Molecular characterization of genotype 2 and 4 hepatitis C virus isolates in French blood donors

Journal of Medical Virology

Volumn 80, Issue 10, 2008, Pages 1732-1739

  Cantaloube, Jean François ^a   Gallian, Pierre ^a   Laperche, Syria ^b   Elghouzzi, Marie Héléne ^a   Piquet, Yves ^a   Bouchardeau, Françoise ^b   Jordier, Francois ^a   Biagini, Hilippe ^a   Attoui, Houssam ^c   De Micco, Philippe ^a  

^a ETABLISSEMENT FRANÇAIS DU SANG   (France)

^b INSTITUT NATIONAL DE LA TRANSFUSION SANGUINE   (France)

^c INSTITUTE FOR ANIMAL HEALTH   (United Kingdom)

Author keywords

Coalescence; Genotyping; HCV; Phylogeny

Indexed keywords

AFRICA; ARTICLE; BAYES THEOREM; BLOOD DONOR; CONFIDENCE INTERVAL; ENDEMIC DISEASE; FRANCE; GENE SEQUENCE; GENETIC ANALYSIS; GENOTYPE; HEPATITIS C; HEPATITIS C VIRUS; HUMAN; MAJOR CLINICAL STUDY; NUCLEOTIDE SEQUENCE; UNINDEXED SEQUENCE; VIRUS ISOLATION; VIRUS STRAIN; VIRUS TRANSMISSION;

BAYES THEOREM; BLOOD DONORS; EPIDEMIOLOGY, MOLECULAR; FRANCE; HEPACIVIRUS; HEPATITIS C; HUMANS; PHYLOGENY; VIRAL ENVELOPE PROTEINS; VIRAL NONSTRUCTURAL PROTEINS;

HEPATITIS C VIRUS;

EID: 50849119450     PISSN: 01466615     EISSN: 10969071     Source Type: Journal    
DOI: 10.1002/jmv.21285     Document Type: Article

References (52)

