Skip to main content
SpringerLink
Log in

Complete nucleotide sequences of six hepatitis B viral genomes encoding the surface antigen subtypes ayw4, adw4q −, and adrq − and their phylogenetic classification

  • Conference paper
Research in Chronic Viral Hepatitis

Part of the book series: Archives of Virology Supplementum ((ARCHIVES SUPPL,volume 8))

Summary

The complete nucleotide sequences of six hepatitis B viral (HBV) genomes were determined by dideoxy chain termination sequencing of ten overlapping nucleotide fragments obtained by the polymerase chain reaction. Four of the genomes belonged to the two genomic groups E and F of HBV which have been previously identified by us on the basis of sequence divergences within the S gene. Genomic group E encodes the HBsAg subtype ayw4, group F adw4q−. The other two genomes were of Pacific origin within group C and encoded adrq −. The relationship of these complete human HBV genomes to 21 that have been previously published, together with one chimpanzee virus and four rodent hepadnaviral genomes, was investigated by constructing a phylogenetic tree utilizing a combination of distance matrix and approximate parsimonious methods. Thereby, the previously demonstrated segregation of human HBV strains into six genomic groups was confirmed. Both of the representatives of the groups E and F were found to differ by 8.1–13.6% and by 12.8–15.5% from the genomes of the other genomic groups and by 1.5 and 3.7% from each other. Since they differed by more than 8% from the genomes in the other groups, the limit originally used to define HBV genomic groups, their status as new genomic groups was confirmed. The two Pacific group C strains were found to differ by 2.7% from each other and by 4.1 to 5.4% from other group C genomes, suggesting that they diverged early from the other group C genomes. According to both the overall similarity and the phylogenetic dendrogram the F strains formed the most divergent cluster of HBV genomes favoring the concept that they represented the original HBV strains of the New World. The next split in the dendrogram segregated the A, D, E and the chimpanzee strains from the Asian B and C strains. Information on the nucleotide sequences and their encoded products of HBV strains of different genomic groups will provide a basis to understand biological variations of the HBV infection in different parts of the world.

This is a preview of subscription content, log in via an institution to check access.

Access this chapter

Log in via an institution
Chapter
USD 29.95
Price excludes VAT (USA)
  • Available as PDF
  • Read on any device
  • Instant download
  • Own it forever
eBook
USD 39.99
Price excludes VAT (USA)
  • Available as PDF
  • Read on any device
  • Instant download
  • Own it forever
Softcover Book
USD 54.99
Price excludes VAT (USA)
  • Compact, lightweight edition
  • Dispatched in 3 to 5 business days
  • Free shipping worldwide - see info

Tax calculation will be finalised at checkout

Purchases are for personal use only

Institutional subscriptions

Preview

Unable to display preview. Download preview PDF.

Unable to display preview. Download preview PDF.

References

  1. Bichko V, Pushko P, Dreilina D, Pumpen P, Grens E (1985) Subtype ayw variant of hepatitis B virus DNA primary structure analysis. FEBS Lett 185: 208–212

    Article  PubMed  CAS  Google Scholar 

  2. Cann RL, Stoneking M, Wilson AC (1987) Mitochondrial DNA and human evolution. Nature 1: 31–36

    Article  Google Scholar 

  3. Cohen JI, Miller RH, Rosenblum B, Denniston K, Gerin JL, Purcell RH (1988) Sequence comparison of woodchuck hepatitis replicative forms shows conservation of the genome. Virology 162: 12–20

    Article  PubMed  CAS  Google Scholar 

  4. Courouce A-M, Holland PC, Muller JY, Soulier JP (1976) HBs antigen subtypes. Bibl Hematol 42: 1

    Google Scholar 

  5. Courouce-Pauty A-M, Lemaire JM, Roux JF (1978) New hepatitis B surface antigen subtypes inside the ad category. Vox Sang 35: 304–308

    Article  PubMed  CAS  Google Scholar 

  6. Estacio RC, Chavez CC, Okamoto H, Lingao AL, Reyes MT, Domingo E, Mayumi M (1988) Nucleotide sequence of a hepatitis B virus genome of subtype adw isolated from a Philippino: comparison with the reported three genomes of the same subtype. J Gastroenterol Hepatol 3: 215–222

    Article  Google Scholar 

  7. Feitelson MA, Millman I, Halbherr T, Simmons H, Blumberg S (1986) A new identified hepatitis B type virus in tree squirrels. Proc Natl Acad Sci USA 83: 2233–2237

    Article  PubMed  CAS  Google Scholar 

  8. Fujiyama A, Miyanohara A, Nozaki C, Yoneyama T, Ohtomo N, Matsubara K (1983) Cloning and structural analyses of hepatitis B virus DNAs subtype adr. Nucleic Acids Res 11: 4601–4610

    Article  PubMed  CAS  Google Scholar 

  9. Galibert F, Mandart E, Fitoussi F, Tiollais P, Charnay P (1979) Nucleotide sequence of the hepatitis B virus genome (subtype ayw) cloned in E. coli. Nature 281: 646–650

