REFERENCES
- Amster-Choder O., Wright A. Transcriptional regulation of the bgl operon of Escherichia coli involves phosphotransferase system-mediated phosphorylation of a transcriptional antiterminator. J Cell Biochem 1993; 51: 83–90, [INFOTRIEVE], [CSA]
- Amster-Choder O., Wright A. BglG, the response regulator of the Escherichia coli bgl operon, is phosphorylated on a histidine residue. J Bacteriol 1997; 179: 5621–5624, [INFOTRIEVE], [CSA]
- Antson A. A., Dodson E. J., Dodson G. G., Greaves R. B., Chen Z., Gollnick P. Structure of the trp RNA-binding attenuation protein, TRAP, bound to RNA. Nature 1999; 401: 235–242, [INFOTRIEVE], [CSA], [CROSSREF]
- Babitzke P. Regulation of transcription attenuation and translation initiation by allosteric control of an RNA-binding protein: the Bacillus subtilis TRAP protein. Curr Opin Microbiol 2004; 7: 132–139, [INFOTRIEVE], [CSA], [CROSSREF]
- Batey R. T., Gilbert S. D., Montange R. K. Structure of a natural guanine-responsive riboswitch complexed with the metabolite hypoxanthine. Nature 2004; 432: 411–415, [INFOTRIEVE], [CSA], [CROSSREF]
- Corbino K. A., Barrick J. E., Lim J., Welz R., Tucker B. J., Puskarz I., Mandal M., Rudnick N. D., Breaker R. R. Evidence for a second class of S-adenosylmethionine riboswitches and other regulatory RNA motifs in alpha-proteobacteria. Genome Biol 2005; 6: R70, [INFOTRIEVE], [CSA], [CROSSREF]
- Cromie M. H., Shi Y., Latifi T., Groisman E. A. An RNA sensor for intracellular Mg2+. Cell 2006; 125: 71–84, [INFOTRIEVE], [CSA], [CROSSREF]
- Cruz-Vera L. R., Rajagopal S., Squires C., Yanosky C. Features of ribosome-peptidyl-tRNA interactions essential for tryptophan induction of tna operon expression. Mol Cell 2005; 19: 333–343, [INFOTRIEVE], [CSA], [CROSSREF]
- Epshtein V., Mironov A. S., Nudler E. The riboswitch-mediated control of sulfur metabolism in bacteria. Proc Natl Acad Sci USA 2003; 100: 5052–5056, [INFOTRIEVE], [CSA], [CROSSREF]
- Fuchs R. T., Grundy F. J., Henkin T. M. The SMK box is a new SAM-binding RNA for translational regulation of SAM synthetase. Nat Struct Mol Biol 2006; 13: 226–233, [INFOTRIEVE], [CSA], [CROSSREF]
- 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 biosynthesis genes. Trends Genet 1999; 15: 439–442, [INFOTRIEVE], [CSA], [CROSSREF]
- Gollnick P., Babitzke P., Antson A., Yanofsky C. Complexity in regulation of tryptophan biosynthesis in Bacillus subtilis. Annu Rev Genet 2005; 39: 47–68, [INFOTRIEVE], [CSA], [CROSSREF]
- Gong F., Ito K., Nakamura Y., Yanofsky C. The mechanism of tryptophan induction of tryptophanase operon expression: tryptophan inhibits release factor-mediated cleavage of TnaC-peptidyl-tRNAPro. Proc Natl Acad Sci USA 2001; 98: 8997–9001, [INFOTRIEVE], [CSA], [CROSSREF]
- Grundy F. J., Henkin T. M. tRNA as a positive regulator of transcription antitermination in B Subtilis. Cell 1993; 74: 475–482, [INFOTRIEVE], [CSA], [CROSSREF]
- 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 1998; 30: 737–749, [INFOTRIEVE], [CSA], [CROSSREF]
- Grundy F. J., Henkin T. M. Synthesis of serine, glycine, cysteine and methionine. Bacillus subtilis and Its Closest Relatives: from Genes to Cells, A. L. Sonenshein, J. A. Hoch, R. Losick. American Society for Microbiology Press, Washington, DC 2002; 245–254
- Grundy F. J., Henkin T. M. The T box and S box transcription termination control systems. Front Biosci 2003; 8: d20–31, [INFOTRIEVE], [CSA]
- Grundy F. J., Henkin T. M. Regulation of gene expression by effectors that bind to RNA. Curr Opin Microbiol 2004; 7: 126–131, [INFOTRIEVE], [CSA], [CROSSREF]