1. Candotti D, Temple J, Sarkodie F, Allain J-P. 2003. Frequent recovery and broad genotype 2 diversity characterize hepatitis C virus infection in Ghana, West Africa. J Virol 77:7914-7923.
2. Cantaloube J-F, Venault H, Zappitelli J-P, Gallian P, Touinssi M, Attoui H, Biagini P, de Lamballerie X, de Micco P. 2000. Molecular analysis of HCV type 1 to 5 envelope gene: Application to investigations of posttransfusion transmission of HCV. Transfusion 40:712-717.
3. Cantaloube J-F, Gallian P, Attoui H, Biagini P, de Micco P, de Lamballerie X. 2005. Genotype distribution and molecular epidemiology of hepatitis C virus in blood donors from Southeast France. J Clin Microbiol 43:3624-3629.
4. Cantaloube JF, Laperche S, Gallian P, Bouchardeau F, de Lamballerie X, de Micco P. 2006. Analysis of the 5′ noncoding region versus the NS5b region in genotyping hepatitis C virus isolates from blood donors in France. J Clin Microbiol 44:2051-2056.
5. Choo QL, Richman KH, Han JH, Berger K, Lee C, Dong C, Gallegos C, Coit D, Medina-Selby R, Barr PJ, Weiner A, Bradley DW, Kuo G, Houghton M. 1991. Genetic organization and diversity of the hepatitis C virus. Proc Natl Acad Sci USA 88:2451-2455.
6. Cochrane A, Searle B, Hardie A, Robertson R, Delahooke T, Cameron S, Tedder RS, Dusheiko GM, De Lamballerie X, Simmonds P. 2002. A genetic analysis of hepatitis C virus transmission between injection drug users. J Infect Dis 186:1212-1221.
7. Drummond AJ, Rambaut A, Shapiro B, Pybus OG. 2005. Bayesian coalescent inference of past population dynamics from molecular sequences. Mol Biol Evol 22:1185-1192.
8. Elghouzzi MH, Bouchardeau F, Pillonel J, Boiret E, Tirtaine C, Barlet V, Montcharmont P, Maisonneuve P, du Puy-Montbrun MC, Lyon-Caen D, Couroucé AM. 2000. Hepatitis C virus: Routes of infection and genotypes in a cohort of anti-HCV-positive French blood donors. Vox Sang 79:138-144.
9. Frank C, Mohamed M, Strickland G, Lavanchy D, Arthur R, Magder L, Khoby T, Abdel-Wahab Y, Ohn E, Anwa W. 2000. The role of parenteral antischistosomal therapy in the spread of hepatitis C virus in Egypt. Lancet 355:887-891.
10. Fretz C, Jeannel D, Stuyver L, Hervé V, Lunel F, Boudifa A, Mathiot C, de Thé G, Fournel J-J. 1995. HCV infection in a rural population of the central african Republic (CAR): Evidence for three additional subtypes of Genotype 4. J Med Virol 47:435-437.
11. Hinrichsen H, Benhamou Y, Wedemeyer H, Reiser M, Sentjens RE, Calleja JL, Forns X, Erhardt A, Cronlein J, Chaves RL, Yong CL, Nehmiz G, Steinmann GG. 2004. Short-term antiviral efficacy of BIL 2061, a hepatitis C virus serine protease inhibitor, in hepatitis C genotype 1 patients. Gastroenterology 2004. 127:1347-1355.
12. Hultgren C, Desombere I, Leroux-Roels G, Quiroga JA, Carreno V, Nilsson B, Weiland O, Matti Sallberg M. 2004. Evidence for a relation between the viral load and genotype and hepatitis C virus-specific T cell responses. J Hepatol 40:971-978.
13. Inchauspe G, Zebedee S, Lee DH, Sugitani M, Nasoff M, Prince AM. 1991. Genomic structure of the human prototype strain H of hepatitis C virus: Comparison with American and Japanese isolates. Proc Natl Acad Sci USA 88:10292-20296.
14. Jeannel D, Fretz C, Traore Y, Kohdjo N, Bigot A, Gamy EP, Jourdan G, Kourouma K, Maertens G, Fuloux F, Fournel J-J, Stuyver L. 1998. Evidence for high genetic diversity and long-term endemicity of Hepatitis C Virus genotypes 1 and 2 in West-Africa. J Med Virol 55:92-97.
15. Kalinina O, Norder H, Mukomolov S, Magnius L. 2002. A natural intergenotypic recombinant of hepatitis C virus identified in St. Petersburg. J Virol 76:4034-4043.
16. Kaplan DE, Sugimoto K, Ikeda F, Stadanlick J, Valiga M, Shetty K, Reddy KR, Chang K. 2005. T-cell response relative to genotype and ethnicity during antiviral therapy for chronic hepatitis C. Hepatology 41:1365-1375.
17. Kinoshita T, Miyake K, Okamoto H, Mishiro S. 1993. Imported hepatitis C virus genotypes in Japanese hemophiliacs. J Infect Dis 168:249-250.
18. Koshy A, Madda JP, Marcellin PM, Martinot M. 2002. Treatment of hepatitis C virus genotype 4-related cirrhosis: Ribavirin and interferon combination compared with interferon alone. J Clin Gastroenterol 35:82-85.
