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Complete genome sequence of Courdo11 virus, a member of the family Mimiviridae

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Abstract

Giant viruses of amoebae were discovered 10 years ago and led to the description of two new viral families: Mimiviridae and Marseilleviridae. These viruses exhibit remarkable features, including large capsids and genomes that are similar in size to those of small bacteria and their large genetic repertoires include genes that are unique among viruses. The family Mimiviridae has grown during the past decade since the discovery of its initial member, Mimivirus, and continues to expand. Here, we describe the genome of a new giant virus that infects Acanthamoeba spp., Courdo11 virus, isolated in 2010 by inoculating Acanthamoeba spp. with freshwater collected from a river in southeastern France. The Courdo11 virus genome is a double stranded DNA molecule composed of 1,245,674 nucleotides. The comparative analyses of Courdo11 virus with the genomes of other giant viruses showed that it belongs to lineage C of mimiviruses of amoebae, being most closely related to Megavirus chilensis and LBA 111, the first mimivirus isolated from a human. Major characteristics of the M. chilensis genome were identified in the Courdo11 virus genome, found to encode three more tRNAs. Genomic architecture comparisons mirrored previous findings that showed conservation of collinear regions in the middle part of the genome and diversity towards the extremities. Finally, fourteen ORFans were identified in the Courdo11 virus genome, suggesting that the pan-genome of mimiviruses of amoeba might reach a plateau.

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References

  1. D. Raoult, S. Audic, C. Robert, C. Abergel, P. Renesto, H. Ogata, B. La Scola, M. Suzan, J.M. Claverie, Science 306, 1344–1350 (2004)

    Article  CAS  PubMed  Google Scholar 

  2. M. Boyer, N. Yutin, I. Pagnier, L. Barrassi, G. Fournous, L. Espinosa, C. Robert, S. Azza, S. Sun, M.G. Rossmann, M. Suzan-Monti, B. La Scola, E.V. Koonin, D. Raoult, Proc. Natl. Acad. Sci. USA 106, 21848–21853 (2009)

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  3. V. Thomas, C. Bertelli, F. Collyn, N. Casson, A. Telenti, A. Goesmann, A. Croxatto, G. Greub, Environ. Microbiol. 13, 1454–1466 (2011)

    Article  CAS  PubMed  Google Scholar 

  4. D. Arslan, M. Legendre, V. Seltzer, C. Abergel, J.M. Claverie, Proc. Natl. Acad. Sci. USA 108, 17486–17491 (2011)

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  5. N. Yoosuf, N. Yutin, P. Colson, S.A. Shabalina, I. Pagnier, C. Robert, S. Azza, T. Klose, J. Wong, M.G. Rossmann, B. La Scola, D. Raoult, E.V. Koonin, Genome Biol. Evol. 4, 1324–1330 (2012)

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  6. B. La Scola, A. Campocasso, R. N’Dong, G. Fournous, L. Barrassi, C. Flaudrops, D. Raoult, Intervirology 53, 344–353 (2010)

    Article  PubMed  Google Scholar 

  7. P. Colson, X. de Lamballerie, G. Fournous, D. Raoult, Intervirology 55, 321–332 (2012)

    Article  PubMed  Google Scholar 

  8. P. Colson, X. de Lamballerie, N. Yutin, S. Asgari, Y. Bigot, D.K. Bideshi, X.W. Cheng, B.A. Federici, J.L. Van Etten, E.V. Koonin, B. La Scola, D. Raoult, Arch. Virol. (2013). doi:10.1186/1743-422X-10-158

    Google Scholar 

  9. N. Yutin, P. Colson, D. Raoult, E.V. Koonin, Virol. J. 10, 106 (2013)

    Article  PubMed Central  PubMed  Google Scholar 

  10. N. Yutin, E.V. Koonin, Virol. J. 9, 161 (2012)

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  11. N. Philippe, M. Legendre, G. Doutre, Y. Coute, O. Poirot, M. Lescot, D. Arslan, V. Seltzer, L. Bertaux, C. Bruley, J. Garin, J.M. Claverie, C. Abergel, Science 341, 281–286 (2013)

    Article  CAS  PubMed  Google Scholar 

  12. D. Raoult, P. Forterre, Nat. Rev. Microbiol. 6, 315–319 (2008)

    Article  CAS  PubMed  Google Scholar 

  13. E.V. Koonin, N. Yutin, Intervirology 53, 284–292 (2010)

    Article  PubMed Central  PubMed  Google Scholar 

  14. I. Pagnier, D.G. Reteno, H. Saadi, M. Boughalmi, M. Gaia, M. Slimani, T. Ngounga, M. Bekliz, P. Colson, D. Raoult, B. La Scola, Intervirology 56, 354–363 (2013)

    Article  PubMed  Google Scholar 

  15. M.G. Fischer, M.J. Allen, W.H. Wilson, C.A. Suttle, Proc. Natl. Acad. Sci. USA 107, 19508–19513 (2010)

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  16. C. Desnues, B. La Scola, N. Yutin, G. Fournous, C. Robert, S. Azza, P. Jardot, S. Monteil, A. Campocasso, E.V. Koonin, D. Raoult, Proc. Natl. Acad. Sci. USA 109, 18078–18083 (2012)

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  17. N. Yutin, D. Raoult, E.V. Koonin, Virol. J. 10, 158 (2013)

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  18. P. Colson, B. La Scola, D. Raoult, Intervirology 56, 376–385 (2013)

