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Sequence comparison of the right end of fowl adenovirus genomes

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Abstract

The nucleotide sequence at the right end of the genomes of fowl adenoviruses (FAdVs) representing species groups C (FAdV-4 CA and FAdV-10 C-2B), D (FAdV-2 CA), and E (FAdV-8 CA) was determined and analyzed and compared to FAdV-1 (species group A virus) and FAdV-9 A-2A (species group B virus). High nucleotide sequence identities and amino acid identities (74–94%) were found among viruses in the same species group. Homologues to known open reading frames (ORFs) of the right end of the reported FAdV genomes, such as lipase and Gam-1, were also found in all analyzed viral genomes. Homologues to a few FAdV ORFs were found in viruses other than FAdVs as well. Several novel FAdV ORFs were also found. Most identified ORFs have unknown function and thus further studies are necessary to establish their importance in virus replication. ORF content within the right end of the FAdV genomes varied among FAdVs, while the gene order and orientation of shared ORFs are conserved between different FAdVs.

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References

  1. 1.

    L. Zsak, J. Kisary, Intervirology 22, 110 (1984)

  2. 2.

    S. Chiocca, R. Kurzbauer, G. Schaffner, A. Baker, V. Mautner, M. Cotten, J. Virol. 70, 2939 (1996)

  3. 3.

    J.A. Pallister, M. Sheppard, Vet. Microbiol. 48, 155 (1996)

  4. 4.

    M. Sheppard, W. Werner, E. Tsatas, R. McCoy, S. Prowse, M. Johnson, Arch. Virol. 143, 915 (1998)

  5. 5.

    D. Ojkic, É. Nagy, J. Gen. Virol. 81, 1833 (2000)

  6. 6.

    J.C. Corredor, P.J. Krell, É. Nagy, Virus Genes 33, 95 (2006)

  7. 7.

    J.X. Cao, P.J. Krell, É. Nagy, J. Gen. Virol. 79, 2507 (1998)

  8. 8.

    H. Lehrmann, M. Cotten, J. Virol. 73, 6517 (1999)

  9. 9.

    F. Le Goff, I. Mederle-Mangeot, A. Jestin, P. Langlois, J. Gen. Virol. 86, 2019 (2005)

  10. 10.

    A.J. Davison, M. Benkö, B. Harrach, J. Gen. Virol. 84, 2895 (2003)

  11. 11.

    A.-I. Michou, H. Lehrmann, M. Saltik, M. Cotten, J. Virol. 73, 1399 (1999)

  12. 12.

    A. François, N. Eterradossi, B. Delmas, V. Payet, P. Langlois, J. Virol. 75, 5288 (2001)

  13. 13.

    D. Ojkic, É. Nagy, Virology 283, 197 (2001)

  14. 14.

    D. Ojkic, P.J. Krell, É. Nagy, Virology 302, 274 (2002)

  15. 15.

    M.A. Johnson, C. Pooley, J.W. Lowenthal, Dev. Comp. Immunol. 24, 343 (2000)

  16. 16.

    H.S. Alexander, P. Huber, J. Cao, P.J. Krell, É. Nagy, J. Virol. Methods 74, 9 (1998)

  17. 17.

    C. Ramu, H. Sugawara, T. Koike, R. Lopez, T.J. Gibson, D.G. Higgins, J.D. Thompson, Nucleic Acids Res. 31, 3497 (2003)

  18. 18.

    E.A. Herniou, T. Luque, X. Chen, J.M. Vlak, D. Winstanley, J.S. Cory, D.R. O’Reilly, J. Virol. 75, 8117 (2001)

  19. 19.

    A. Bateman, L. Coin, R. Durbin, R.D. Finn, V. Hollich, S. Griffiths-Jones, A. Khanna, M. Marshall, S. Moxon, E.L. Sonnhammer, D.J. Studholme, C. Yeats, S.R. Eddy, Nucleic Acids Res. 32, D138 (2004)

  20. 20.

    J. Schultz, F. Milpetz, P. Bork, C.P. Ponting, Proc. Natl. Acad. Sci. USA 95, 5857 (1998)

  21. 21.

    A. Krogh, B. Larsson, G. von Heijne, E.L. Sonnhammer, J. Mol. Biol. 305, 567 (2001)

  22. 22.

    J.D. Bendtsen, H. Nielsen, G. von Heijne, S. Brunak, J. Mol. Biol. 340, 783 (2004)

  23. 23.

    V.V. Solovyev, A.A. Salamov, C.B. Lawrence, in The Second International Conference on Intelligent Systems for Molecular Biology. The Prediction of Human Exons by Oligonucleotide Composition and Discriminant Analysis of Spliceable Open Reading Frames, ed. by R. Altman, D. Brutlag, R. Karp, R. Latrop, D. Searls (AAAI Press, Menlo Park, CA, 1994), pp. 354–362

  24. 24.

    M.Q. Zhang, Genome Res. 8, 319 (1998)

  25. 25.

