33: 2931-2934.
51. Wang Y, He S, Okamoto H. Analysis of genotypes of hepatitis C virus (HCV) in Macao. J Chin Exp Clin Virol 1995;9:202-205.
52. An W, Zhu W, Wang S, et al. A study on serotyping and genotyping of hepatitis C virus. Chin J Microbiol Immunol 1997;17:88-91.
53. Wu C, Tao Q. Cloning and sequencing of E2/NS1 gene from a Chinese genotype III isolates of hepatitis C virus. Nat Med J China 1992;72:655-657.