- Grundy F. J., Lehman S. C., Henkin T. M. The L box regulon: lysine sensing by leader RNAs of bacterial lysine biosynthesis genes. Proc Natl Acad Sci USA 2003; 100: 12057–12062, [INFOTRIEVE], [CSA], [CROSSREF]
- Grundy F. J., Rollins S. M., Henkin T. M. Interaction between the acceptor end of tRNA and the T box stimulates antitermination in the Bacillus subtilis tyrS gene: a new role for the discriminator base. J Bacteriol 1994; 176: 4518–4526, [INFOTRIEVE], [CSA]
- Grundy F. J., Winkler W. C., Henkin T. M. tRNA-mediated transcription antitermination in vitro: codon-anticodon pairing independent of the ribosome. Proc Natl Acad Sci USA 2002; 99: 11121–11126, [INFOTRIEVE], [CSA], [CROSSREF]
- Gu Z., Harrod R., Rogers E. J., Lovett P. S. Anti-peptidyltransferase leader peptides of attenuation-regulated chloramphenicol resistance genes. Proc Natl Acad Sci USA 1994; 91: 5612–5616, [INFOTRIEVE], [CSA], [CROSSREF]
- Hanson S., Bauer G., Fink B., Suess B. Molecular analysis of a synthetic tetracycline-binding riboswitch. RNA 2005; 11: 503–511, [INFOTRIEVE], [CSA], [CROSSREF]
- Henkin T. M. Control of transcription termination in prokaryotes. Annu Rev Genet 1996; 30: 35–57, [INFOTRIEVE], [CSA], [CROSSREF]
- Henkin T. M., Yanofsky C. Regulation by transcription attenuation in bacteria: how RNA provides instructions for transcription termination/antitermination decisions. BioEssays 2002; 24: 700–707, [INFOTRIEVE], [CSA], [CROSSREF]
- Johansen L. E., Nygaard P., Lassen C., Agerso Y., Saxild H. H. Definition of a second Bacillus subtilis pur regulon comprising the pur and xpt-pbuX operons plus pbuG, nupG (yxjA), and pbuE (ydhL). J Bacteriol 2003; 185: 5200–5209, [INFOTRIEVE], [CSA], [CROSSREF]
- Johansson J., Mandin P., Renzoni A., Chiaruttini C., Springer M., Cossart P. An RNA thermosensor controls expression of virulence genes in Listeria monocytogenes. Cell 2002; 110: 551–561, [INFOTRIEVE], [CSA], [CROSSREF]
- Konan K. V., Yanofsky C. Regulation of the Escherichia coli tna operon: nascent leader peptide control at the tnaC stop codon. J Bacteriol 1997; 179: 1774–1779, [INFOTRIEVE], [CSA]
- Kubodera T., Watanabe M., Yoshiuchi K., Yamashita N., Nishimura A., Nakai S., Gomi K., Hanamoto H. Thiamine-regulated gene expression of Aspergillus oryzae thiA requires splicing of the intron containing a riboswitch-like domain in the 5′-UTR. FEBS Lett 2003; 555: 516–520, [INFOTRIEVE], [CSA], [CROSSREF]
- Landick R., Turnbough C. L., Yanofsky C. Transcription attenuation. Escherichia coli and Salmonella: Cellular and Molecular Biology, F. C. Neidhardt, et al. American Society for Microbiology, Washington, DC 1996; 1263–1286
- Lovett P. S., Rogers E. J. Ribosome regulation by the nascent peptide. Microbiol Rev 1996; 60: 366–385, [INFOTRIEVE], [CSA]
- Majdalani N., Vanderpool C. K., Gottesman S. Bacterial small RNA regulators. Crit Rev Biochem Mol Biol 2005; 40: 93–113, [INFOTRIEVE], [CSA], [CROSSREF]
- Mandal M., Boese B., Barrick J. E., Winkler W. C., Breaker R. R. Riboswitches control fundamental biochemical pathways in Bacillus subtilis and other bacteria. Cell 2003; 113: 577–586, [INFOTRIEVE], [CSA], [CROSSREF]
- Mandal M., Breaker R. R. Adenine riboswitches and gene activation by disruption of a transcription terminator. Nat Struct Mol Biol 2004; 11: 29–35, [INFOTRIEVE], [CSA], [CROSSREF]
- Mandal M., Lee M., Barrick J. E., Weinberg Z., Emilsson G. M., Ruzzo W. L., Breaker R. R. A glycine-dependent riboswitch that uses cooperative binding to control gene expression. Science 2004; 306: 275–279, [INFOTRIEVE], [CSA], [CROSSREF]
