Literature DB >> 18948199

In vitro approaches to analysis of transcription termination.

Irina Artsimovitch1, Tina M Henkin.   

Abstract

Transcription termination is an important event in the transcription cycle that has been exploited in a variety of genetic regulatory mechanisms. Analysis of transcription termination is greatly facilitated by in vitro approaches. We describe a basic protocol for analysis of transcription termination in vitro, and include descriptions of parameters that can be modified for specific types of experimental questions.

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Year:  2008        PMID： 18948199      PMCID： PMC2652710          DOI： 10.1016/j.ymeth.2008.10.006

Source DB:  PubMed          Journal:  Methods        ISSN： 1046-2023            Impact factor:   3.608


  31 in total

1.  Rapid purification of His(6)-tagged Bacillus subtilis core RNA polymerase.

Authors:  L C Anthony; I Artsimovitch; V Svetlov; R Landick; R R Burgess
Journal:  Protein Expr Purif       Date:  2000-08       Impact factor: 1.650

2.  RNA polymerases from Bacillus subtilis and Escherichia coli differ in recognition of regulatory signals in vitro.

Authors:  I Artsimovitch; V Svetlov; L Anthony; R R Burgess; R Landick
Journal:  J Bacteriol       Date:  2000-11       Impact factor: 3.490

3.  Structural basis for transcription inhibition by tagetitoxin.

Authors:  Dmitry G Vassylyev; Vladimir Svetlov; Marina N Vassylyeva; Anna Perederina; Noriyuki Igarashi; Naohiro Matsugaki; Soichi Wakatsuki; Irina Artsimovitch
Journal:  Nat Struct Mol Biol       Date:  2005-11-06       Impact factor: 15.369

Review 4.  From ribosome to riboswitch: control of gene expression in bacteria by RNA structural rearrangements.

Authors:  Frank J Grundy; Tina M Henkin
Journal:  Crit Rev Biochem Mol Biol       Date:  2006 Nov-Dec       Impact factor: 8.250

5.  Role of DNA bubble rewinding in enzymatic transcription termination.

Authors:  Joo-Seop Park; Jeffrey W Roberts
Journal:  Proc Natl Acad Sci U S A       Date:  2006-03-21       Impact factor: 11.205

6.  Mapping protease susceptibility sites on the Escherichia coli transcription factor sigma70.

Authors:  S A McMahan; R R Burgess
Journal:  Biochemistry       Date:  1999-09-21       Impact factor: 3.162

7.  Competition among seven Escherichia coli sigma subunits: relative binding affinities to the core RNA polymerase.

Authors:  H Maeda; N Fujita; A Ishihama
Journal:  Nucleic Acids Res       Date:  2000-09-15       Impact factor: 16.971

8.  Recombinant Thermus aquaticus RNA polymerase, a new tool for structure-based analysis of transcription.

Authors:  L Minakhin; S Nechaev; E A Campbell; K Severinov
Journal:  J Bacteriol       Date:  2001-01       Impact factor: 3.490

9.  Recombinant Thermus aquaticus RNA polymerase for structural studies.

Authors:  Konstantin Kuznedelov; Valerie Lamour; Georgia Patikoglou; Mark Chlenov; Seth A Darst; Konstantin Severinov
Journal:  J Mol Biol       Date:  2006-03-23       Impact factor: 5.469

10.  Natural variability in S-adenosylmethionine (SAM)-dependent riboswitches: S-box elements in bacillus subtilis exhibit differential sensitivity to SAM In vivo and in vitro.

Authors:  Jerneja Tomsic; Brooke A McDaniel; Frank J Grundy; Tina M Henkin
Journal:  J Bacteriol       Date:  2007-11-26       Impact factor: 3.490
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  28 in total

1.  T box riboswitches in Actinobacteria: translational regulation via novel tRNA interactions.

Authors:  Anna V Sherwood; Frank J Grundy; Tina M Henkin
Journal:  Proc Natl Acad Sci U S A       Date:  2015-01-12       Impact factor: 11.205

2.  Structure-guided mutational analysis of gene regulation by the Bacillus subtilis pbuE adenine-responsive riboswitch in a cellular context.

Authors:  Joan G Marcano-Velázquez; Robert T Batey
Journal:  J Biol Chem       Date:  2014-12-30       Impact factor: 5.157

3.  Structural basis for λN-dependent processive transcription antitermination.

Authors:  Nelly Said; Ferdinand Krupp; Ekaterina Anedchenko; Karine F Santos; Olexandr Dybkov; Yong-Heng Huang; Chung-Tien Lee; Bernhard Loll; Elmar Behrmann; Jörg Bürger; Thorsten Mielke; Justus Loerke; Henning Urlaub; Christian M T Spahn; Gert Weber; Markus C Wahl
Journal:  Nat Microbiol       Date:  2017-04-28       Impact factor: 17.745

4.  Modularity of select riboswitch expression platforms enables facile engineering of novel genetic regulatory devices.

Authors:  Pablo Ceres; Andrew D Garst; Joan G Marcano-Velázquez; Robert T Batey
Journal:  ACS Synth Biol       Date:  2013-03-28       Impact factor: 5.110

5.  Unusually long-lived pause required for regulation of a Rho-dependent transcription terminator.

Authors:  Kerry Hollands; Anastasia Sevostiyanova; Eduardo A Groisman
Journal:  Proc Natl Acad Sci U S A       Date:  2014-04-28       Impact factor: 11.205

6.  In Vitro Transcription Assays and Their Application in Drug Discovery.

Authors:  Xiao Yang; Cong Ma
Journal:  J Vis Exp       Date:  2016-09-20       Impact factor: 1.355

7.  Transcription antitermination by a phosphorylated response regulator and cobalamin-dependent termination at a B₁₂ riboswitch contribute to ethanolamine utilization in Enterococcus faecalis.

Authors:  Kris Ann Baker; Marta Perego
Journal:  J Bacteriol       Date:  2011-03-25       Impact factor: 3.490

8.  The structure of a tetrahydrofolate-sensing riboswitch reveals two ligand binding sites in a single aptamer.

Authors:  Jeremiah J Trausch; Pablo Ceres; Francis E Reyes; Robert T Batey
Journal:  Structure       Date:  2011-09-08       Impact factor: 5.006

9.  Gene Regulation Gets in Tune: How Riboswitch Tertiary-Structure Networks Adapt to Meet the Needs of Their Transcription Units.

Authors:  Debapratim Dutta; Joseph E Wedekind
Journal:  J Mol Biol       Date:  2015-08-06       Impact factor: 5.469

10.  Factors that influence T box riboswitch efficacy and tRNA affinity.

Authors:  C Zeng; S Zhou; S C Bergmeier; J V Hines
Journal:  Bioorg Med Chem       Date:  2015-07-16       Impact factor: 3.641
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