An mRNA structure that controls gene expression by binding S-adenosylmethionine

Nature Structural Biology

Volumn 10, Issue 9, 2003, Pages 701-707

  Winkler, Wade C ^a   Nahvi, Ali ^a   Sudarsan, Narasimhan ^a   Barrick, Jeffrey E ^a   Breaker, Ronald R ^a  

^a YALE UNIVERSITY   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

MESSENGER RNA; S ADENOSYLMETHIONINE;

ARTICLE; BACILLUS SUBTILIS; BIOSYNTHESIS; CONTROLLED STUDY; GENE CONTROL; GENE EXPRESSION REGULATION; NONHUMAN; PRIORITY JOURNAL; PROTEIN BINDING; REGULATORY MECHANISM; RNA STRUCTURE; SIGNAL TRANSDUCTION;

BACILLUS SUBTILIS; BASE SEQUENCE; DNA; KINETICS; MODELS, CHEMICAL; MOLECULAR SEQUENCE DATA; MUTATION; NUCLEIC ACID CONFORMATION; PROTEIN BINDING; PROTEIN STRUCTURE, SECONDARY; PROTEIN STRUCTURE, TERTIARY; RNA; RNA, MESSENGER; S-ADENOSYLMETHIONINE; TRANSCRIPTION, GENETIC;

BACILLUS SUBTILIS; POSIBACTERIA;

EID: 0042320361     PISSN: 10728368     EISSN: None     Source Type: Journal    
DOI: 10.1038/nsb967     Document Type: Article

References (28)

1. Nahvi, A. et al. Genetic control by a metabolite binding mRNA. Chem. Biol. 9, 1043-1049 (2002).
2. Winkler, W., Nahvi, A. & Breaker, R.R. Thiamine derivatives bind messenger RNAs directly to regulate bacterial gene expression. Nature 419, 952-956 (2002).
3. Winkler, W.C., Cohen-Chalamish, S. & Breaker, R.R. An mRNA structure that controls gene expression by binding FMN. Proc. Natl. Acad. Sci. USA 99, 15908-15913 (2002).
4. Mironov, A.S. et al. Sensing small molecules by nascent RNA: a mechanism to control transcription in bacteria. Cell 111, 747-756 (2002).
5. Sudarsan, N., Barrick, J.E. & Breaker, R.R. Metabolite-binding RNA domainsare present in the genes of eukaryotes. RNA 644-647 (2003).
6. Gelfand, M.S., Mironov, A.A., Jomantas, J., Kozlov, Y.I. & Perumov, D.A. A conserved RNA structure element involved in the regulation of bacterial riboflavin synthesis genes. Trends Genet. 15, 439-442 (1999).
7. Miranda-Rios, J., Navarro, M. & Soberón, M. A conserved RNA structure (thi box) is involved in regulation of thiamin biosynthetic gene expression in bacteria. Proc. Natl. Acad. Sci. USA 98, 9736-9741 (2001).
8. Stormo, G.D. & Ji, Y. Do mRNAs act as direct sensors of small molecules to control their expression? Proc. Natl. Acad. Sci. USA 98, 9465-9467 (2001).
9. Rodionov, D.A., Vitreschak, A.G., Mironov, A.A. & Gelfand, M.S. Comparative genomics of thiamin biosynthesis in procaryotes. New genes and regulatory mechanisms. J. Biol. Chem. 277, 48949-48959 (2002).
10. Benner, S.A., Ellington, A.D. & Tauer, A. Modern metabolism as a palimpsest of the RNA world. Proc. Natl. Acad. Sci. USA 86, 7054-7058 (1989).
11. Joyce, G.F The antiquity of RNA-based evolution. Nature 418, 214-221 (2002).
12. White III, H.B. Coenzymes as fossils of an earlier metabolic state. J. Mol. Evol. 7, 101-104 (1976).
13. Jeffares, D.C., Poole, A.M. & Penny, D. Relics from the RNA world. J. Mol. Evol. 46, 18-36 (1998).
14. Grundy, F.J. & Henkin, T.M. The S box regulon: a new global transcription termination control system for methionine and cysteine biosynthesis genes in Gram-positive bacteria. Mol. Microbiol. 30, 737-749 (1998).
15. Henkin, T.M. Transcription termination control in bacteria. Curr. Opin. Microbiol. 3, 149-153 (2000).
16. Grundy, F.J. & Henkin, T.M. The T box and S box transcription termination control systems. Frontiers Biosci. 8, D20-31 (2003).
17. Soukup, G.A. & Breaker, R.R. Relationship between internucleotide linkage geometry and the stability of RNA. RNA 5, 1308-1325 (1999).
18. Gold, L., Poliski, B., Uhlenbeck, O.C. & Yarus, M. Diversity of oligonucleotide functions. Annu. Rev. Biochem. 64, 763-797 (1995).
19. Takusagawa, F., Fujioka, M., Spies, A. & Schowen, R.L. In Comprehensive Biological Catalysis Vol. 1 (ed. Sinnott, M.) 1-30 (Academic, New York, 1998).
20. McDaniel, B.A.M., Grundy, F.J., Artsimovitch, I. & Henkin, T.M. Transcription termination control of the S box system: direct measurement of S-adenosylmethionine by the leader RNA. Proc. Natl. Acad. Sci. USA 100, 3083-3088 (2003).
21. Posnick, L.M. & Samson, L.D. Influence of S-adenosylmethionine pool size on spontaneous mutation, dam methylation, and cell growth of Escherichia coli. J. Bacteriol. 181, 6756-6762 (1999).
22. Epshtein, V., Mironov, A.S. & Nudler, E. The riboswitch-mediated control of sulfur metabolism in bacteria. Proc. Natl. Acad. Sci. USA 100, 5052-5056 (2003).
23. Mansilla, M.C., Albanesi, D. & De Mendoza, D. Transcriptional control of the sulfur-regulated cysH operon, containing genes involved in L-cysteine biosynthesis in Bacillus subtilis. J. Bacteriol. 182, 5885-5892 (2000).
24. Mandal, M., Boese, B., Barrick, J.E., Winkler, W.C. & Breaker, R.R. Metabolite-sensing riboswitches control fundamental biochemical pathways in bacteria. Cell 113, 577-586 (2003).
25. Seetharaman, S., Zivartz, M., Sudarsan, N. & Breaker, R.R. Immobilized RNA switches for the analysis of complex chemical and biological mixtures. Nat. Biotechnol. 19, 336-341 (2001).
26. Guérout-Fleury, A.M, Frandsen, N. & Stragier, P. Plasmids for ectopic integration in Bacillus subtilis. Gene 180, 57-61 (1996).
27. Fersht, A. In Structure and Mechanism in Protein Science 113 (Freeman, New York, 1999).
28. Jarmer, H., Berka, R., Knudsen, S. & Saxild, H.H. Transcriptome analysis documents induced competence of Bacillus subtilis during nitrogen limiting conditions. FEMS Microbiol. Lett. 206, 197-200 (2002).