- 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 2003; 100: 3083–3088, [INFOTRIEVE], [CSA], [CROSSREF]
- McDaniel B. A., Grundy F. J., Kurlekar V. P., Tomsic J., Henkin T. M. Identification of a mutation in the Bacillus subtilis S-adenosylmethionine synthetase gene that results in derepression of S-box gene expression. J Bacteriol 2006; 188: 3674–3681, [INFOTRIEVE], [CSA], [CROSSREF]
- Meng Q., Turnbough C. L., Jr., Switzer R. L. Attenuation control of pyrG expression in Bacillus subtilis is mediated by CTP-sensitive reiterative transcription. Proc Natl Acad Sci USA 2004; 101: 10943–10948, [INFOTRIEVE], [CSA], [CROSSREF]
- Miranda-Rios J., Navarro M., Soberon M. A conserved RNA structure (thi box) is involved in regulation of thiamin biosynthetic gene expression in bacteria. Proc Natl Acad Sci USA 2001; 98: 9736–9741, [INFOTRIEVE], [CSA], [CROSSREF]
- Mironov A. S., Gusarov I., Rafikov R., Lopez L. E., Shatalin K., Kreneva R. A., Perumov D. A., Nudler E. Sensing small molecules by nascent RNA: a mechanism to control transcription in bacteria. Cell 2002; 111: 747–756, [INFOTRIEVE], [CSA], [CROSSREF]
- Morita M. T., Tanaka Y., Kodama T. T., Kyogoku Y., Yanagi H., Yura T. Translational induction of heat shock transcription factor sigma32: evidence for a built-in RNA thermosensor. Genes Dev 1999; 13: 655–665, [INFOTRIEVE], [CSA]
- Murphy B. A., Grundy F. J., Henkin T. M. Prediction of gene function in methylthioadenosine recycling from regulatory signals. J Bacteriol 2002; 184: 2314–2318, [INFOTRIEVE], [CSA], [CROSSREF]
- Nahvi A., Sudarsan N., Ebert M. S., Zou X., Brown K. L., Breaker R. R. Genetic control by a metabolite binding mRNA. Chem Biol 2002; 9: 1043–1049, [INFOTRIEVE], [CSA], [CROSSREF]
- Noeske J., Richter C., Grundl M. A., Nasiri H. R., Schwalbe H., Wohnert J. An intermolecular base triple as the basis of ligand specificity and affininty in the guanine-and adenine-sensing riboswitch RNAs. Proc Natl Acad Sci USA 2005; 102: 1372–1377, [INFOTRIEVE], [CSA], [CROSSREF]
- Nou X., Kadner R. J. Adenosylcobalamin inhibits ribosome binding to btuB RNA. Proc Natl Acad Sci USA 2000; 97: 7190–7195, [INFOTRIEVE], [CSA], [CROSSREF]
- Putzer H., Condon C., Brechemier-Baey D., Brito R., Grunberg-Manago M. Transfer RNA-mediated antitermination in vitro. Nucl Acids Res 2002; 30: 3026–3033, [INFOTRIEVE], [CSA], [CROSSREF]
- 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 2002; 277: 48949–48959, [INFOTRIEVE], [CSA], [CROSSREF]
- Romby P., Springer M. Bacterial translational control at atomic resolution. Trends Genet 2003; 19: 155–161, [INFOTRIEVE], [CSA], [CROSSREF]
- Romeo T. Global regulation by the small RNA-binding protein CsrA and the non-coding RNA molecule CsrB. Mol Microbiol 1998; 29: 1321–1330, [INFOTRIEVE], [CSA], [CROSSREF]
- Sarsero J. P., Merino E., Yanofsky C. A Bacillus subtilis operon containing genes of unknown function senses tRNATrp charging and regulates expression of the genes of tryptophan biosynthesis. Proc Natl Acad Sci USA 2000; 97: 2656–2661, [INFOTRIEVE], [CSA], [CROSSREF]
- Serganov A., Yuan Y. R., Pikofskaya O., Polonskala A., Malinina L., Phan A. T., Hobartner C., Micura R., Breaker R. R., Patel D. J. Structural basis for discriminative regulation of gene expression by adenine-and guanine-sensing mRNAs. Chem Biol 2004; 11: 1729–1741, [INFOTRIEVE], [CSA], [CROSSREF]
- Serganov A., Polonskaia A., Phan A. T., Breaker R. R., Patel D. J. Structural basis for gene regulation by a thiamine pyrophosphate-sensing riboswitch. Nature 2006; 441: 1167–1171, [INFOTRIEVE], [CSA], [CROSSREF]