19. Kuiken C, Yusim K, Boykin L, Richardson R. 2005. The Los Alamos HCV sequence database. Bioinformatics 21:379-384.
20. Kumar S, Tamura K, Nei M. 2004. MEGA3: Integrated software for Molecular Evolutionary Genetics Analysis and sequence alignment. Brief Bioinform 5:150-163.
21. Lamarre D, Anderson PC, Bailey M, Beaulieu P, Bolger G, Bonneau P, Bos M, Cameron DR, Cartier M, Cordingley MG, Faucher AM, Goudreau N, Kawai SH, Kukolj G, Lagace L, LaPlante SR, Narjes H, Poupart MA, Rancourt J, Sentjens RE, St George R, Simoneau B, Steinmann G, Thibeault D, Tsantrizos YS, Weldon SM, Yong CL, Llinas-Brunet M. 2003. An NS3 protease inhibitor with antiviral effects in humans infected with hepatitis C virus. Nature 426:186-189.
22. Le Pogam S, Dubois F, Christen R, Raby C, Cavicchini A, Goudeau A. 1998. Comparison of DNA enzyme immunoassay and line probe assays (Inno-Lipa HCV I and II) for hepatitis C virus genotyping. J Clin Microbiol 36:1461-1463.
23. Martial J, Morice Y, Abel S, Cabie A, Rat C, Lombard F, Edouard A, Pierre-Louis S, Garsaud P, Bera O, Chout R, Gordien E, Deny P, Cesaire R. 2004. Hepatitis C virus (HCV) genotypes in the Caribbean island of Martinique: Evidence for a large radiation of HCV-2 and for a recent introduction from Europe of HCV-4. J Clin Microbiol 42:784-791.
24. Martinot-Peignoux M, Roudot-Thoraval F, Mendel I, Coste J, Izopet J, Duverlie G, Payan C, Pawlotsly JM, Defer C, Bogard M, Gerolami V, Halfon P, Buisson Y, Fouqueray B, Loiseau P, Lamoril J, Lefrere JJ, Marcellin P. 1999. Hepatitis C virus genotypes in France: Relationship with epidemiology, pathogenicity and response to interferon therapy. J Viral Hepat 6:435-443.
25. Mellor J, Holmes EC, Jarvis LM, Yap PL, Simmonds P. 1995. Investigation of the pattern of hepatitis C sequence diversity in different geographical regions: Implications for virus classification. The International HCV Collaborative Study Group. J Gen Virol 76:2493-2507.
26. Morice Y, Roulot D, Grando V, Stirnemann J, Gault E, Jeantils V, Bentata M, Jarrousse B, Lortholary O, Pallier C, Dény P. 2001. Phylogenetic analyses confirm the high prevalence of hepatitis C virus (HCV) type 4 in the Seine-Saint-Denis district (France) and indicate seven different HCV-4 subtypes linked to two different epidemiological patterns. J Gen Virol 82:1001-1012.
27. Murphy DG, Willems B, Deschenes M, Hilzenrat N, Mousseau R, Sabbah S. 2007. Use of sequence analysis of the NS5B region for routine genotyping of hepatitis C virus with reference to C/E1 and 5′UTR sequences. J Clin Microbiol 5:1102-1112.
28. Nakano T, Lu L, Liu P, Pybus OG. 2004. Viral gene sequences reveal the variable history of hepatitis C virus infection among countries. J Infect Dis 190:1098-1108.
29. Nakano T, Lu L, He Y, Fu Y, Robertson BH, Pybus OG. 2006. Population genetic history of hepatitis C virus 1b infection in China. J Gen Virol 87:73-82.
30. Nicot F, Legrand-Abravanel F, Sandres-Saune K, Boulestin A, Dubois M, Alric L, Vinel JP, Pasquier C, Izopet J. 2005. Heterogeneity of hepatitis C virus genotype 4 strains circulating in south-western France. J Gen Virol 86:107-114.
31. Pawlotsky JM. 2003. Mechanisms of antiviral treatment efficacy and failure in chronic hepatitis C. Antiviral Res 59:1-11.
32. Payan C, Roudot-Thoraval F, Marcellin P, Bled N, Duverlie G, Fouchard-Hubert I, Trimoulet P, Couzigou P, Cointe D, Chaput C, Henquell C, Abergel A, Pawlotsky JM, Hezode C, Coude M, Blanchi A, Alain S, Loustaud-Ratti V, Chevallier P, Trepo C, Gerolami V, Portal I, Halfon P, Bourliere M, Bogard M, Plouvier E, Laffont C, Agius G, Silvain C, Brodard V, Thiefin G, Buffet-Janvresse C, Riachi G, Grattard F, Bourlet T, Stoll-Keller F, Doffoel M, Izopet J, Barange K, Martinot-Peignoux M, Branger M, Rosenberg A, Sogni P, Chaix ML, Pol S, Thibault V, Opolon P, Charrois A, Serfaty L, Fouqueray B, Grange JD, Lefrere JJ, Lunel-Fabiani F. 2005. Changing of hepatitis C virus genotype patterns in France at the beginning of the third millennium: The GEMHEP GenoCII Study. J Viral Hepat 12:405-413.
