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Virus Genes

, Volume 47, Issue 3, pp 550–555 | Cite as

Complete genome sequence of Cannes 8 virus, a new member of the proposed family “Marseilleviridae”

  • Sarah Aherfi
  • Isabelle Pagnier
  • Ghislain Fournous
  • Didier Raoult
  • Bernard La Scola
  • Philippe Colson
Article

Abstract

Marseillevirus is a giant virus that was isolated in 2007 by culturing water collected from a cooling tower in Paris, France, on Acanthamoeba polyphaga. Since then, five other marseilleviruses have been detected in environmental or human samples. The genomes of two of the six marseilleviruses have been described in detail. We describe herein the genome of Cannes 8 virus, a new member of the proposed family “Marseilleviridae.” Cannes 8 virus was isolated from water collected from a cooling tower in Cannes in southeastern France. Its genome is a circular double-stranded DNA molecule with 374,041 base pairs, larger than the Marseillevirus and Lausannevirus genomes. This genome harbors 484 open reading frames predicted to encode proteins with sizes ranging from 50 to 1,537 amino acids, among which 380 (79 %) and 272 (56 %) are bona fide orthologs of Marseillevirus and Lausannevirus proteins, respectively. In addition, 407 and 336 predicted proteins have significant hits against Marseillevirus and Lausannevirus proteins, respectively, and 294 proteins are shared by all three marseilleviruses. The Cannes 8 virus genome has a high level of collinearity (for 96 % of orthologs) with the Marseillevirus genome. About two-thirds of the Cannes 8 virus gene repertoire is composed of family ORFans. The description and annotation of the genomes of new marseilleviruses that will undoubtedly be recovered from environmental or clinical samples will be helpful to increase our knowledge of the pan-genome of the family “Marseilleviridae.”

Keywords

Cannes 8 virus Marseilleviridae Giant virus Megavirales Nucleocytoplasmic large DNA virus Acanthamoeba 

Notes

Conflict of interest

The authors declare that there is no potential conflict of interest or financial disclosure. Sarah Aherfi receives a grant from the Méditerranée Infection foundation.

