1887

Journal of General Virology header logo

Volume 101, Issue 7

Update: proposed reference sequences for subtypes of hepatitis E virus (species ) Open Access

Abstract

In this recommendation, we update our 2016 table of reference sequences of subtypes of hepatitis E virus (HEV; species , family ) for which complete genome sequences are available (Smith ., 2016). This takes into account subsequent publications describing novel viruses and additional proposals for subtype names; there are now eight genotypes and 36 subtypes. Although it remains difficult to define strict criteria for distinguishing between virus subtypes, and is not within the remit of the International Committee on Taxonomy of Viruses (ICTV), the use of agreed reference sequences will bring clarity and stability to researchers, epidemiologists and clinicians working with HEV.

  • Received:
  • Accepted:
  • Published Online:
Keyword(s): hepatitis E virus , Hepeviridae and Orthohepevirus A
Funding
This study was supported by the:
  • Santé Publique France
    • Principle Award Recipient: Jacques Izopet
  • Wellcome Trust (Award WT108418AIA)
    • Principle Award Recipient: Peter Simmonds
© 2020 The Authors
  • This is an open-access article distributed under the terms of the Creative Commons Attribution License. This article was made open access via a Publish and Read agreement between the Microbiology Society and the corresponding author’s institution.
Loading

Article metrics loading...

/content/journal/jgv/10.1099/jgv.0.001435
2020-05-29
2024-04-27
Loading full text...

Full text loading...

/deliver/fulltext/jgv/101/7/692.html?itemId=/content/journal/jgv/10.1099/jgv.0.001435&mimeType=html&fmt=ahah