33. Prince AM, Brotman B, Lee D, Pfahler W, Tricoche N, Andrus L, Shata MT. 2005. Protection against chronic hepatitis C virus infection after rechallenge with homologous, but not heterologous, genotypes in a chimpanzee model. J Infect Dis 192:1701-1709.
34. Pybus OG, Charleston MA, Gupta S, Rambaut A, Holmes AC, Harvey PH. 2001. The epidemic behaviour of the hepatitis C virus. Science 292:2323-2325.
35. Pybus OG, Drummond AJ, Nakano T, Robertson BH, Rambaut A. 2003. The epidemiology and iatrogenic transmission of Hepatitis C virus in Egypt: A Bayesian coalescent approach. Mol Biol Evol 20:381-387.
36. Qu D, Hantz O, Gouy M, Vitvitski L, Li JS, Berby F, Tong SP, Trépo C. 1994. Heterogeneity of hepatitis C virus genotypes in France. J Gen Virol 75:1063-1070.
37. Ray S, Arthur RR, Carella A, Bukh J, Thomas DL. 2000. Genetic epidemiology of Hepatitis C virus throughout Egypt. J Infect Dis 182:698-707.
38. Reiser M, Hinrichsen H, Benhamou Y, Reesink HW, Wedemeyer H, Avendano C, Riba N, Yong CL, Nehmiz G, Steinmann GG. 2005. Antiviral efficacy of NS3-serine protease inhibitor BILN-2061 in patients with chronic genotype 2 and 3 hepatitis C. Hepatology 4:832-835.
39. Robertson N, Myers G, Howard C, Brettin T, Bukh J, Gashen B, Gojobori T, Maertens G, Mizokami M, Nainan O, Netesov S, Nishioka K, Shin-I T, Simmonds P, Smith D, Stuyver L, Weiner A. 1998. Classification, nomenclature, and database development for hepatitis C virus (HCV) and related viruses: Proposals for standardization. Arch Virol 143:2493-2503.
40. Ruggieri A, Argentini C, Kouruma K, Chionne P, D'Ugo E, Spada E, Dettori S, Sabbatini S, Rapicetta M. 1996. Heterogeneity of hepatitis C virus genotype 2 variants in West Central Africa (Guinea Conakry). J Gen Virol 77:2073-2076.
41. Samokhvalov EI, Hijikata M, Gylka RI, Lvov DK, Mishiro S. 2000. Full-genome nucleotide sequence of a hepatitis C variant (isolate VAT-96) representing a new subtype within the genotype 2 (arbitrarily 2k). Virus Genes 20:183-187.
42. Simmonds P, Bukh J, Combet C, Deleage G, Enomoto N, Feinstone S, Halfen P, Inchauspe G, Kuiken C, Maertens G, Mizokami M, Murphy DG, Okamoto H, Pawlotsky JM, Penin F, Sablon E, Shin IT, Stuyver LJ, Thiel HJ, Viazov S, Weiner AJ, Widell A. 2005. Consensus proposals for a unified system of nomenclature of hepatitis C virus genotypes. Hepatology 42:962-973.
43. Smyk-Pearson S, Tester IA, Lezotte D, Sasaki AW, Lewinsohn DM, Rosen HR. 2006. Differential antigenic hierarchy associated with spontaneous recovery from hepatitis C virus infection: Implications for vaccine design. J Infect Dis 194:454-463.
44. Stuyver L, Wyseur A, van Arnhem W, Hernandez F, Maertens G. 1996. Second generation line probe assay for hepatitis C virus genotyping.1996. J Clin Microbiol 34:2259-2266.
45. Thomas F, Nicot F, Sandres-Sauné K, Dubois M, Legrand-Abravanel F, Alric L, Peron JM, Pasquier C, Izopet J. 2007. Genetic diversity of HCV genotype 2 strains in South Western France. J Med Virol 79:26-34.
46. Thompson JD, Higgins DG, Gibson TJ. 1994. CLUSTAL W: Improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucl Acid Res 22:4673-4680.
47. Tokita H, Shrestha SM, 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. J Gen Virol 75:931-936.
48. 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. Proc Natl Acad Sci USA 9:11022-11026.
49. Tokita H, Okamoto H, Luengrojanakul P, Vareesangthip K, Chainuvati T, Iizuka H, Tsuda F, Miyakawa Y, Mayumi M. 1995. Hepatitis C virus variants from Thailand classifiable into five novel genotypes in the sixth (6b) seventh (7c, 7d), ninth (9b, 9c) major genetic groups. Gen J Virol 76:2329-2335.
50. Tokita H, Okamoto H, Izuka H, Kishimoto J, Tsuda F, Lesmana LA, Miyakawa Y, Mayumi M. 1996. Hepatitis C virus variants from Jakarta, Indonesia classifiable into novel genotypes in the second (2e and 2f), tenth (10a) and eleventh (11a) genetic groups. J Gen Virol 77:293-301.
51. Verbeeck J, Maes P, Lemey P, Pybus OG, Wollants E, Song E, Nevens F, Fevery J, Delport W, Van der Merwe S, Van Ranst M. 2006. Investigating the origin and spread of hepatitis C virus genotype 5a. J Virol 80:4220-4226.
52. Xu L, Larzul D, Delaporte E, Brechot C, Kremsdorf D. 1994. Hepatitis C virus genotype 4 is highly prevalent in central Africa (Gabon). J Gen Virol 75:2393-2398.