    Article  PubMed  Google Scholar 

  19. P. Colson, D. Raoult, Megavirales composing a fourth domain of life: Mimiviridae and Marseilleviridae, Viruses: essential agents of life (Springer, Dordrecht, 2012)

    Google Scholar 

  20. H. Saadi, I. Pagnier, P. Colson, J. Kanoun Cherif, M. Beji, M. Boughalmi, S. Azza, N. Armstrong, C. Robert, G. Fournous, B. La Scola, D. Raoult, Clin. Infect. Dis. 57, e127–e134 (2013)

    Article  PubMed  Google Scholar 

  21. H. Saadi, D.G. Ikanga Reteno, P. Colson, S. Aherfi, P. Minodier, I. Pagnier, F. Fenollar, C. Robert, D. Raoult, B. La Scola, Intervirology 56, 424–429 (2013)

    Article  PubMed  Google Scholar 

  22. A. Vincent, B. La Scola, L. Papazian, Intervirology 53, 304–309 (2010)

    Article  PubMed  Google Scholar 

  23. 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(3), 191–200 (2013)

    Article  CAS  PubMed  Google Scholar 

  24. B. La Scola, C. Desnues, I. Pagnier, C. Robert, L. Barrassi, G. Fournous, M. Merchat, M. Suzan-Monti, P. Forterre, E. Koonin, D. Raoult, Nature 455, 100–104 (2008)

    Article  PubMed  Google Scholar 

  25. 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, 376–380 (2005)

    CAS  PubMed Central  PubMed  Google Scholar 

  26. J. Besemer, M. Borodovsky, Nucleic Acids Res. 33, W451–W454 (2005)

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  27. A.Y. Ogurtsov, M.A. Roytberg, S.A. Shabalina, A.S. Kondrashov, Bioinformatics 18, 1703–1704 (2002)

    Article  CAS  PubMed  Google Scholar 

  28. A.C. Darling, B. Mau, F.R. Blattner, N.T. Perna, Genome Res. 14, 1394–1403 (2004)

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  29. A.L. Delcher, S.L. Salzberg, A.M. Phillippy, Curr. Protoc. Bioinformatics (2003). doi:10.1002/0471250953.bi1003s00. chapter 10:Unit 10.3

    PubMed  Google Scholar 

  30. I.K. Jordan, I.B. Rogozin, Y.I. Wolf, E.V. Koonin, Genome Res. 12, 962–968 (2002)

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  31. M. Lechner, S. Findeiss, L. Steiner, M. Marz, P.F. Stadler, S.J. Prohaska, BMC Bioinformatics 12, 124 (2011)

    Article  PubMed Central  PubMed  Google Scholar 

  32. P. Schattner, A.N. Brooks, T.M. Lowe, Nucleic Acids Res. 33, W686–W689 (2005)

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  33. Y. Yin, D. Fischer, BMC Genomics 9, 24 (2008)

    Article  PubMed Central  PubMed  Google Scholar 

  34. R.C. Edgar, Nucleic Acids Res. 32, 1792–1797 (2004)

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  35. S. Capella-Gutierrez, J.M. Silla-Martinez, T. Gabaldon, Bioinformatics 25, 1972–1973 (2009)

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  36. S. Guindon, F. Lethiec, P. Duroux, O. Gascuel, Nucleic Acids Res. 33, W557–W559 (2005)

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  37. T.G. Senkevich, E.V. Koonin, J.J. Bugert, G. Darai, B. Moss, Virology 233, 19–42 (1997)

    Article  CAS  PubMed  Google Scholar 

  38. A. McLysaght, P.F. Baldi, B.S. Gaut, Proc. Natl. Acad. Sci. USA 100, 15655–15660 (2003)

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  39. P. Colson, G. Gimenez, M. Boyer, G. Fournous, D. Raoult, PLoS One 6, e18935 (2011)

    Article  CAS  PubMed Central  PubMed  Google Scholar 

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Authors and Affiliations

  1. Unité de Recherche sur les Maladies Infectieuses et Tropicales Emergentes (URMITE), UM63, CNRS 7278, IRD 198, INSERM U1095, Facultés de Médecine et de Pharmacie, Aix-Marseille Univ., 27 Boulevard Jean Moulin, 13385, Marseille Cedex 05, France

    Niyaz Yoosuf, Isabelle Pagnier, Ghislain Fournous, Catherine Robert, Bernard La Scola, Didier Raoult & Philippe Colson

  2. Fondation Institut Hospitalo-Universitaire (IHU) Méditerranée Infection, Pôle des Maladies Infectieuses et Tropicales Clinique et Biologique, Fédération de Bactériologie-Hygiène-Virologie, Centre Hospitalo-Universitaire Timone, Assistance Publique – Hôpitaux de Marseille, 264 rue Saint-Pierre, 13385, Marseille Cedex 05, France

    Isabelle Pagnier, Bernard La Scola, Didier Raoult & Philippe Colson

Authors
  1. Niyaz Yoosuf
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  2. Isabelle Pagnier
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  3. Ghislain Fournous
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  4. Catherine Robert
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  5. Bernard La Scola
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  6. Didier Raoult
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  7. Philippe Colson
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Correspondence to Philippe Colson.

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Yoosuf, N., Pagnier, I., Fournous, G. et al. Complete genome sequence of Courdo11 virus, a member of the family Mimiviridae . Virus Genes 48, 218–223 (2014). https://doi.org/10.1007/s11262-013-1016-x

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  • DOI: https://doi.org/10.1007/s11262-013-1016-x

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