Genome-wide expression dynamics of a marine virus and host reveal features of co-evolution

Nature

Volumn 449, Issue 7158, 2007, Pages 83-86

  Lindell, Debbie ^a,f   Jaffe, Jacob D ^b,c   Coleman, Maureen L ^a   Futschik, Matthias E ^d   Axmann, Ilka M ^d   Rector, Trent ^c   Kettler, Gregory ^a   Sullivan, Matthew B ^a   Steen, Robert ^c   Hess, Wolfgang R ^e   Church, George M ^c   Chisholm, Sallie W ^a,b  

^a Massachusetts Institute of Technology Cambridge   (United States)

^b MASSACHUSETTS INSTITUTE OF TECHNOLOGY   (United States)

^c HARVARD MEDICAL SCHOOL   (United States)

^d HUMBOLDT UNIVERSITY   (Germany)

^e UNIVERSITY OF FREIBURG   (Germany)

^f TECHNION ISRAEL INSTITUTE OF TECHNOLOGY   (Israel)

Author keywords

[No Author keywords available]

Indexed keywords

BACTERIAL PROTEIN; HIGH LIGHT INDUCIBLE PROTEIN; UNCLASSIFIED DRUG;

COEVOLUTION; CYANOBACTERIUM; GENE EXPRESSION; GENOME; STRESS RESISTANCE; VIRUS;

ARTICLE; BACTERIAL INFECTION; BACTERIAL METABOLISM; CYANOPHAGE; DNA METABOLISM; DNA REPLICATION; GENE EXPRESSION; GENOME; NONHUMAN; PHOTOSYNTHESIS; PRIORITY JOURNAL; PROCHLOROCOCCUS; UPREGULATION; VIRUS GENE;

BACTERIA (MICROORGANISMS); PROCHLOROCOCCUS;

EID: 34548513271     PISSN: 00280836     EISSN: 14764687     Source Type: Journal    
DOI: 10.1038/nature06130     Document Type: Article

References (25)

1. Canchaya, C., Proux, C., Fournous, G., Bruttin, A. & Brussow, H. Prophage genomics. Microbiol. Mol. Biol. Rev. 67, 238-276 (2003).
2. Filee, J., Forterre, P. &Laurent, J. The role played by viruses in the evolution of their hosts: a view based on informational protein phylogenies. Res. Microbiol. 154, 237-243 (2003).
3. Hendrix, R. W., Lawrence, J. G., Hatfull, G. F. & Casjens, S. The origins and ongoing evolution of viruses. Trends Microbiol. 8, 504-508 (2000).
4. Hsiao, W. W. L. et al. Evidence of a large novel gene pool associated with prokaryotic genome islands. PLoS Genet. 1, e62 (2006).
5. Lindell, D. et al. Transfer of photosynthesis genes to and from Prochlorococcus viruses. Proc. Natl Acad. Sci. USA 101, 11013-11018 (2004).
6. Coleman, M. L. et al. Genomic islands and the ecology and evolution of Prochlorococcus. Science 311, 1768-1770 (2006).
7. Partensky, F., Hess, W. R. & Vaulot, D. Prochlorococcus, a marine photosynthetic prokaryote of global significance. Microbiol. Mol. Biol. Rev. 63, 106-127 (1999).
8. Breitbart, M., Miyake, J. H. & Rohwer, F. Global distribution of nearly identical phage-encoded DNA sequences. FEMS Microbiol. Lett. 236, 249-256 (2004).
9. Mann, N. H. et al. The genome of S-PM2, a " photosynthetic" T4-type bacteriophage that infects marine Synechococcus. J. Bacteriol. 187, 3188-3200 (2005).
10. Millard, A., Clokie, M. R., Shub, D. A. & Mann, N. H. Genetic organization of the psbAD region in phages infecting marine Synechococcus strains. Proc. Natl Acad. Sci. USA 101, 11007-11012 (2004).
11. Sullivan, M. B., Coleman, M., Weigele, P., Rohwer, F. & Chisholm, S. W. Three Prochlorococcus cyanophage genomes: Signature features and ecological interpretations. PLoS Biol. 3, e144 (2005).
12. Lindell, D., Jaffe, J. D., Johnson, Z. I., Church, G. M. & Chisholm, S. W. Photosynthesis genes in marine viruses yield proteins during host infection. Nature 438, 86-89 (2005).
13. Clokie, M. R. J., Shan, J., Bailey, S., Jia, Y. & Krisch, H. M. Transcription of a 'photosynthetic' T4-type phage during infection of a marine cyanobacterium. Environ. Microbiol. 8, 827-835 (2006).
14. Zeidner, G. et al. Potential photosynthesis gene recombination between Prochlorococcus and Synechococcus via viral intermediates. Environ. Microbiol. 7, 1505-1513 (2005).
15. Sullivan, M. B. et al. Prevalence and evolution of core photosystem II genes in marine cyanobacterial viruses and their hosts. PLoS Biol. 4, e234 (2006).
16. Molineux, I. in The Bacteriophages (ed. Calendar, R.) 277-301 (Oxford University Press, New York, 2005).
17. Chen, Z. & Schneider, T. D. Information theory based T7-like promoter models: classification of bacteriophages and differential evolution of promoters and their polymerases. Nucleic Acids Res. 33, 6172-6187 (2005).
18. Miller, E. S. et al. Bacteriophage T4 genome. Microbiol. Mol. Biol. Rev. 67, 86-156 (2003).
19. Lenski, R. E. & Levin, B. R. Constraints on the coevolution of bacteria and virulent phage: A model, some experiments, and predictions for natural communities. Am. Nat. 124, 585-602 (1985).
20. Tabor, S., Huber, H. E. & Richardson, C. C. Escherichia coli thioredoxin confers processivity on the DNA polymerase activity of the gene 5 protein of bacteriophage T7. J. Biol. Chem. 262, 16212-16223 (1987).
21. Tilly, K., Murialdo, H. & Georgopoulos, C. P. Identification of a second Escherichia coli groE gene whose product is necessary for bacteriophage morphogenesis. Proc. Natl Acad. Sci. USA 78, 1629-1633 (1981).
22. Ueno, H. & Yonesaki, T. Phage-induced change in the stability of mRNAs. Virology 329, 134-141 (2004).
23. Tolonen, A. C. et al. Global gene expression of Prochlorococcus ecotypes in response to changes in nitrogen availability. Mol. Systems Biol. 2, 53 (2006).
24. Irizarry, R. A. et al. Summaries of Affymetrix GeneChip probe level data. Nucleic Acids Res. 31, e15 (2003).
25. Jaffe, J. D. et al. The complete genome and proteome of Mycoplasma mobile. Genome Res. 14, 1447-1461 (2004).