Literature DB >> 23086297

The ydaO motif is an ATP-sensing riboswitch in Bacillus subtilis.

Peter Y Watson1, Martha J Fedor.   

Abstract

We report what is to our knowledge the first natural RNA that regulates gene expression in response to intracellular ATP. Using a biochemical screen, we found that several putative riboswitches bind ATP in vitro. The ydaO motif specifically bound ATP and regulated expression of endogenous and reporter genes in response to ATP concentrations in Bacillus subtilis. This discovery demonstrates a role for RNAs in regulating gene expression in response to energy balance in bacteria.

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Year:  2012        PMID： 23086297     DOI： 10.1038/nchembio.1095

Source DB:  PubMed          Journal:  Nat Chem Biol        ISSN： 1552-4450            Impact factor:   15.040


  25 in total

1.  New RNA motifs suggest an expanded scope for riboswitches in bacterial genetic control.

Authors:  Jeffrey E Barrick; Keith A Corbino; Wade C Winkler; Ali Nahvi; Maumita Mandal; Jennifer Collins; Mark Lee; Adam Roth; Narasimhan Sudarsan; Inbal Jona; J Kenneth Wickiser; Ronald R Breaker
Journal:  Proc Natl Acad Sci U S A       Date:  2004-04-19       Impact factor: 11.205

2.  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

3.  An intermolecular base triple as the basis of ligand specificity and affinity in the guanine- and adenine-sensing riboswitch RNAs.

Authors:  Jonas Noeske; Christian Richter; Marc A Grundl; Hamid R Nasiri; Harald Schwalbe; Jens Wöhnert
Journal:  Proc Natl Acad Sci U S A       Date:  2005-01-21       Impact factor: 11.205

4.  Isolated epsilon subunit of Bacillus subtilis F1-ATPase binds ATP.

Authors:  Yasuyuki Kato-Yamada
Journal:  FEBS Lett       Date:  2005-12-01       Impact factor: 4.124

Review 5.  AMPK: a nutrient and energy sensor that maintains energy homeostasis.

Authors:  D Grahame Hardie; Fiona A Ross; Simon A Hawley
Journal:  Nat Rev Mol Cell Biol       Date:  2012-03-22       Impact factor: 94.444

6.  Mammalian TOR: a homeostatic ATP sensor.

Authors:  P B Dennis; A Jaeschke; M Saitoh; B Fowler; S C Kozma; G Thomas
Journal:  Science       Date:  2001-11-02       Impact factor: 47.728

7.  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

8.  KtrAB and KtrCD: two K+ uptake systems in Bacillus subtilis and their role in adaptation to hypertonicity.

Authors:  Gudrun Holtmann; Evert P Bakker; Nobuyuki Uozumi; Erhard Bremer
Journal:  J Bacteriol       Date:  2003-02       Impact factor: 3.490

9.  Control of a Salmonella virulence locus by an ATP-sensing leader messenger RNA.

Authors:  Eun-Jin Lee; Eduardo A Groisman
Journal:  Nature       Date:  2012-06-13       Impact factor: 49.962

Review 10.  Regulation of ATP production by mitochondrial Ca(2+).

Authors:  Andrei I Tarasov; Elinor J Griffiths; Guy A Rutter
Journal:  Cell Calcium       Date:  2012-04-12       Impact factor: 6.817
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  22 in total

Review 1.  Recent advances and future trends of riboswitches: attractive regulatory tools.

Authors:  Jean Paul Sinumvayo; Chunhua Zhao; Philibert Tuyishime
Journal:  World J Microbiol Biotechnol       Date:  2018-11-09       Impact factor: 3.312

2.  Challenges of ligand identification for the second wave of orphan riboswitch candidates.

Authors:  Etienne B Greenlee; Shira Stav; Ruben M Atilho; Kenneth I Brewer; Kimberly A Harris; Sarah N Malkowski; Gayan Mirihana Arachchilage; Kevin R Perkins; Madeline E Sherlock; Ronald R Breaker
Journal:  RNA Biol       Date:  2018-02-01       Impact factor: 4.652

3.  Secondary structural entropy in RNA switch (Riboswitch) identification.

Authors:  Amirhossein Manzourolajdad; Jonathan Arnold
Journal:  BMC Bioinformatics       Date:  2015-04-28       Impact factor: 3.169

4.  Crystal structure of a c-di-AMP riboswitch reveals an internally pseudo-dimeric RNA.

Authors:  Christopher P Jones; Adrian R Ferré-D'Amaré
Journal:  EMBO J       Date:  2014-09-30       Impact factor: 11.598

5.  Systematic analysis of the underlying genomic architecture for transcriptional-translational coupling in prokaryotes.

Authors:  Richa Bharti; Daniel Siebert; Bastian Blombach; Dominik G Grimm
Journal:  NAR Genom Bioinform       Date:  2022-09-27

Review 6.  A decade of riboswitches.

Authors:  Alexander Serganov; Evgeny Nudler
Journal:  Cell       Date:  2013-01-17       Impact factor: 41.582

7.  Structural insights into recognition of c-di-AMP by the ydaO riboswitch.

Authors:  Ang Gao; Alexander Serganov
Journal:  Nat Chem Biol       Date:  2014-08-03       Impact factor: 15.040

Review 8.  Molecular Mechanisms for Bacterial Potassium Homeostasis.

Authors:  Janina Stautz; Yvonne Hellmich; Michael F Fuss; Jakob M Silberberg; Jason R Devlin; Randy B Stockbridge; Inga Hänelt
Journal:  J Mol Biol       Date:  2021-03-30       Impact factor: 6.151

9.  Discovery of widespread GTP-binding motifs in genomic DNA and RNA.

Authors:  Edward A Curtis; David R Liu
Journal:  Chem Biol       Date:  2013-04-18

10.  Riboswitches in eubacteria sense the second messenger c-di-AMP.

Authors:  James W Nelson; Narasimhan Sudarsan; Kazuhiro Furukawa; Zasha Weinberg; Joy X Wang; Ronald R Breaker
Journal:  Nat Chem Biol       Date:  2013-10-20       Impact factor: 15.040
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