Metagenomic analysis of coastal RNA virus communities

Science

Volumn 312, Issue 5781, 2006, Pages 1795-1798

  Culley, Alexander I ^a   Lang, Andrew S ^b   Suttla, Curtis A ^a  

^a UNIVERSITY OF BRITISH COLUMBIA   (Canada)

^b UNIVERSITY OF ALASKA FAIRBANKS   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ARTHROPODS; PICORNA-LIKE VIRUSES; RNA VIRUSES; WHOLE-GENOME;

BACTERIA; BIODIVERSITY; GENES; MARINE BIOLOGY; VIRUSES;

RNA;

ARTHROPOD; GENETIC ANALYSIS; GENOMICS; INFECTIVITY; MICROBIAL COMMUNITY; RNA; VIRUS; WHALE;

ARTHROPOD; ARTICLE; GENOME ANALYSIS; GENOTYPE; HIGHER PLANT; MARINE ENVIRONMENT; NONHUMAN; PRIORITY JOURNAL; RNA VIRUS; SEA; SEQUENCE ANALYSIS; SEQUENCE HOMOLOGY; VIRUS ASSEMBLY;

ANIMALS; ARTHROPODS; CONTIG MAPPING; DNA, COMPLEMENTARY; ECOSYSTEM; GENOME, VIRAL; GENOMIC LIBRARY; GENOMICS; GENOTYPE; MOLECULAR SEQUENCE DATA; PACIFIC OCEAN; PHYLOGENY; PICORNAVIRIDAE; PLANTS; REVERSE TRANSCRIPTASE POLYMERASE CHAIN REACTION; RNA VIRUSES; RNA, VIRAL; SEAWATER; SEQUENCE ANALYSIS, DNA; SYNTENY; TOMBUSVIRIDAE; VARIATION (GENETICS);

ARTHROPODA; CETACEA; EMBRYOPHYTA; PICORNA; RNA VIRUSES;

EID: 33745513227     PISSN: 00368075     EISSN: 10959203     Source Type: Journal    
DOI: 10.1126/science.1127404     Document Type: Article

References (31)

1. J. W. Drake, J. J. Holland, Proc. Natl. Acad. Sci. U.S.A. 96, 13910 (1999).
2. K. Y. Børsheim, FEMS Microbiol. Ecol. 102, 141 (1993).
3. D. H. Kim et al., Virus Res. 107, 1 (2005).
4. J. Mari et al., J. Gen. Virol. 83, 915 (2002).
5. B. K. Rima et al., Virus Genes 30, 113 (2005).
6. A. S. Lang et al., Virology 320, 206 (2004).
7. K. Nagasaki et al., Appl. Environ. Microbiol. 71, 8888 (2005).
8. K. Nagasaki et al., Appl. Environ. Microbiol. 70, 704 (2004).
9. C. P. D. Brussaard et al., Virology 319, 280 (2004).
10. A. I. Culley et al., Nature 424, 1054 (2003).
11. E. F. DeLong, D. M. Karl, Nature 437, 336 (2005).
12. E. F. DeLong et al., Science 311, 496 (2006).
13. M. Breitbart et al., Proc. Natl. Acad. Sci. U.S.A. 99, 14250 (2002).
14. M. Breitbart et al., Proc. R. Soc. London Ser. B 271, 565 (2004).
15. Materials and methods are available as supporting material on Science Online.
16. S. F. Altschul et al., Nucleic Acids Res. 25, 3389 (1997).
17. J. C. Venter et al., Science 304, 66 (2004); published online 4 March 2004 (10.1126/science.1093857).
18. R. A. Edwards, F. Rohwer, Nat. Rev. Microbiol. 3, 504 (2005).
19. M. G. Weinbauer, FEMS Microbiol. Rev. 28, 127 (2004).
20. S. A. Lommel et al., in Virus Taxonomy: Eighth Report of the International Committee on Taxonomy of Viruses, C. M. Fauquet, Ed. (Elsevier, San Diego, 2004), pp. 907-936.
21. M. E. Taliansky et al., in Virus Taxonomy: Eighth Report of the International Committee on Taxonomy of Viruses, C. M. Fauquet, Ed. (Elsevier, San Diego, 2004), pp. 901-906.
22. H. J. Vetten et al., in Virus Taxonomy: Eighth Report of the International Committee on Taxonomy of Viruses, C. M. Fauquet, Ed. (Elsevier, San Diego, 2004), pp. 343-352.
23. E. V. Koonin, V. V. Dolja, Crit. Rev. Biochem. Mol. Biol. 28, 375 (1993).
24. F. Angly et al., BMC Bioinformatics 6, 41 (2005).
25. P. Christian et al., paper presented at the Microbes in a Changing World meeting of the International Union of Microbiology Societies, San Francisco, CA, 23 July 2005.
26. V. Tai et al., J. Phycol. 39, 343 (2003).
27. T. Yokoi et al., Virology 311, 394 (2003).
28. K. E. Wommack et al., Appl. Environ. Microbiol. 65, 241 (1999).
29. G. Altekar et al., Bioinformatics 20, 407 (2004).
30. D. L. Swofford, PAUP* 4.0b10 (Sinauer, Sunderland, MA, 2002).
31. We thank A. Toperoff for aid with the figures, the officers and crew of the Canadian Coast Guard Ship Vector, past and present members of the Suttle laboratory for assistance throughout this work, and K. Nagasaki for the RsRNAV sequence. Sequences have been deposited n GenBank with accession numbers DX420985-DX421142 and DQ439712-DQ439732. This work was supported by grants from the Natural Science and Engineering Research Council of Canada.