    G. Benson, Nucleic Acids Res. 27, 573 (1999)

  26. 26.

    S. Washietl, F. Eisenhaber, BMC Bioinformatics 4, 55 (2003)

  27. 27.

    J.D. Schrag, M. Cygler, Meth. Enzymol. 284, 85 (1997)

  28. 28.

    A.J. Davison, A. Dolan, P. Akter, C. Addison, D.J. Dargan, D.J. Alcendor, D.J. McGeoch, G.S. Hayward, J. Gen. Virol. 84, 17 (2003)

  29. 29.

    J. Bollinger, C. Park, S. Harayama, G. Hazelbauer, Proc. Natl. Acad. Sci. USA 81, 3287 (1984)

  30. 30.

    J. Kuzio, M.N. Pearson, S.H. Harwood, C.J. Funk, J.T. Evans, J.M. Slavicek, G.F. Rohrmann, Virology 253, 17 (1999)

  31. 31.

    J.M. Higgins, H. Wiedermann, R. Timpl, K.B. Reid, J. Immunol. 155, 5777 (1995)

  32. 32.

    W.H. Wilson, D.C. Schroeder, M.J. Allen, M.T.G. Holden, J. Parkhill, B.G. Barrell, C. Churcher, N. Hamlin, K. Mungall, H. Norbertczak, M.A. Quail, C. Price, E. Rabbinowitsch, D. Walker, M. Craigon, D. Roy, P. Ghazal, Science 309, 1090 (2005)

  33. 33.

    K. Erny, J. Pallister, M. Sheppard, Arch. Virol. 140, 491 (1995)

  34. 34.

    D. Ojkic, É. Nagy, Vaccine 22, 42 (2003)

  35. 35.

    F.-G. Hanisch, C.A. Reis, H. Clausen, H. Paulsen, Glycobiology 11, 731 (2001)

  36. 36.

    E.R. Tulman, C.L. Afonso, Z. Lu, L. Zsák, D.L. Rock, G.F. Cutis, J. Virol. 74, 7980 (2000)

  37. 37.

    J.X. Cao, P.J. Krell, É. Nagy, Virus Genes 20, 135 (2000)

  38. 38.

    L.F. Lee, P. Wu, D. Sui, D. Ren, J. Kamil, H.J. Kung, R.L. Witter, Proc. Natl. Acad. Sci. USA 97, 6091 (2000)

  39. 39.

    J.P. Kamil, B.K. Tischer, S. Trapp, V.K. Nair, N. Osterrieder, H.J. Kung, J. Virol. 79, 6984 (2005)

  40. 40.

    J.B. Glotzer, M. Saltik, S. Chiocca, A. Michou, P. Moseley, M. Cotten, Nature 407, 207 (2000)

  41. 41.

    S. Chiocca, V. Kurtev, R. Colombo, R. Boggio, M.T. Sciurpi, G. Brosch, C. Seiser, G.F. Draetta, M. Cotten, Curr. Biol. 12, 594 (2002)

  42. 42.

    R. Boggio, R. Colombo, R.T. Hay, G.F. Draetta, S. Chiocca, Mol. Cell. 16, 549 (2004)

  43. 43.

    D. Corda, M. Di Girolamo, Sci. STKE 163, PE53 (2002)

  44. 44.

    R.T. Premont, A. Claing, N. Vitale, S.J. Perry, R.J. Lefkowitz, J. Biol. Chem. 275, 22373 (2000)

  45. 45.

    H.C. Liu, H.J. Kung, J.E. Fulton, R.W. Morgan, H.H. Cheng, Proc. Natl. Acad Sci. USA 98, 9203 (2001)

  46. 46.

    A. Skaletskaya, L.M. Bartle, T. Chittenden, A.L. McCormick, E.S. Mocarski, V.S. Goldmacher, Proc. Natl. Acad. Sci. USA 98, 7829 (2001)

  47. 47.

    J. Pallister, P.J. Wright, M. Sheppard, J. Virol. 70, 5115 (1996)

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Acknowledgments

This work was supported by the Natural Sciences and Engineering Research Council of Canada (NSERC) and the Ontario Ministry of Agriculture, Food and Rural Affairs (OMAFRA), Canada. Thanks go to Nadejda Romanova for providing technical support for some of the sequencing.

Author information

Correspondence to Éva Nagy.

Additional information

Amalia Garceac and Juan Carlos Corredor share equally with first authorship. The sequences reported in this work have been deposited in GenBank with accession numbers EF458160-EF458163.

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Corredor, J.C., Garceac, A., Krell, P.J. et al. Sequence comparison of the right end of fowl adenovirus genomes. Virus Genes 36, 331–344 (2008). https://doi.org/10.1007/s11262-007-0194-9

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Keywords

  • Fowl adenovirus (FAdV)
  • Sequence analysis
  • Nucleotide and amino acid sequence identities
  • ORF arrangement