Literature DB >> 17383225

The intricate world of riboswitches.

Rebecca L Coppins1, Kathleen B Hall, Eduardo A Groisman.   

Abstract

Riboswitches are segments of the 5'-untranslated region of certain bacterial mRNAs that upon recognition of specific ligands modify the expression of a protein(s) encoded in the message. These proteins are responsible for the biosynthesis or transport of ligands, which are typically organic molecules but could also be metal ions. Riboswitch-mediated control of gene expression might be thermodynamic or kinetic, depending on the rate of transcription elongation by RNA polymerase and the structures adopted by the riboswitch RNA. Certain 5'-untranslated regions harbor two riboswitches in tandem that bind to different ligands. Thus, RNA sensors can respond to metabolic changes by modifying gene expression in ways previously thought to be exclusive of proteins.

Entities:  

Mesh:

Substances:

Year:  2007        PMID: 17383225      PMCID: PMC1894890          DOI: 10.1016/j.mib.2007.03.006

Source DB:  PubMed          Journal:  Curr Opin Microbiol        ISSN: 1369-5274            Impact factor:   7.934


  32 in total

Review 1.  The pleiotropic two-component regulatory system PhoP-PhoQ.

Authors:  E A Groisman
Journal:  J Bacteriol       Date:  2001-03       Impact factor: 3.490

2.  Structural basis for discriminative regulation of gene expression by adenine- and guanine-sensing mRNAs.

Authors:  Alexander Serganov; Yu-Ren Yuan; Olga Pikovskaya; Anna Polonskaia; Lucy Malinina; Anh Tuân Phan; Claudia Hobartner; Ronald Micura; Ronald R Breaker; Dinshaw J Patel
Journal:  Chem Biol       Date:  2004-12

Review 3.  Ions and RNA folding.

Authors:  David E Draper; Dan Grilley; Ana Maria Soto
Journal:  Annu Rev Biophys Biomol Struct       Date:  2005

4.  Transcription pausing by Escherichia coli RNA polymerase is modulated by downstream DNA sequences.

Authors:  D N Lee; L Phung; J Stewart; R Landick
Journal:  J Biol Chem       Date:  1990-09-05       Impact factor: 5.157

Review 5.  Metal ions and RNA folding: a highly charged topic with a dynamic future.

Authors:  Sarah A Woodson
Journal:  Curr Opin Chem Biol       Date:  2005-04       Impact factor: 8.822

6.  Roles of Mg2+ in TPP-dependent riboswitch.

Authors:  Takahiro Yamauchi; Daisuke Miyoshi; Takafumi Kubodera; Akira Nishimura; Susumu Nakai; Naoki Sugimoto
Journal:  FEBS Lett       Date:  2005-04-08       Impact factor: 4.124

7.  The speed of RNA transcription and metabolite binding kinetics operate an FMN riboswitch.

Authors:  J Kenneth Wickiser; Wade C Winkler; Ronald R Breaker; Donald M Crothers
Journal:  Mol Cell       Date:  2005-04-01       Impact factor: 17.970

8.  Control of gene expression by a natural metabolite-responsive ribozyme.

Authors:  Wade C Winkler; Ali Nahvi; Adam Roth; Jennifer A Collins; Ronald R Breaker
Journal:  Nature       Date:  2004-03-18       Impact factor: 49.962

9.  Interplay of 'induced fit' and preorganization in the ligand induced folding of the aptamer domain of the guanine binding riboswitch.

Authors:  Jonas Noeske; Janina Buck; Boris Fürtig; Hamid R Nasiri; Harald Schwalbe; Jens Wöhnert
Journal:  Nucleic Acids Res       Date:  2006-12-14       Impact factor: 16.971

10.  Structure of a natural guanine-responsive riboswitch complexed with the metabolite hypoxanthine.

Authors:  Robert T Batey; Sunny D Gilbert; Rebecca K Montange
Journal:  Nature       Date:  2004-11-18       Impact factor: 49.962

View more
  64 in total

1.  Premature terminator analysis sheds light on a hidden world of bacterial transcriptional attenuation.

Authors:  Magali Naville; Daniel Gautheret
Journal:  Genome Biol       Date:  2010-09-29       Impact factor: 13.583

2.  Protonation states of the key active site residues and structural dynamics of the glmS riboswitch as revealed by molecular dynamics.

Authors:  Pavel Banás; Nils G Walter; Jirí Sponer; Michal Otyepka
Journal:  J Phys Chem B       Date:  2010-07-08       Impact factor: 2.991

3.  Thermodynamic and kinetic analysis of an RNA kissing interaction and its resolution into an extended duplex.

Authors:  Nilshad Salim; Rajan Lamichhane; Rui Zhao; Tuhina Banerjee; Jane Philip; David Rueda; Andrew L Feig
Journal:  Biophys J       Date:  2012-03-06       Impact factor: 4.033

Review 4.  Advantages and limitations of current network inference methods.

Authors:  Riet De Smet; Kathleen Marchal
Journal:  Nat Rev Microbiol       Date:  2010-08-31       Impact factor: 60.633

Review 5.  Riboswitches and the RNA world.

Authors:  Ronald R Breaker
Journal:  Cold Spring Harb Perspect Biol       Date:  2012-02-01       Impact factor: 10.005

Review 6.  Toward reprogramming bacteria with small molecules and RNA.

Authors:  Justin P Gallivan
Journal:  Curr Opin Chem Biol       Date:  2007-11-19       Impact factor: 8.822

7.  Computational identification of riboswitches based on RNA conserved functional sequences and conformations.

Authors:  Tzu-Hao Chang; Hsien-Da Huang; Li-Ching Wu; Chi-Ta Yeh; Baw-Jhiune Liu; Jorng-Tzong Horng
Journal:  RNA       Date:  2009-05-21       Impact factor: 4.942

8.  Leakage and slow allostery limit performance of single drug-sensing aptazyme molecules based on the hammerhead ribozyme.

Authors:  Chamaree de Silva; Nils G Walter
Journal:  RNA       Date:  2008-11-24       Impact factor: 4.942

9.  Proteomic alterations explain phenotypic changes in Sinorhizobium meliloti lacking the RNA chaperone Hfq.

Authors:  Lise Barra-Bily; Catherine Fontenelle; Gwenael Jan; Maud Flechard; Annie Trautwetter; Shree P Pandey; Graham C Walker; Carlos Blanco
Journal:  J Bacteriol       Date:  2010-01-15       Impact factor: 3.490

10.  The Listeria transcriptional landscape from saprophytism to virulence.

Authors:  Alejandro Toledo-Arana; Olivier Dussurget; Georgios Nikitas; Nina Sesto; Hélène Guet-Revillet; Damien Balestrino; Edmund Loh; Jonas Gripenland; Teresa Tiensuu; Karolis Vaitkevicius; Mathieu Barthelemy; Massimo Vergassola; Marie-Anne Nahori; Guillaume Soubigou; Béatrice Régnault; Jean-Yves Coppée; Marc Lecuit; Jörgen Johansson; Pascale Cossart
Journal:  Nature       Date:  2009-05-17       Impact factor: 49.962

View more

北京卡尤迪生物科技股份有限公司 © 2022-2023.