References

  1. Lu L, Li C, Hagedorn CH. Phylogenetic analysis of global hepatitis E virus sequences: genetic diversity, subtypes and zoonosis. Rev Med Virol 2006; 16:5–36 [View Article][PubMed]
     [Google Scholar]
  2. Smith DB, Simmonds P, Izopet J, Oliveira-Filho EF, Ulrich RG et al. Proposed reference sequences for hepatitis E virus subtypes. J Gen Virol 2016; 97:537–542 [View Article][PubMed]
     [Google Scholar]
  3. Primadharsini PP, Nagashima S, Okamoto H. Genetic variability and evolution of hepatitis E virus. Viruses 2019; 11:456 [View Article][PubMed]
     [Google Scholar]
  4. Abravanel F, Dimeglio C, Castanier M, Péron J-M, Kamar N et al. Does HEV-3 subtype play a role in the severity of acute hepatitis E?. Liver Int 2020; 40:333–337 [View Article][PubMed]
     [Google Scholar]
  5. Gouilly J, Chen Q, Siewiera J, Cartron G, Levy C et al. Genotype specific pathogenicity of hepatitis E virus at the human maternal-fetal interface. Nat Commun 2018; 9:4748 [View Article][PubMed]
     [Google Scholar]
  6. Smith DB, Ijaz S, Tedder RS, Hogema B, Zaaijer HL et al. Variability and pathogenicity of hepatitis E virus genotype 3 variants. J Gen Virol 2015; 96:3255–3264 [View Article][PubMed]
     [Google Scholar]
  7. Simmonds P. SSE: a nucleotide and amino acid sequence analysis platform. BMC Res Notes 2012; 5:50 [View Article][PubMed]
     [Google Scholar]
  8. Wang H, Zhang W, Ni B, Shen H, Song Y et al. Recombination analysis reveals a double recombination event in hepatitis E virus. Virol J 2010; 7:129 [View Article][PubMed]
     [Google Scholar]
  9. Luk K-C, Coller KE, Dawson GJ, Cloherty GA. Identification of a putative novel genotype 3/rabbit hepatitis E virus (HEV) recombinant. PLoS One 2018; 13:e0203618 [View Article][PubMed]
     [Google Scholar]
  10. Kumar S, Stecher G, Tamura K. MEGA7: molecular evolutionary genetics analysis version 7.0 for bigger datasets. Mol Biol Evol 2016; 33:1870–1874 [View Article][PubMed]
     [Google Scholar]
  11. Tsatsralt-Od B, Primadharsini PP, Nishizawa T, Ohnishi H, Nagashima S et al. Distinct changing profiles of hepatitis A and E virus infection among patients with acute hepatitis in Mongolia: the first report of the full genome sequence of a novel genotype 1 hepatitis E virus strain. J Med Virol 2018; 90:84–92 [View Article][PubMed]
     [Google Scholar]
  12. Nishizawa T, Primadharsini PP, Namikawa M, Yamazaki Y, Uraki S et al. Full-Length genomic sequences of new subtype 1G hepatitis E virus strains obtained from four patients with imported or autochthonous acute hepatitis E in Japan. Infect Genet Evol 2017; 55:343–349 [View Article][PubMed]
     [Google Scholar]
  13. Huang CC, Nguyen D, Fernandez J, Yun KY, Fry KE et al. Molecular cloning and sequencing of the Mexico isolate of hepatitis E virus (HEV). Virology 1992; 191:550–558 [View Article][PubMed]
     [Google Scholar]
  14. Kaiser M, Kamili S, Hayden T, Blümel J, Baylis SA. Genome sequence of a genotype 2 hepatitis E virus World Health organization reference strain. Genome Announc 2017; 5:e01664-16 [View Article][PubMed]
     [Google Scholar]
  15. Wang B, Akanbi OA, Harms D, Adesina O, Osundare FA et al. A new hepatitis E virus genotype 2 strain identified from an outbreak in Nigeria, 2017. Virol J 2018; 15:163 [View Article][PubMed]
     [Google Scholar]
  16. Miura M, Inoue J, Tsuruoka M, Nishizawa T, Nagashima S et al. Full-length genomic sequence analysis of new subtype 3k hepatitis E virus isolates with 99.97% nucleotide identity obtained from two consecutive acute hepatitis patients in a city in northeast Japan. J Med Virol 2017; 89:1116–1120 [View Article][PubMed]
     [Google Scholar]
  17. De Sabato L, Lemey P, Vrancken B, Bonfanti L, Ceglie L et al. Proposal for a new subtype of the zoonotic genotype 3 hepatitis E virus: HEV-3l. Virus Res 2018; 248:1–4 [View Article][PubMed]
     [Google Scholar]
  18. Lhomme S, Gallian P, Dimeglio C, Assal A, Abravanel F et al. Viral load and clinical manifestations of hepatitis E virus genotype 3 infections. J Viral Hepat 2019; 26:1139–1142 [View Article][PubMed]
     [Google Scholar]
  19. Muñoz-Chimeno M, Forero JE, Echevarría JM, Muñoz-Bellido JL, Vázquez-López L et al. Full coding hepatitis E virus genotype 3 genome amplification method. J Virol Methods 2016; 230:18–23 [View Article][PubMed]
     [Google Scholar]
  20. Nicot F, Jeanne N, Roulet A, Lefebvre C, Carcenac R et al. Diversity of hepatitis E virus genotype 3. Rev Med Virol 2018; 28:e1987 [View Article][PubMed]
     [Google Scholar]
  21. Sahli R, Fraga M, Semela D, Moradpour D, Gouttenoire J. Rabbit HEV in immunosuppressed patients with hepatitis E acquired in Switzerland. J Hepatol 2019; 70:1023–1025 [View Article][PubMed]
     [Google Scholar]
  22. Wist V, Kubacki J, Lechmann J, Steck M, Fraefel C et al. Complete genome sequence of a Swiss hepatitis E virus isolate from the liver of a fattening pig. Genome Announc 2018; 6:e00113-18 [View Article][PubMed]
     [Google Scholar]
  23. Wang L, Teng JLL, Lau SKP, Sridhar S, Fu H et al. Transmission of a novel genotype of hepatitis E virus from Bactrian camels to cynomolgus macaques. J Virol 2019; 93: [View Article][PubMed]
     [Google Scholar]
  24. Woo PCY, Lau SKP, Teng JLL, Cao K-Y, Wernery U et al. New hepatitis E virus genotype in Bactrian camels, Xinjiang, China, 2013. Emerg Infect Dis 2016; 22:2219–2221 [View Article][PubMed]
     [Google Scholar]
  25. Sander A-L, Corman VM, Lukashev AN, Drexler JF. Evolutionary origins of enteric hepatitis viruses. Cold Spring Harb Perspect Med 2018; 8:a031690 [View Article][PubMed]
     [Google Scholar]
  26. Singer JB, Thomson EC, McLauchlan J, Hughes J, Gifford RJ. GLUE: a flexible software system for virus sequence data. BMC Bioinformatics 2018; 19:532 [View Article][PubMed]
     [Google Scholar]
  27. Mulder AC, Kroneman A, Franz E, Vennema H, Tulen AD et al. HEVnet: a one health, collaborative, interdisciplinary network and sequence data repository for enhanced hepatitis E virus molecular typing, characterisation and epidemiological investigations. Euro Surveill 2019; 24: [View Article][PubMed]
     [Google Scholar]
http://instance.metastore.ingenta.com/content/journal/jgv/10.1099/jgv.0.001435
Loading
Update: proposed reference sequences for subtypes of hepatitis E virus (species Orthohepevirus A)
J. Gen. Virol. 101, 692 (2020); https://doi.org/10.1099/jgv.0.001435
/content/journal/jgv/10.1099/jgv.0.001435
/content/journal/jgv/10.1099/jgv.0.001435
Loading

Data & Media loading...

Supplements

Supplementary material 1

PDF

Most cited Most Cited RSS feed

This is a required field
Please enter a valid email address
Approval was a Success
Invalid data
An Error Occurred
Approval was partially successful, following selected items could not be processed due to error