    CAS  Google Scholar 

  10. Galibert F, Chen TN, Mandart E (1982) Nucleotide sequence of a cloned wood- chuck hepatitis virus genome: comparison with the hepatitis B virus sequence. J Virol 41: 51–65

    PubMed  CAS  Google Scholar 

  11. Hein J (1990) Unified approach to alignment and phylogenies. Methods Enzymol 183: 626–645

    Article  PubMed  CAS  Google Scholar 

  12. Kobayashi M, Koike K (1984) complete nucleotide sequence of hepatitis B virus DNA of subtype adr and its conserved gene organization. Gene 30: 227–232

    Google Scholar 

  13. Kodama K, Ogasawara N, Yoshikawa H, Murakami S (1985) Nucleotide sequence of a cloned woodchuck hepatitis virus genome: evolutional relationship between hepadnaviruses. J Virol 56: 978–986

    PubMed  CAS  Google Scholar 

  14. Lai ME, Melis A, Mazzoleni AP, Uccheddu P, Balestrieri A (1991) Sequence analysis of Hepatitis B virus genome of a new mutant of ayw subtype isolated in Sardinia. Nucleic Acids Res 19: 5078–5078

    Article  PubMed  CAS  Google Scholar 

  15. Marion PL, Knight SS, Salazar FH, Popper H, Robinson WS (1980) A virus in Beechey ground squirrels that is related to hepatitis B virus of humans. Proc Natl Acad Sci USA 77: 2941–2945

    Article  PubMed  CAS  Google Scholar 

  16. Mason WS, Seal G, Summers J (1980) Virus of Pekin ducks with structural and biological relatedness to human hepatitis B virus. J Virol 36: 829–836

    PubMed  CAS  Google Scholar 

  17. Mimms L, Floreani M, Fields H, Decker R (1991) Differentiation of hepatitis B virus subtypes from humans and a gibbon (Hylobates lar) using monoclonal antibodies against the preS domain. In: Hollinger BF, Lemon SM, Margolis HS (eds) Viral hepatitis and liver disease. Williams and Wilkins, Baltimore, pp 202–207

    Google Scholar 

  18. Norder H, Hammas B, Magnius LO (1990) Typing of hepatitis B virus genomes by a simplified polymerase chain reaction. J Med Virol 31: 215–221

    Article  PubMed  CAS  Google Scholar 

  19. Norder H, Hammas B, Lofdahl S, Courouce A-M, Magnius LO (1992) Comparison of the aminoacid sequence of nine different serotypes of HBsAg and genomic classification of the corresponding HBV strains. J Gen Virol 73: 1201–1208

    Article  PubMed  CAS  Google Scholar 

  20. Norder H, Hammas B, Lee S-D, Bile K, Courouce A-M, Mushahwar I, Magnius LO (1993) Genetic relatedness of hepatitis B viral strains of diverse geographic origin and natural variations in the primary structure of the surface antigen. J Gen Virol 74: 1341–1348

    Article  PubMed  CAS  Google Scholar 

  21. Okamoto H, Imai M, Shimozaki M, Hoshi Y, Iizuka H, Gotanda T, Tsuda F, Miyakawa Y, Mayumi M (1986) Nucleotide sequence of a cloned hepatitis B virus genome subtype ayr: comparison with genomes of the other three subtypes. J Gen Virol 67: 2305–2314

    Article  PubMed  CAS  Google Scholar 

  22. Okamoto H, Imai M, Kametani M, Nakamura T, Mayumi M (1987) Genomic heterogeneity of hepatitis B virus in a 54-year old woman who contracted the infection through materno-fetal transmission. Jpn J Exp Med 57: 231–236

    PubMed  CAS  Google Scholar 

  23. Okamoto H, Tsuda F, Sakugawa H, Sastrosoewignjo RI, Imai M, Miyakawa Y, Mayumi M (1988) Typing hepatitis B virus by homology in nucleotide sequence: comparison of surface antigen subtypes. J Gen Virol 69: 2575–2583

    Article  PubMed  CAS  Google Scholar 

  24. Ono Y, Ohda H, Sasada H, Igarashi K, Sugino Y, Nishioka K (1983) The complete nucleotide sequences of the cloned hepatitis B virus DNA; subtype adr and adw. Nucleic Acids Res 11: 1747–1757

    Article  PubMed  CAS  Google Scholar 

  25. Orito E, Mizokami M, Ina Y, Moriyama EN, Kameshima N, Yamamoto M, Gojobori T (1989) Host-independent evolution and a genetic classification of the hepadnavirus family based on nucleotide sequences. Proc Natl Acad Sci USA 86: 7059–7062

    Article  PubMed  CAS  Google Scholar 

  26. Renbao G, Meijin C, Lueping S, Suwen Q, Zaiping L (1987) The complete nucleotide sequence of the cloned DNA of hepatitis B virus subtype adr in pADR- 1. Sci Sin Ser B 30: 507–521

    Google Scholar 

  27. Rho HM, Kim K, Hyun SW, Kim YS (1989) The nucleotide sequence and reading frames of a mutant hepatitis B virus subtype adr. Nucleic Acids Res 17: 2124

