Genetic recombination of the hepatitis C virus: Clinical implications

Journal of Viral Hepatitis

Volumn 18, Issue 2, 2011, Pages 77-83

  Morel, V ^a,b   Fournier, C ^a,b   Franaois C ^a,b   Brochot, E ^a,b   Helle, F ^a,b   Duverlie, G ^a,b   Castelain, S ^a,b  

^a AMIENS UNIVERSITY HOSPITAL   (France)

^b UNIVERSITÉ DE PICARDIE JULES VERNE   (France)

Author keywords

evolution; genetic diversity; HCV; molecular epidemiology; recombination

Indexed keywords

VIRUS RNA;

GENETIC RECOMBINATION; GENETIC VARIABILITY; GENOTYPE; GEOGRAPHIC DISTRIBUTION; HEPATITIS C; HEPATITIS C VIRUS; HUMAN; MOLECULAR EPIDEMIOLOGY; NONHUMAN; NUCLEOTIDE SEQUENCE; PATHOPHYSIOLOGY; PRIORITY JOURNAL; REVIEW; RNA SYNTHESIS; RNA VIRUS; VIRUS HEPATITIS; VIRUS RECOMBINANT;

EVOLUTION, MOLECULAR; GENETIC VARIATION; HEPACIVIRUS; HEPATITIS C; HUMANS; MOLECULAR EPIDEMIOLOGY; RECOMBINATION, GENETIC;

EID: 78751544998     PISSN: 13520504     EISSN: 13652893     Source Type: Journal    
DOI: 10.1111/j.1365-2893.2010.01367.x     Document Type: Review

References (50)

