Proteorhodopsin in the ubiquitous marine bacterium SAR11

Nature

Volumn 438, Issue 7064, 2005, Pages 82-85

  Giovannoni, Stephen J ^a   Bibbs, Lisa ^b   Cho, Jang Cheon ^a,c   Stapels, Martha D ^a,d   Desiderio, Russell ^a   Vergin, Kevin L ^a   Rappé, Michael S ^a,e   Laney, Samuel ^a   Wilhelm, Lawrence J ^a   Tripp, H James ^a   Mathur, Eric J ^b   Barofsky, Douglas F ^a  

^a OREGON STATE UNIVERSITY   (United States)

^b DIVERSA CORPORATION   (United States)

^c Inha University   (South Korea)

^d WATERS CORPORATION   (United States)

^e UNIVERSITY OF HAWAII   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

BACTERIA; CLONING; DNA; ECOLOGY; MARINE BIOLOGY; METABOLISM; OCEANOGRAPHY;

LIGHT-DEPENDENT PROTON PUMPS; MICROBIAL METABOLISM; PROTEORHODOPSIN;

GENES;

PROTEORHODOPSIN; PROTON PUMP; RHODOPSIN; SEA WATER; UNCLASSIFIED DRUG;

BACTERIUM; MARINE ECOSYSTEM; PHOTOCHEMISTRY;

ARTICLE; AUTOCLAVE; BACTERIAL GENE; BACTERIAL GROWTH; BACTERIAL STRAIN; BACTERIOPLANKTON; BACTERIUM CULTURE; CIRCADIAN RHYTHM; CLADISTICS; CONTROLLED STUDY; DARKNESS; GENE EXPRESSION; GENE FUNCTION; GROWTH RATE; LIGHT; MARINE ENVIRONMENT; NONHUMAN; PRIORITY JOURNAL; SEA;

BACTERIA (MICROORGANISMS); CANDIDATUS PELAGIBACTER; CANDIDATUS PELAGIBACTER UBIQUE;

EID: 27744438187     PISSN: 00280836     EISSN: 14764687     Source Type: Journal    
DOI: 10.1038/nature04032     Document Type: Article

References (21)

1. Béjà, O. et al. Bacterial rhodopsin: evidence for a new type of phototrophy in the sea. Science 289, 1902-1906 (2000).
2. Béjà, O., Spudich, E. N., Spudich, J. L., Leclerc, M. & DeLong, E. F. Proteorhodopsin phototrophy in the ocean. Nature 411, 786-789 (2001).
3. Sabehi, G., Béjà, O., Suzuki, M. T., Preston, C. M. & DeLong, E. F. Different SAR86 subgroups harbour divergent proteorhodopsins. Environ. Microbiol. 6, 903-910 (2004).
4. Man-Aharonovich, D. et al. Characterization of RS29, a blue-green proteorhodopsin variant from the Red Sea. Photochem. Photobiol. Sci. 3, 459-462 (2004).
5. de la Torre, J. R. et al. Proteorhodopsin genes are distributed among divergent marine bacterial taxa. Proc. Natl Acad. Sci. USA 100, 12830-12835 (2003).
6. Sabehi, G. et al. Novel Proteorhodopsin variants from the Mediterranean and Red Seas. Environ. Microbiol. 5, 842-849 (2003).
7. Venter, J. C. et al. Environmental genome shotgun sequencing of the Sargasso Sea. Science 304, 66-74 (2004).
8. Morris, R. M. et al. SAR11 clade dominates ocean surface bacterioplankton communities. Nature 420, 806-810 (2002).
9. Rappé, M. S., Connon, S. A., Vergin, K. L. & Giovannoni, S. J. Cultivation of the ubiquitous SAR11 marine bacterioplankton clade. Nature 418, 630-633 (2002).
10. Giovannoni, S. J. et al. Genome streamlining in a cosmopolitan oceanic bacterium. Science 309, 1242-1245 (2005).
11. Field, K. G. et al. Diversity and depth-specific distribution of SAR11 cluster rRNA genes from marine planktonic bacteria. Appl. Environ. Microbiol. 61, 63-70 (1997).
12. Wang, W. W., Sineshchekov, O. A., Spudich, E. N. & Spudich, J. L. Spectroscopic and photochemical characterization of a deep ocean proteorhodopsin. J. Biol. Chem. 278, 33985-33991 (2003).
13. Man, D. et al. Diversification and spectral tuning in marine proteorhodopsins. EMBO J. 22, 1725-1731 (2003).
14. Stapels, M. D. & Barofsky, D. F. Complementary use of MALDI and ESI for the HPLC-MS/MS analysis of DNA-binding proteins. Anal. Chem. 76, 5423-5430 (2004).
15. Ram, R. J. et al. Community proteomics of a natural microbial biofilm. Science 308, 1915-1920 (2005).
16. Peck, R. F., Johnson, E. A. & Krebs, M. P. Identification of a lycopene β-cyclase required for bacteriorhodopsin biogenesis in the archaeon Halobacterium salinarum. J. Bacteriol. 184, 2889-2897 (2002).
17. Whitman, W. B., Coleman, D. C. & Wiebe, W. J. Prokaryotes: The unseen majority. Proc. Natl Acad. Sci. USA 95, 6578-6583 (1998).
18. Kimura, M. The Neutral Theory of Molecular Evolution (Cambridge Univ. Press, Cambridge, 1983).
19. Huelsenbeck, J. P. & Ronquist, F. MRBAYES: Bayesian inference of phylogenetic trees. Bioinformatics 17, 754-755 (2001).
20. Stapels, M. D., Cho, J. C., Giovannoni, S. J. & Barofsky, D. F. Proteomic analysis of novel marine bacteria using MALDI and ESI mass spectrometry. J. Biomol. Tech. 15, 191-198 (2004).
21. Perkins, D. N., Pappin, D. J., Creasy, D. M. & Cottrell, J. S. Probability-based protein identification by searching sequence databases using mass spectrometry data. Electrophoresis 20, 3551-3567 (1999).