    Article  PubMed  CAS  Google Scholar 

  28. Sastrosoewignjo R, Okamoto H, Mayumi M, Warsa UC, Sujudi (1985) The complete nucleotide sequence of an HBV DNA clone of subtype as (pRTB299) from Indonesia. ICMR Ann 5: 39–50

    Google Scholar 

  29. Sastrosoewignjo RI, Omi S, Okamoto H, Mayumi M, Rustam M, Sujudi (1987) The complete nucleotide sequence of HBV DNA. clone of subtype adw (pMND122) from Menado in Sulawesi Island Indonesia. ICMR Ann 7: 51–60

    Google Scholar 

  30. Sastrosoewignjo RI, Sandjaja B, Okamoto H (1991) Molecular epidemiology of hepatitis B virus in Indoesia. J Gastroenterol Hepatol 6: 491–498

    Article  PubMed  CAS  Google Scholar 

  31. Seeger C, Ganem D, Varmus HE (1984) Nucleotide sequence of an infectious molecularly cloned genome of ground squirrel hepatitis virus. J Virol 51: 367–375

    PubMed  CAS  Google Scholar 

  32. Shafritz DA, Shouval D, Sherman HI, Hadziyannis SJ, Kew MC (1981) Integration of hepatitis virus DNA into the genome of liver cell in chronic liver disease and hepatocellular carcinoma. N Engl J Med 305: 1067–1073

    Article  PubMed  CAS  Google Scholar 

  33. Sprengel R, Kalets EF, Will H (1988) Isolation and characterization of a hepatitis B virus endemic in herons. J Virol 62: 3832–3839

    PubMed  CAS  Google Scholar 

  34. Stevens CE, Neurath RA, Beasly RP, Szmuness W (1979) HBeAg and anti-HBe detection by radioimmunoassay. Correlation with vertical transmission of hepatitis B virus in Taiwan. J Med Virol 3: 237–241

    Article  PubMed  CAS  Google Scholar 

  35. Summers J, Smolec JM, Snyder R (1978) A virus similar to human hepatitis B virus associated with hepatitis and hepatoma in woodchucks. Proc Natl Acad Sci USA 75: 4533–4537

    Article  PubMed  CAS  Google Scholar 

  36. Tabor A, Bayley AC, Cairns J, Peeleu L, Gerety RJ (1985) Horizontal transmission of hepatitis B virus among children and adults in five rural villages in Zambia. J Med Virol 15: 113–120

    Article  PubMed  CAS  Google Scholar 

  37. Tong S, Li J, Vitvitski L, Trepo C (1990) Active hepatitis B virus replication in the presence of anti-HBe is associated with viral variants containing an inactive pre-C region. Virology 176: 596–603

    Article  PubMed  CAS  Google Scholar 

  38. Valenzuela P, Quiroga M, Zaldivar J, Gray P, Rutter WJ (1980) The nucleotide sequence of the hepatitis B viral genome and the identification of the major viral genes. In: Fields B, Jalnisch R, Fox C (eds) ICN-UCLA symposia on animal virus genetics. Academic Press, New York, pp 57–70

    Google Scholar 

  39. Vaudin M, Wolstenholme AJ, Tsiquaye KN, Zuckerman AJ, Harrison TJ (1988) The complete nucleotide sequence of the genome of a hepatitis B virus isolated from a naturally infected chimpanzee. J Gen Virol 69: 1383–1389

    Article  PubMed  CAS  Google Scholar 

Download references

Author information

Authors and Affiliations

  1. Department of Virology, The National Bacteriological Laboratory, S-10521, Stockholm, Sweden

    Heléne Norder & Dr. L. O. Magnius

  2. Institute National Transfusion Sanguine, Paris, France

    Anne-Marie Couroucé

Authors
  1. Heléne Norder
    View author publications

    You can also search for this author in PubMed Google Scholar

  2. Anne-Marie Couroucé
    View author publications

    You can also search for this author in PubMed Google Scholar

  3. Dr. L. O. Magnius
    View author publications

    You can also search for this author in PubMed Google Scholar

Editor information

Editors and Affiliations

  1. Institut für Medizinische Virologie, Justus-Liebig-Universität Giessen, Giessen, Federal Republic of Germany

    W. H. Gerlich

Rights and permissions

Reprints and permissions

Copyright information

© 1993 Springer-Verlag

About this paper

Cite this paper

Norder, H., Couroucé, AM., Magnius, L.O. (1993). Complete nucleotide sequences of six hepatitis B viral genomes encoding the surface antigen subtypes ayw4, adw4q −, and adrq − and their phylogenetic classification. In: Gerlich, W.H. (eds) Research in Chronic Viral Hepatitis. Archives of Virology Supplementum, vol 8. Springer, Vienna. https://doi.org/10.1007/978-3-7091-9312-9_19

Download citation

  • DOI: https://doi.org/10.1007/978-3-7091-9312-9_19

  • Publisher Name: Springer, Vienna

  • Print ISBN: 978-3-211-82497-9

  • Online ISBN: 978-3-7091-9312-9

  • eBook Packages: Springer Book Archive

Publish with us

Policies and ethics

Search

Navigation