1. Lai M,. Genetic recombination in RNA viruses. Curr Top Microbiol Immunol 1992; 176: 21-32.
2. Worobey M, Holmes E,. Evolutionary aspects of recombination in RNA viruses. J Gen Virol 1999; 80 (Pt 10): 2535-2543.
3. van der Werf S,. Variabilité génétique des virus ARN. Ann Inst Pasteur ActualitÃs 2002; 11: 19-32.
4. Simmonds P, Bukh J, Combet C, et al. Consensus proposals for a unified system of nomenclature of hepatitis C virus genotypes. Hepatology 2005; 42 (4): 962-973.
5. Gallei A, Pankraz A, Thiel H, Becher P,. RNA recombination in vivo in the absence of viral replication. J Virol 2004; 78 (12): 6271-6281.
6. Twiddy S, Holmes E,. The extent of homologous recombination in members of the genus Flavivirus. J Gen Virol 2003; 84 (Pt 2): 429-440.
7. Worobey M, Holmes E,. Homologous recombination in GB virus C/hepatitis G virus. Mol Biol Evol 2001; 18 (2): 254-261.
8. Yun Z, Lara C, Johansson B, Lorenzana de Rivera I, Sönnerborg A,. Discrepancy of hepatitis C virus genotypes as determined by phylogenetic analysis of partial NS5 and core sequences. J Med Virol 1996; 49 (3): 155-160.
9. Kalinina O, Norder H, Mukomolov S, Magnius L,. A natural intergenotypic recombinant of hepatitis C virus identified in St. Petersburg. J Virol 2002; 76 (8): 4034-4043.
10. Moreau I, Hegarty S, Levis J, et al. Serendipitous identification of natural intergenotypic recombinants of hepatitis C in Ireland. Virol J 2006; 3: 95.
11. Tallo T, Norder H, Tefanova V, et al. Genetic characterization of hepatitis C virus strains in Estonia: fluctuations in the predominating subtype with time. J Med Virol 2007; 79 (4): 374-382.
12. Kurbanov F, Tanaka Y, Avazova D, et al. Detection of hepatitis C virus natural recombinant RF1-2k/1b strain among intravenous drug users in Uzbekistan. Hepatol Res 2008; 38 (5): 457-464.
13. Kurbanov F, Tanaka Y, Chub E, et al. Molecular epidemiology and interferon susceptibility of the natural recombinant hepatitis C virus strain RF1-2k/1b. J Infect Dis 2008; 198 (10): 1448-1456.
14. Demetriou V, van de Vijver D, Kostrikis L,. Molecular epidemiology of hepatitis C infection in Cyprus: evidence of polyphyletic infection. J Med Virol 2009; 81 (2): 238-248.
15. Morel V, Descamps V, FranÃois C, et al. Emergence of a genomic variant of the recombinant 2k/1b strain during a mixed Hepatitis C infection: a case report. J Clin Virol 2010; 47 (4): 382-386.
16. Viazov S, Ross S, Kyuregyan K, et al. Hepatitis C virus recombinants are rare even among intravenous drug users. J Med Virol 2010; 82 (2): 232-238.
17. Noppornpanth S, Lien T, Poovorawan Y, Smits S, Osterhaus A, Haagmans B,. Identification of a naturally occurring recombinant genotype 2/6 hepatitis C virus. J Virol 2006; 80 (15): 7569-7577.
18. Kageyama S, Agdamag D, Alesna E, et al. A natural inter-genotypic (2b/1b) recombinant of hepatitis C virus in the Philippines. J Med Virol 2006; 78 (11): 1423-1428.
19. Legrand-Abravanel F, Claudinon J, Nicot F, et al. New natural intergenotypic (2/5) recombinant of hepatitis C virus. J Virol 2007; 81 (8): 4357-4362.
20. Lee Y, Lin H, Chen Y, et al. Molecular epidemiology of HCV genotypes among injection drug users in Taiwan: full-length sequences of two new subtype 6w strains and a recombinant form-2b6w. J Med Virol 2010; 82 (1): 57-68.
21. Colina R, Casane D, Vasquez S, et al. Evidence of intratypic recombination in natural populations of hepatitis C virus. J Gen Virol 2004; 85 (Pt 1): 31-37.
22. Cristina J, Colina R,. Evidence of structural genomic region recombination in Hepatitis C virus. Virol J 2006; 3: 53.
23. Ross R, Verbeeck J, Viazov S, Lemey P, Van Ranst M, Roggendorf M,. Evidence for a complex mosaic genome pattern in a full-length hepatitis C virus sequence. Evol Bioinform Online 2008; 4: 249-254.
24. Moreno P, Alvarez M, Lõpez L, et al. Evidence of recombination in Hepatitis C Virus populations infecting a hemophiliac patient. Virol J 2009; 6: 203.
25. Moreno M, Casane D, Lõpez L, Cristina J,. Evidence of recombination in quasispecies populations of a Hepatitis C Virus patient undergoing anti-viral therapy. Virol J 2006; 3: 87.
26. Sentandreu V, Jiménez-Hernández N, Torres-Puente M, et al. Evidence of recombination in intrapatient populations of hepatitis C virus. PLoS ONE 2008; 3 (9): e3239.