References

  1. 1.
    B. La Scola, S. Audic, C. Robert, L. Jungang, X. de Lamballerie, M. Drancourt, R. Birtles, J.M. Claverie, D. Raoult, Science 299, 2033 (2003)PubMedCrossRefGoogle Scholar
  2. 2.
    M. Boyer, N. Yutin, I. Mickaël Boyer, N. Yutin, I. Pagnier, L. Barrassi, G. Fournous, L. Espinosa, C. Robert, S. Azza, S. Sun, M.G. Rossmann, M.S. Monti, B. La Scola, E.V. Koonin, D. Raoult, Proc. Natl. Acad. Sci. USA 106, 21848 (2009)PubMedCrossRefGoogle Scholar
  3. 3.
    B. La Scola, A. Campocasso, R. N’Dong, G. Fournous, L. Barrassi, C. Flaudrops, D. Raoult, Intervirology 53, 344 (2010)PubMedCrossRefGoogle Scholar
  4. 4.
    P. Colson, D. Raoult, Megavirales composing a fourth domain of life: Mimiviridae and Marseilleviridae, in Viruses: essential agents of life, ed. by G. Witzany (Springer, Dordrecht, 2012)Google Scholar
  5. 5.
    M.G. Fischer, M.J. Allen, W.H. Wilson, C.A. Suttle, Proc. Natl. Acad. Sci. USA 107, 19508 (2010)PubMedCrossRefGoogle Scholar
  6. 6.
    D. Arslan, M. Legendre, V. Seltzer, C. Abergel, J.M. Claverie, Proc. Natl. Acad. Sci. USA 108, 17486 (2011)PubMedCrossRefGoogle Scholar
  7. 7.
    D. Raoult, S. Audic, C. Robert, C. Abergel, P. Renesto, H. Ogata, B. La Scola, M. Suzan, J.M. Claverie, Science 306, 1344 (2004)PubMedCrossRefGoogle Scholar
  8. 8.
    P. Colson, I. Pagnier, N. Yoosuf, G. Fournous, B. La Scola, D. Raoult, Arch. Virol. 158, 915 (2013)PubMedCrossRefGoogle Scholar
  9. 9.
    N. Yutin, E.V. Koonin, Virol. J. 9, 161 (2012)PubMedCrossRefGoogle Scholar
  10. 10.
    P. Colson, X. de Lamballerie, G. Fournous, D. Raoult, Intervirology 55, 321 (2012)PubMedCrossRefGoogle Scholar
  11. 11.
    V. Thomas, C. Bertelli, F. Collyn, N. Casson, A. Telenti, A. Goesmann, A. Croxatto, G. Greub, Environ. Microbiol. 13, 1454 (2011)PubMedCrossRefGoogle Scholar
  12. 12.
    M. Boughalmi, H. Saadi, I. Pagnier, P. Colson, G. Fournous, D. Raoult, B. La Scola, Environ. Microbiol. 15, 2000 (2012)Google Scholar
  13. 13.
    J.C. Lagier, F. Armougom, M. Million, P. Hugon, I. Pagnier, C. Robert, F. Bittar, G. Fournous, G. Gimenez, M. Maraninchi, J.F. Trape, E.V. Koonin, B. La Scola, D. Raoult, Clin. Microbiol. Infect. 18, 1185 (2012)PubMedGoogle Scholar
  14. 14.
    N. Popgeorgiev, M. Boyer, L. Fancello, S. Monteil, C. Robert, R. Rivet, R. Rivet, C. Nappez, S. Azza, J. Chiaroni, D. Raoult, C. Desnues, J. Infect. Dis. (2013) [Epub ahead of print]Google Scholar
  15. 15.
    M. Margulies, M. Egholm, W.E. Altman, S. Attiya, J.S. Bader, L.A. Bemben, J. Berka, M.S. Braverman, Y.J. Chen, Z. Chen, S.B. Dewell, L. Du, J.M. Fierro, X.V. Gomes, B.C. Godwin, W. He, S. Helgesen, C.H. Ho, G.P. Irzyk, S.C. Jando, M.L. Alenquer, T.P. Jarvie, K.B. Jirage, J.B. Kim, J.R. Knight, J.R. Lanza, J.H. Leamon, S.M. Lefkowitz, M. Lei, J. Li, K.L. Lohman, H. Lu, V.B. Makhijani, K.E. McDade, M.P. McKenna, E.W. Myers, E. Nickerson, J.R. Nobile, R. Plant, B.P. Puc, M.T. Ronan, G.T. Roth, G.J. Sarkis, J.F. Simons, J.W. Simpson, M. Srinivasan, K.R. Tartaro, A. Tomasz, K.A. Vogt, G.A. Volkmer, S.H. Wang, Y. Wang, M.P. Weiner, P. Yu, R.F. Begley, J.M. Rothberg, Nature 437, 376 (2005)PubMedGoogle Scholar
  16. 16.
    J. Besemer, M. Borodovsky, Nucleic Acids Res. 1, 33 (2005)Google Scholar
  17. 17.
    I.K. Jordan, I.B. Rogozin, Y.I. Wolf, E.V. Koonin, Genome Res. 12, 962 (2002)PubMedGoogle Scholar
  18. 18.
    M. Lechner, S. Findeiss, L. Steiner, M. Marz, P.F. Stadler, S.J. Prohaska, BMC Bioinformatics 28, 12 (2011)Google Scholar
  19. 19.
    S.F. Altschul, W. Gish, W. Miller, E.W. Myers, D.J. Lipman, J. Mol. Biol. 215, 403 (1990)PubMedGoogle Scholar
  20. 20.
    A. Marchler-Bauer, C. Zheng, F. Chitsaz, M.K. Derbyshire, L.Y. Geer, R.C. Geer, N.R. Gonzales, M. Gwadz, D.I. Hurwitz, C.J. Lanczycki, F. Lu, S. Lu, G.H. Marchler, J.S. Song, N. Thanki, R.A. Yamashita, D. Zhang, S.H. Bryant, Nucleic Acids Res. 41, D348 (2013)PubMedCrossRefGoogle Scholar
  21. 21.
    R.C. Edgar, Nucleic Acids Res. 19, 1792 (2004)CrossRefGoogle Scholar
  22. 22.
    P. Schattner, A.N. Brooks, T.M. Lowe, Nucleic Acids Res. 1, W686 (2005)CrossRefGoogle Scholar
  23. 23.
    D. Laslett, B. Canback, Nucleic Acids Res. 2, 11 (2004)CrossRefGoogle Scholar
  24. 24.
    K. Tamura, D. Peterson, N. Peterson, G. Stecher, M. Nei, S. Kumar, Mol. Biol. Evol. 28, 2731 (2011)PubMedCrossRefGoogle Scholar
  25. 25.
    J. Castresana, Mol. Biol. Evol. 17, 540 (2000)PubMedCrossRefGoogle Scholar
  26. 26.
    F. Marciano-Cabral, G. Cabral, Clin. Microbiol. Rev. 16, 273 (2003)PubMedCrossRefGoogle Scholar
  27. 27.
    J. Barker, M.R. Brown, Microbiology 140, 1253 (1994)PubMedCrossRefGoogle Scholar
  28. 28.
    H. Saadi, I. Pagnier, P. Colson, J.K. Cherif, M. Beji, M. Boughalmi, S. Azza, N. Armstrong, C. Robert, G. Fournous, B. La Scola, D. Raoult, Clin. Infect. Dis. 57, e127 (2013)Google Scholar
  29. 29.
    G. Greub, D. Raoult, Clin. Microbiol. Rev. 17, 413 (2004)PubMedCrossRefGoogle Scholar
  30. 30.
    P. Colson, L. Fancello, G. Gimenez, F. Armougom, C. Desnues, G. Fournous, N. Yoosuf, M. Million, B. La Scola, D. Raoult, J. Clin. Virol. 57, 191 (2013)PubMedCrossRefGoogle Scholar
  31. 31.
    D. Raoult, M. Boyer, Intervirology 53, 321 (2010)PubMedCrossRefGoogle Scholar
  32. 32.
    C. Moliner, P.E. Fournier, D. Raoult, FEMS Microbiol. Rev. 34, 281 (2010)PubMedCrossRefGoogle Scholar
  33. 33.
    K. Georgiades, D. Raoult, Frontiers Cell. Infect. Microbiol. 2, 60 (2012)Google Scholar

Copyright information

© Springer Science+Business Media New York 2013

Authors and Affiliations

  • Sarah Aherfi
    • 1
  • Isabelle Pagnier
    • 2
  • Ghislain Fournous
    • 1
  • Didier Raoult
    • 1
    • 2
  • Bernard La Scola
    • 1
    • 2
  • Philippe Colson
    • 1
    • 2
  1. 1.Unité de Recherche sur les Maladies Infectieuses et Tropicales Emergentes (URMITE), UM63 CNRS 7278 IRD 198 INSERM U1095, Facultés de Médecine et de PharmacieAix-Marseille UniversitéMarseille Cedex 05France
  2. 2.Institut Hospitalo-Universitaire (IHU) Méditerranée Infection, Pôle des Maladies Infectieuses et Tropicales Clinique et Biologique, Fédération de Bactériologie-Hygiène-VirologieCentre Hospitalo-Universitaire Timone, Assistance Publique-Hôpitaux de MarseilleMarseilleFrance

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