Literature DB >> 19250859

Expanding roles for metabolite-sensing regulatory RNAs.

Michael D Dambach1, Wade C Winkler.   

Abstract

Metabolite-sensing regulatory RNAs, oft referred to as riboswitches, are widely used among eubacteria for control of diverse biochemical pathways and transport mechanisms. Great strides have been made in understanding the general structure and biochemistry of individual riboswitch classes. However, along with these advancements, it has become clear that metabolite-sensing riboswitches respond to an increasingly structurally diverse range of metabolite and metal ligands. Moreover, the recent accruement of new riboswitches has uncovered individual examples and classes that utilize unique regulatory strategies or employ a regulatory logic other than simple feedback inhibition.

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Year:  2009        PMID: 19250859      PMCID: PMC2846827          DOI: 10.1016/j.mib.2009.01.012

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


  44 in total

Review 1.  Alternative splicing: new insights from global analyses.

Authors:  Benjamin J Blencowe
Journal:  Cell       Date:  2006-07-14       Impact factor: 41.582

2.  Tandem riboswitch architectures exhibit complex gene control functions.

Authors:  Narasimhan Sudarsan; Ming C Hammond; Kirsten F Block; Rüdiger Welz; Jeffrey E Barrick; Adam Roth; Ronald R Breaker
Journal:  Science       Date:  2006-10-13       Impact factor: 47.728

3.  Structural basis of glmS ribozyme activation by glucosamine-6-phosphate.

Authors:  Daniel J Klein; Adrian R Ferré-D'Amaré
Journal:  Science       Date:  2006-09-22       Impact factor: 47.728

Review 4.  Small regulatory non-coding RNAs in bacteria: physiology and mechanistic aspects.

Authors:  Francis Repoila; Fabien Darfeuille
Journal:  Biol Cell       Date:  2009-02       Impact factor: 4.458

5.  Engineering complex riboswitch regulation by dual genetic selection.

Authors:  Vandana Sharma; Yoko Nomura; Yohei Yokobayashi
Journal:  J Am Chem Soc       Date:  2008-12-03       Impact factor: 15.419

Review 6.  Engineered riboswitches: overview, problems and trends.

Authors:  Beatrix Suess; Julia E Weigand
Journal:  RNA Biol       Date:  2008-03-25       Impact factor: 4.652

7.  Coenzyme B12 controls transcription of the Streptomyces class Ia ribonucleotide reductase nrdABS operon via a riboswitch mechanism.

Authors:  Ilya Borovok; Batia Gorovitz; Rachel Schreiber; Yair Aharonowitz; Gerald Cohen
Journal:  J Bacteriol       Date:  2006-04       Impact factor: 3.490

8.  Unique glycine-activated riboswitch linked to glycine-serine auxotrophy in SAR11.

Authors:  H James Tripp; Michael S Schwalbach; Michelle M Meyer; Joshua B Kitner; Ronald R Breaker; Stephen J Giovannoni
Journal:  Environ Microbiol       Date:  2009-01       Impact factor: 5.491

9.  Riboswitches in eubacteria sense the second messenger cyclic di-GMP.

Authors:  N Sudarsan; E R Lee; Z Weinberg; R H Moy; J N Kim; K H Link; R R Breaker
Journal:  Science       Date:  2008-07-18       Impact factor: 47.728

10.  Multiple posttranscriptional regulatory mechanisms partner to control ethanolamine utilization in Enterococcus faecalis.

Authors:  Kristina A Fox; Arati Ramesh; Jennifer E Stearns; Agathe Bourgogne; Angelica Reyes-Jara; Wade C Winkler; Danielle A Garsin
Journal:  Proc Natl Acad Sci U S A       Date:  2009-02-25       Impact factor: 11.205

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  52 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.  Structural and biochemical characterization of linear dinucleotide analogues bound to the c-di-GMP-I aptamer.

Authors:  Kathryn D Smith; Sarah V Lipchock; Scott A Strobel
Journal:  Biochemistry       Date:  2011-12-27       Impact factor: 3.162

Review 3.  Beyond DNA origami: the unfolding prospects of nucleic acid nanotechnology.

Authors:  Nicole Michelotti; Alexander Johnson-Buck; Anthony J Manzo; Nils G Walter
Journal:  Wiley Interdiscip Rev Nanomed Nanobiotechnol       Date:  2011-11-30

4.  New strategy for the synthesis of chemically modified RNA constructs exemplified by hairpin and hammerhead ribozymes.

Authors:  Afaf H El-Sagheer; Tom Brown
Journal:  Proc Natl Acad Sci U S A       Date:  2010-08-16       Impact factor: 11.205

5.  Folding of a transcriptionally acting preQ1 riboswitch.

Authors:  Ulrike Rieder; Christoph Kreutz; Ronald Micura
Journal:  Proc Natl Acad Sci U S A       Date:  2010-06-01       Impact factor: 11.205

6.  Evidence for widespread gene control function by the ydaO riboswitch candidate.

Authors:  Kirsten F Block; Ming C Hammond; Ronald R Breaker
Journal:  J Bacteriol       Date:  2010-05-28       Impact factor: 3.490

7.  Identification of ligand analogues that control c-di-GMP riboswitches.

Authors:  Kazuhiro Furukawa; Hongzhou Gu; Narasimhan Sudarsan; Yoshihiro Hayakawa; Mamoru Hyodo; Ronald R Breaker
Journal:  ACS Chem Biol       Date:  2012-06-19       Impact factor: 5.100

Review 8.  Interactions of the c-di-GMP riboswitch with its second messenger ligand.

Authors:  Kathryn D Smith; Scott A Strobel
Journal:  Biochem Soc Trans       Date:  2011-04       Impact factor: 5.407

Review 9.  Computational analysis of riboswitch-based regulation.

Authors:  Eric I Sun; Dmitry A Rodionov
Journal:  Biochim Biophys Acta       Date:  2014-02-28

Review 10.  Fluorescent indicator displacement assays to identify and characterize small molecule interactions with RNA.

Authors:  Sarah L Wicks; Amanda E Hargrove
Journal:  Methods       Date:  2019-04-30       Impact factor: 3.608

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