Near-full Genome Characterisation of Two Natural Intergenotypic 2k/1b Recombinant Hepatitis C Virus Isolates

Overview

Journal Adv Virol

Publisher Wiley

Specialty Microbiology

Date 2012 Feb 9

PMID 22315602

Citations 8

Authors

Victoria L Demetriou

Eftychia Kyriakou

Leondios G Kostrikis

Affiliations

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Abstract

Few natural intergenotypic hepatitis C virus (HCV) recombinants have been characterised, and only RF1_2k/1b has demonstrated widespread transmission. The near-full length genome sequences for two cases of 2k/1b recombinants (CYHCV037 and CYHCV093) sampled in Cyprus were obtained using strain-specific RT-PCR amplification and sequencing protocols. Sequence analysis confirmed their similarity with the original RF1_2k/1b strain from St. Petersburg, N687. These two isolates significantly contribute to the sequence data available on this recombinant and confirm its increasing spread among individuals from Eastern Europe, and its association with transmission through intravenous drug use. Phylogenetic analyses reveal clustering of the sequence 3' to the recombination point, not seen in the topology of the 5' sequences, implying a more complicated evolutionary history than that held to date. The increasing cases of HCV recombinant strains underline the requirement of their contribution to the standardised rules of HCV classification and nomenclature, molecular epidemiology, diagnosis, and treatment.

Citing Articles

Intergenotypic 2k/1b hepatitis C virus recombinants in the East Macedonia and Thrace region of Greece.

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First identification of a recombinant form of hepatitis C virus in Austrian patients by full-genome next generation sequencing.

Stelzl E, Haas B, Bauer B, Zhang S, Fiss E, Hillman G PLoS One. 2017; 12(7):e0181273.

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Heads or Tails: Genotyping of Hepatitis C Virus Concerning the 2k/1b Circulating Recombinant Form.

Schuermans W, Orlent H, Desombere I, Descheemaeker P, Van Vlierberghe H, Geerts A Int J Mol Sci. 2016; 17(9).

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Next-Generation Sequencing: a Diagnostic One-Stop Shop for Hepatitis C?.

Poljak M J Clin Microbiol. 2016; 54(10):2427-30.

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References

Sentandreu V, Jimenez-Hernandez N, Torres-Puente M, Bracho M, Valero A, Gosalbes M . Evidence of recombination in intrapatient populations of hepatitis C virus. PLoS One. 2008; 3(9):e3239. PMC: 2528950. DOI: 10.1371/journal.pone.0003239. View

Cristina J, Colina R . Evidence of structural genomic region recombination in Hepatitis C virus. Virol J. 2006; 3:53. PMC: 1533811. DOI: 10.1186/1743-422X-3-53. View

Kurbanov F, Tanaka Y, Chub E, Maruyama I, Azlarova A, Kamitsukasa H . Molecular epidemiology and interferon susceptibility of the natural recombinant hepatitis C virus strain RF1_2k/1b. J Infect Dis. 2008; 198(10):1448-56. DOI: 10.1086/592757. View

Morel V, Descamps V, Francois C, Fournier C, Brochot E, Capron D . 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):382-6. DOI: 10.1016/j.jcv.2010.01.011. View

Simmonds P, Bukh J, Combet C, Deleage G, Enomoto N, Feinstone S . Consensus proposals for a unified system of nomenclature of hepatitis C virus genotypes. Hepatology. 2005; 42(4):962-73. DOI: 10.1002/hep.20819. View

Moreau I, Hegarty S, Levis J, Sheehy P, Crosbie O, Kenny-Walsh E . Serendipitous identification of natural intergenotypic recombinants of hepatitis C in Ireland. Virol J. 2006; 3:95. PMC: 1654145. DOI: 10.1186/1743-422X-3-95. View

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):7569-77. PMC: 1563718. DOI: 10.1128/JVI.00312-06. View

Moreno P, Alvarez M, Lopez L, Moratorio G, Casane D, Castells M . Evidence of recombination in Hepatitis C Virus populations infecting a hemophiliac patient. Virol J. 2009; 6:203. PMC: 2784780. DOI: 10.1186/1743-422X-6-203. View

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. DOI: 10.1099/vir.0.79984-0. View

10.

Enomoto N, Sakuma I, Asahina Y, Kurosaki M, Murakami T, Yamamoto C . Mutations in the nonstructural protein 5A gene and response to interferon in patients with chronic hepatitis C virus 1b infection. N Engl J Med. 1996; 334(2):77-81. DOI: 10.1056/NEJM199601113340203. View

11.

Demetriou V, van de Vijver D, Kostrikis L . Molecular epidemiology of hepatitis C infection in Cyprus: evidence of polyphyletic infection. J Med Virol. 2008; 81(2):238-48. DOI: 10.1002/jmv.21370. View

12.

Legrand-Abravanel F, Claudinon J, Nicot F, Dubois M, Chapuy-Regaud S, Sandres-Saune K . New natural intergenotypic (2/5) recombinant of hepatitis C virus. J Virol. 2007; 81(8):4357-62. PMC: 1866139. DOI: 10.1128/JVI.02639-06. View

13.

Colina R, Casane D, Vasquez S, Garcia-Aguirre L, Chunga A, Romero H . Evidence of intratypic recombination in natural populations of hepatitis C virus. J Gen Virol. 2004; 85(Pt 1):31-37. DOI: 10.1099/vir.0.19472-0. View

14.

Simmonds P . Genetic diversity and evolution of hepatitis C virus--15 years on. J Gen Virol. 2004; 85(Pt 11):3173-3188. DOI: 10.1099/vir.0.80401-0. View

15.

Tallo T, Norder H, Tefanova V, Krispin T, Schmidt J, Ilmoja M . Genetic characterization of hepatitis C virus strains in Estonia: fluctuations in the predominating subtype with time. J Med Virol. 2007; 79(4):374-82. DOI: 10.1002/jmv.20828. View

16.

Moreno M, Casane D, Lopez L, Cristina J . Evidence of recombination in quasispecies populations of a Hepatitis C Virus patient undergoing anti-viral therapy. Virol J. 2006; 3:87. PMC: 1635042. DOI: 10.1186/1743-422X-3-87. View

17.

Kageyama S, Agdamag D, Alesna E, Leano P, Heredia A, Abellanosa-Tac-An I . A natural inter-genotypic (2b/1b) recombinant of hepatitis C virus in the Philippines. J Med Virol. 2006; 78(11):1423-8. DOI: 10.1002/jmv.20714. View

18.

Tamura K, Dudley J, Nei M, Kumar S . MEGA4: Molecular Evolutionary Genetics Analysis (MEGA) software version 4.0. Mol Biol Evol. 2007; 24(8):1596-9. DOI: 10.1093/molbev/msm092. View

19.

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):4034-43. PMC: 136067. DOI: 10.1128/jvi.76.8.4034-4043.2002. View

20.

Choo Q, Kuo G, Weiner A, Overby L, Bradley D, Houghton M . Isolation of a cDNA clone derived from a blood-borne non-A, non-B viral hepatitis genome. Science. 1989; 244(4902):359-62. DOI: 10.1126/science.2523562. View