Impact of genome reduction on bacterial metabolism and its regulation

Science

Volumn 326, Issue 5957, 2009, Pages 1263-1268

  Yus, Eva ^a   Maier, Tobias ^a   Michalodimitrakis, Konstantinos ^a   Van Noort, Vera ^b   Yamada, Takuji ^b   Chen, Wei Hua ^b   Wodke, Judith A H ^a   Güell, Marc ^a   Martínez, Sira ^a   Bourgeois, Ronan ^a   Kühner, Sebastian ^b   Raineri, Emanuele ^a   Letunic, Ivica ^b   Kalinina, Olga V ^b,c   Rode, Michaela ^b   Herrmann, Richard ^c   Gutiérrez Gallego, Ricardo ^d   Russell, Robert B ^b   Gavin, Anne Claude ^b   Bork, Peer ^b   Serrano, Luis ^a,e   more..

^a UNIVERSITAT POMPEU FABRA   (Spain)

^b EUROPEAN MOLECULAR BIOLOGY LABORATORY   (Germany)

^c INSTITUTE FOR INFORMATION TRANSMISSION PROBLEMS   (Russian Federation)

^d UNIVERSITY OF HEIDELBERG   (Germany)

^e INSTITUCIÓ CATALANA DE RECERCA I ESTUDIS AVANÇATS ICREA   (Spain)

Author keywords

[No Author keywords available]

Indexed keywords

ENZYME;

BACTERIUM; BIOENERGETICS; ENZYME ACTIVITY; GENE EXPRESSION; GENOMICS; GLUCOSE; GROWTH CURVE; METABOLISM; METABOLITE;

AMINO ACID TRANSPORT; ARTICLE; BACTERIAL GENOME; BACTERIAL GROWTH; BACTERIAL METABOLISM; CARBOHYDRATE TRANSPORT; CATALYST; CELL ENERGY; CONTROLLED STUDY; ENERGY CONVERSION; ENERGY YIELD; GENE EXPRESSION; GENETIC TRANSCRIPTION; METABOLIC REGULATION; METABOLITE; MICROBIAL BIOMASS; MYCOPLASMA PNEUMONIAE; NONHUMAN; PRIORITY JOURNAL;

ADENOSINE TRIPHOSPHATE; BACTERIAL PROTEINS; CULTURE MEDIA; ENERGY METABOLISM; ENZYMES; GENE EXPRESSION PROFILING; GENE EXPRESSION REGULATION, BACTERIAL; GENOME, BACTERIAL; GLYCOLYSIS; METABOLIC NETWORKS AND PATHWAYS; MYCOPLASMA PNEUMONIAE; RNA, BACTERIAL; RRNA OPERON; SIGNAL TRANSDUCTION; SYSTEMS BIOLOGY; TRANSCRIPTION, GENETIC;

BACTERIA (MICROORGANISMS); MYCOPLASMA PNEUMONIAE;

EID: 70849102021     PISSN: 00368075     EISSN: 10959203     Source Type: Journal    
DOI: 10.1126/science.1177263     Document Type: Article

References (36)

1. A. M. Feist, B. O. Palsson, Nat Biotechnol 26, 659 (2008).
2. K. B. Waites, D. F. Talkington, Clin. Microbiol. Rev. 17, 697 (2004).
3. T. Dandekar et al., Nucleic Acids Res. 28, 3278 (2000).
4. T. Proft, R. Herrmann, Mol Microbiol 13, 337 (1994).
5. E. van Nimwegen, Trends Genet. 19, 479 (2003).
6. M. Güell et al, Science 326, 1268 (2009).
7. S. Kühner et al., Science 326, 1235 (2009).
8. J. D. Pollack, Trends Microbiol 5, 413 (1997).
9. M. Pachkov, T. Dandekar, J. Korbel, P. Bork, S. Schuster, Gene 396, 215 (2007).
10. Materials and methods are available as supporting material on Science Online.
11. J. D. Pollack, M. V. Williams, R. N. McElhaney, Crit. Rev. Microbiol. 23, 269 (1997).
12. S. Halbedel, C. Harnes, J. Stulke, Bacteriol. 186, 7936 (2004).
13. J. T. Manolukas, M. F. Barile, D. K. Chandler, J. D. Pollack, J. Gen. Microbiol 134, 791 (1988).
14. C. A. Hutchison et. al., Science 286, 2165 (1999).
15. R. Himmelreich et al., Nucleic Acids Res. 24, 4420 (1996).
16. P. Renesto et al., Lancet 362, 447 (2003).
17. E. Zientz, T. Dandekar, R. Gross, Microbiol. Mot. Biol. Rev. 68, 745 (2004).
18. L. Z. Pipe, M. J. Grimson, Mol. Biosyst 4, 192 (2008).
19. J. I. Glass et al., Proc. Natl Acad, Sci, U.S.A. 103, 425 (2006).
20. B. M. Hasselbring, J. L. Jordan, R. W. Krause, D. C. Krause, Proc. Natl. Acad. Sci. USA. 103, 16478 (2006).
21. S. F. Dallo, J. B. Baseman, Microb. Pathog. 29, 301 (2000).
22. J. B. Smart, T. D. Thomas, Appl, Environ, Microbiol 53, 533 (1987).
23. N. A. Moran, Cell 108, 583 (2002).
24. M. Cocaign-Bousquet, S. Even, N. D. Lindley, P. Loubiere, Appl. Microbiol. Biotechnol, 60, 24 (2002).
25. M. Nomura, J. Bacteriol. 181, 6857 (1999).
26. B. Teusink et al., J. BioL Chem. 281, 40041 (2006).
27. E. Oxman, U. Alon, E. Dekel, Evolution 62, 1547 (2008).
28. W. Goebel, S. Lory, Curr. Opin. Microbiol. 9, 123 (2006).
29. S. Even, N. D. Lindley, M. Cocaign-Bousquet, Microbiology 149, 1935 (2003).
30. S. Even, N. D. Lindley, P. Loubiere, M. Cocaign-Bousquet, Mol. Microbiol. 45, 1143 (2002).
31. K. Potrykus, M. Cashel, Annu. Rev. Microbiol. 62, 35 (2008).
32. C. E. Vrentas, T. Gaal, W. Ross, R. H. Ebright, R. L. Gourse, Genes Dev. 19, 2378 (2005).
33. H. C. Su, C. A. Hutchison 3rd, M. C. Giddings, BMC Microbiol 7, 63 (2007).
34. S. Halbedel et al, J. Mol. Biol 371, 596 (2007).
35. S. Halbedel, C. Harnes, J. Stulke, J. Mol. Microbiol Biotechnol. 12, 147 (2007).
36. The authors thank V. Benes and S. Schmidt of the Gene Core facility at EMBL (Heidelberg, Germany) for hybridization of samples in custom made arrays; A. Wieslander (Stockholm University, Sweden) for advice on the lipid requirements for the minimal medium; J. Marcos del Aguila (Pompeu Fabra University, Barcelona, Spain) for conceptual and experimental input on the gas chromatography-mass spectrometry measurements; T. Doerks (EMBL, Heidelberg, Germany) for operon analysis and help in annotation; and J. Leigh-Bell for editorial help. LS. is an Instltitció Catalana de Recerca i Estudis Avançais professor.