- Storz G., Altuvia S., Wassarman K. M. An abundance of RNA regulators. Annu Rev Biochem 2005; 74: 199–217, [INFOTRIEVE], [CSA]
- Sudarsen N., Wickiser J. K., Nakamura S., Ebert M. S., Breaker R. R. An mRNA structure in bacteria that controls gene expression by binding lysine. Genes Dev 2003; 17: 2688–2697, [CSA]
- Suess B., Hanson S., Berens C., Fink B., Schroeder R., Hillen W. Conditional gene expression by controlling translation with tetracycline-binding aptamers. Nucleic Acids Res 2003; 31: 1853–1858, [INFOTRIEVE], [CSA], [CROSSREF]
- Tempest D. W., Meers J. L., Brown C. M. Influence of environment on the content and composition of microbial free amino acid pools. J Gen Microbiol 1970; 64: 171–185, [INFOTRIEVE], [CSA]
- Thore S., Leibungut M., Ban N. Structure of the eukaryotic thiamine pyrophosphate riboswitch with its regulatory ligand. Science 2006; 312: 1208–1211, [INFOTRIEVE], [CSA], [CROSSREF]
- Tucker B. J., Breaker R. R. Riboswitches as versatile gene control elements. Curr Opin Struct Biol 2005; 15: 342–348, [INFOTRIEVE], [CSA], [CROSSREF]
- Valbuzzi A., Yanofsky C. Inhibition of the B. subtilis regulatory protein TRAP by a TRAP-inhibitory protein, AT. Science 2001; 293: 2057–2059, [INFOTRIEVE], [CSA], [CROSSREF]
- Vitreschak A. H., Rodionov D. A., Mironov A. A., Gelfand M. S. Regulation of riboflavin biosynthesis and transport genes in bacteria by transcriptional and translational attenuation. Nucleic Acids Res 2002; 30: 3141–3151, [INFOTRIEVE], [CSA], [CROSSREF]
- Vitreschak A. G., Rodionov D. A., Mironov A. A., Gelfand M. S. Regulation of the vitamin B12 metabolism and transport in bacteria by a conserved RNA structural element. RNA 2003; 9: 1084–1097, [INFOTRIEVE], [CSA], [CROSSREF]
- Wabiko H., Ochi K., Nguyen D. M., Allen E. R., Freese E. Genetic mapping and physiological consequences of metE mutations of Bacillus Subtilis. J Bacteriol 1988; 170: 2705–2710, [INFOTRIEVE], [CSA]
- Weilbacher T., Suzuki K., Dubey A. K., Wang X., Gudapati S., Morozov I., Baker C. S., Georgellis D., Babitzke P., Romeo T. A novel sRNA component of the carbon storage regulatory system of Escherichia coli. Mol Microbiol 2003; 48: 657–670, [INFOTRIEVE], [CSA], [CROSSREF]
- Winkler W. C., Cohen-Chalamis S., Breaker R. R. An mRNA structure that controls gene expression by binding FMN. Proc Natl Acad Sci USA 2002; 99: 15908–15913, [INFOTRIEVE], [CSA], [CROSSREF]
- Winkler W. C., Nahvi A., Breaker R. R. Thiamine derivatives bind messenger RNAs directly to regulate bacterial gene expression. Nature 2002; 419: 952–956, [INFOTRIEVE], [CSA], [CROSSREF]
- Winkler W. C., Nahvi A., Roth A., Collins J. A., Breaker R. R. Control of gene expression by a natural metabolite-responsive ribozyme. Nature 2004; 428: 281–286, [INFOTRIEVE], [CSA], [CROSSREF]
- Winkler W. C., Nahvi A., Surarsan N., Barrick J. E., Breaker R. R. An mRNA structure that controls gene expression by binding S-adenosylmethionine. Nat Struct Biol 2003; 10: 701–707, [INFOTRIEVE], [CSA], [CROSSREF]
- Yanofsky C. Attenuation in the control of expression of bacterial operons. Nature 1981; 289: 751–758, [INFOTRIEVE], [CSA], [CROSSREF]
- Yanofsky C. The different roles of tryptophan transfer RNA in regulating trp operon expression in E. coli versus B. subtilis. Trends Genet 2004; 20: 367–374, [INFOTRIEVE], [CSA], [CROSSREF]
- Yousef M. R., Grundy F. J., Henkin T. M. Structural transitions induced by the interaction between tRNAGly and the Bacillus subtilis glyQS T box leader RNA. J Mol Biol 2005; 349: 273–287, [INFOTRIEVE], [CSA], [CROSSREF]