27. Gao F, Nainan O, Khudyakov Y, et al. Recombinant hepatitis C virus in experimentally infected chimpanzees. J Gen Virol 2007; 88 (Pt 1): 143-147.
28. Simmonds P,. Genetic diversity and evolution of hepatitis C virus-15 years on. J Gen Virol 2004; 85 (Pt 11): 3173-3188.
29. Legrand-Abravanel F, Izopet J,. Recombinaison génétique et virus de l'hépatite C. Virologie 2008; 12 (1): 7-14.
30. NIH consensus statement on management of Hepatitis C: 2002. NIH Consens State Sci Statements 2002; 19 (3): 1-46.
31. FranÃois C, Castelain S, Duverlie G, Capron D, Nguyen-Khac E,. Optimizing the treatment of chronic viral hepatitis C. Expert Rev Gastroenterol Hepatol 2009; 3 (6): 607-613.
32. Kalinina O, Norder H, Magnius L,. Full-length open reading frame of a recombinant hepatitis C virus strain from St Petersburg: proposed mechanism for its formation. J Gen Virol 2004; 85 (Pt 7): 1853-1857.
33. Samokhvalov E, Hijikata M, Gylka R, Lvov D, Mishiro S,. Full-genome nucleotide sequence of a hepatitis C virus variant (isolate name VAT96) representing a new subtype within the genotype 2 (arbitrarily 2k). Virus Genes 2000; 20 (2): 183-187.
34. Schröter M, Feucht H, Zöllner B, Schäfer P, Laufs R,. Multiple infections with different HCV genotypes: prevalence and clinical impact. J Clin Virol 2003; 27 (2): 200-204.
35. Laskus T, Wang L, Radkowski M, et al. Exposure of hepatitis C virus (HCV) RNA-positive recipients to HCV RNA-positive blood donors results in rapid predominance of a single donor strain and exclusion and/or suppression of the recipient strain. J Virol 2001; 75 (5): 2059-2066.
36. RamÃrez S, PÃrez-Del-Pulgar S, CarriÃn J, et al. Hepatitis C virus superinfection of liver grafts: a detailed analysis of early exclusion of non-dominant virus strains. J Gen Virol 2010; 91 (Pt 5): 1183-1188.
37. Qian K, Natov S, Pereira B, Lau J,. Hepatitis C virus mixed genotype infection in patients on haemodialysis. J Viral Hepat 2000; 7 (2): 153-160.
38. Bowden S, McCaw R, White P, Crofts N, Aitken C,. Detection of multiple hepatitis C virus genotypes in a cohort of injecting drug users. J Viral Hepat 2005; 12 (3): 322-324.
39. Bernardin F, Herring B, Page-Shafer K, Kuiken C, Delwart E,. Absence of HCV viral recombination following superinfection. J Viral Hepat 2006; 13 (8): 532-537.
40. Roque-Afonso A, Ducoulombier D, Di Liberto G, et al. Compartmentalization of hepatitis C virus genotypes between plasma and peripheral blood mononuclear cells. J Virol 2005; 79 (10): 6349-6357.
41. Tscherne D, Evans M, von Hahn T, et al. Superinfection exclusion in cells infected with hepatitis C virus. J Virol 2007; 81 (8): 3693-3703.
42. Nagy P, Zhang C, Simon A,. Dissecting RNA recombination in vitro: role of RNA sequences and the viral replicase. EMBO J 1998; 17 (8): 2392-2403.
43. Nagy P, Simon A,. In vitro characterization of late steps of RNA recombination in turnip crinkle virus. I. Role of motif1-hairpin structure. Virology 1998; 249 (2): 379-392. (Pubitemid 28460890)
44. Nagy P, Simon A,. In vitro characterization of late steps of RNA recombination in turnip crinkle virus.II. The role of the priming stem and flanking sequences. Virology 1998; 249 (2): 393-405. (Pubitemid 28460891)
45. Chetverin A, Chetverina H, Demidenko A, Ugarov V,. Nonhomologous RNA recombination in a cell-free system: evidence for a transesterification mechanism guided by secondary structure. Cell 1997; 88 (4): 503-513.
46. Chetverina H, Demidenko A, Ugarov V, Chetverin A,. Spontaneous rearrangements in RNA sequences. FEBS Lett 1999; 2: 89-94.
47. Gmyl A, Belousov E, Maslova S, Khitrina E, Chetverin A, Agol V,. Nonreplicative RNA recombination in poliovirus. J Virol 1999; 73 (11): 8958-8965.
48. Posada D, Crandall K, Holmes E,. Recombination in evolutionary genomics. Annu Rev Genet 2002; 36: 75-97.
49. Pietschmann T, Kaul A, Koutsoudakis G, et al. Construction and characterization of infectious intragenotypic and intergenotypic hepatitis C virus chimeras. Proc Natl Acad Sci USA 2006; 103 (19): 7408-7413.
50. Gottwein J, Scheel T, Hoegh A, et al. Robust hepatitis C genotype 3a cell culture releasing adapted intergenotypic 3a/2a (S52/JFH1) viruses. Gastroenterology 2007; 133 (5): 1614-1626.