Genome of Phaeocystis globosa virus PgV-16T highlights the common ancestry of the largest known DNA viruses infecting eukaryotes

Proceedings of the National Academy of Sciences of the United States of America

Volumn 110, Issue 26, 2013, Pages 10800-10805

  Santini, Sebastien ^a   Jeudy, Sandra ^a   Bartoli, Julia ^a   Poirot, Olivier ^a   Lescot, Magali ^a   Abergel, Chantal ^a   Barbe, Valérie ^b   Wommack, K Eric ^c   Noordeloos, Anna A M ^d   Brussaard, Corina P D ^d,e   Claverie, Jean Michel ^a,f  

^a CNRS Aix Marseille University   (France)

^b CEA Fontenay aux Roses Bâtiment 61   (France)

^c UNIVERSITY OF DELAWARE   (United States)

^d ROYAL NETHERLANDS INSTITUTE FOR SEA RESEARCH   (Netherlands)

^e UNIVERSITY OF AMSTERDAM   (Netherlands)

^f TIMONE HOSPITAL   (France)

Author keywords

Core gene; Gene duplication; Giant virus; Horizontal gene transfer; Mobile element

Indexed keywords

TRANSFER RNA;

AMINO ACID SEQUENCE; ARTICLE; DNA REPLICATION; DNA SEQUENCE; DNA VIRUS; EUKARYOTE; GENE DUPLICATION; GENOME SIZE; HAPTOPHYTA; HORIZONTAL GENE TRANSFER; INVERTED REPEAT; MIMIVIRUS; NONHUMAN; NUCLEOTIDE SEQUENCE; PHAEOCYSTIS GLOBOSA VIRUS; PHYCODNAVIRIDAE; PHYLOGENETIC TREE; PHYTOPLANKTON; POXVIRUS; PRIORITY JOURNAL; PROTEIN SECONDARY STRUCTURE; TRANSCRIPTION INITIATION; VIROPHAGE; VIRUS CORE; VIRUS GENOME; VIRUS PARTICLE;

CORE GENE; GENE DUPLICATION; GIANT VIRUS; HORIZONTAL GENE TRANSFER; MOBILE ELEMENT;

CHROMOSOME MAPPING; GENE DUPLICATION; GENOME, VIRAL; HAPTOPHYTA; MOLECULAR SEQUENCE DATA; PHYCODNAVIRIDAE; PHYLOGENY; PHYTOPLANKTON; PROTEOME; RETROELEMENTS; SATELLITE VIRUSES; VIRAL PROTEINS;

ACANTHAMOEBA; ALGAE; CAFETERIA ROENBERGENSIS; DNA VIRUSES; EMILIANIA HUXLEYI; EUKARYOTA; HAPTOPHYCEAE; MIMIVIRUS; PHAEOCYSTIS; PHAEOCYSTIS GLOBOSA; PHAEOCYSTIS GLOBOSA VIRUS; PHYCODNAVIRIDAE;

EID: 84879516342     PISSN: 00278424     EISSN: 10916490     Source Type: Journal    
DOI: 10.1073/pnas.1303251110     Document Type: Article

References (34)

1. La Scola B, et al. (2003) A giant virus in amoebae. Science 299(5615):2033.
2. Raoult D, et al. (2004) The 1.2-megabase genome sequence of Mimivirus. Science 306 (5700):1344-1350.
3. Ghedin E, Claverie JM (2005) Mimivirus relatives in the Sargasso sea. Virol J 2:62.
4. Yooseph S, et al. (2007) The Sorcerer II Global Ocean Sampling expedition: Expanding the universe of protein families. PLoS Biol 5(3):e16.
5. Monier A, Claverie JM, Ogata H (2008) Taxonomic distribution of large DNA viruses in the sea. Genome Biol 9(7):R106.
6. Fischer MG, Allen MJ, Wilson WH, Suttle CA (2010) Giant virus with a remarkable complement of genes infects marine zooplankton. Proc Natl Acad Sci USA 107(45): 19508-19513.
7. Arslan D, Legendre M, Seltzer V, Abergel C, Claverie JM (2011) Distant Mimivirus relative with a larger genome highlights the fundamental features of Megaviridae. Proc Natl Acad Sci USA 108(42):17486-17491.
8. Monier A, et al. (2008) Marine mimivirus relatives are probably large algal viruses. Virol J 5:12.
9. Larsen JB, Larsen A, Bratbak G, Sandaa RA (2008) Phylogenetic analysis of members of the Phycodnaviridae virus family, using amplified fragments of the major capsid protein gene. Appl Environ Microbiol 74(10):3048-3057.
10. Brussaard CPD, Short SM, Frederickson CM, Suttle CA (2004) Isolation and phylogenetic analysis of novel viruses infecting the phytoplankton Phaeocystis globosa (Prymnesiophyceae). Appl Environ Microbiol 70(6):3700-3705.
11. Brussaard CPD, Kuipers B, Veldhuis MJW (2005) A mesocosm study of Phaeocystis globosa population dynamics: I. Regulatory role of viruses in bloom control. Harmful Algae 4(5):859-874.
12. Baudoux AC, Brussaard CPD (2005) Characterization of different viruses infecting the marine harmful algal bloom species Phaeocystis globosa. Virology 341(1):80-90.
13. Yau S, et al. (2011) Virophage control of antarctic algal host-virus dynamics. Proc Natl Acad Sci USA 108(15):6163-6168.
14. Sayers EW, et al. (2012) Database resources of the National Center for Biotechnology Information. Nucleic Acids Res 40(Database issue):D13-D25.
15. Wilson WH, et al. (2005) Complete genome sequence and lytic phase transcription profile of a Coccolithovirus. Science 309(5737):1090-1092.
16. La Scola B, et al. (2008) The virophage as a unique parasite of the giant mimivirus. Nature 455(7209):100-104.
17. Desnues C, et al. (2012) Provirophages and transpovirons as the diverse mobilome of giant viruses. Proc Natl Acad Sci USA 109(44):18078-18083.
18. Fischer MG, Suttle CA (2011) A virophage at the origin of large DNA transposons. Science 332(6026):231-234.
19. Claverie JM, Abergel C (2009) Mimivirus and its virophage. Annu Rev Genet 43:49-66.
20. Rybchin VN, Svarchevsky AN (1999) The plasmid prophage N15: A linear DNA with covalently closed ends. Mol Microbiol 33(5):895-903.
21. Iyer LM, Aravind L, Koonin EV (2001) Common origin of four diverse families of large eukaryotic DNA viruses. J Virol 75(23):11720-11734.
22. Ogata H, et al. (2011) Two new subfamilies of DNA mismatch repair proteins (MutS) specifically abundant in the marine environment. ISME J 5(7):1143-1151.
23. Van Etten JL, Meints RH (1999) Giant viruses infecting algae. Annu Rev Microbiol 53: 447-494.
24. Koonin EV, Yutin N (2010) Origin and evolution of eukaryotic large nucleocytoplasmic DNA viruses. Intervirology 53(5):284-292.
25. Shi J, Blundell TL, Mizuguchi K (2001) FUGUE: Sequence-structure homology recognition using environment-specific substitution tables and structure-dependent gap penalties. J Mol Biol 310(1):243-257.
26. Kapitonov VV, Jurka J (2008) A universal classification of eukaryotic transposable elements implemented in Repbase. Nat Rev Genet 9(5):411-412, author reply 414.
27. Siguier P, Varani A, Perochon J, Chandler M (2012) Exploring bacterial insertion sequences with ISfinder: Objectives, uses, and future developments. Methods Mol Biol 859:91-103.
28. Filée J, Siguier P, Chandler M (2007) Insertion sequence diversity in archaea. Microbiol Mol Biol Rev 71(1):121-157.
29. Bao W, Jurka MG, Kapitonov VV, Jurka J (2009) New superfamilies of eukaryotic DNA transposons and their internal divisions. Mol Biol Evol 26(5):983-993.
30. Katoh K, Toh H (2008) Recent developments in the MAFFT multiple sequence alignment program. Brief Bioinform 9(4):286-298.
31. Tamura K, et al. (2011) MEGA5: Molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods. Mol Biol Evol 28(10):2731-2739.
32. Claverie JM, Abergel C (2013) Open questions about giant viruses. Adv Virus Res 85: 25-56.
33. Cavalier-Smith T (2002) The phagotrophic origin of eukaryotes and phylogenetic classification of Protozoa. Int J Syst Evol Microbiol 52(Pt 2):297-354.
34. Baudoux AC, Brussaard CPD (2008) Influence of irradiance on virus-algal host interactions. J Phycol 44(4):902-908.