Literature DB >> 21334966

Regulation of gene expression by reiterative transcription.

Charles L Turnbough1.   

Abstract

Gene regulation involves many different types of transcription control mechanisms, including mechanisms based on reiterative transcription in which nucleotides are repetitively added to the 3' end of a nascent transcript due to upstream transcript slippage. In these mechanisms, reiterative transcription is typically modulated by interactions between RNA polymerase and its nucleoside triphosphate substrates without the involvement of regulatory proteins. This review describes the current state of knowledge of gene regulation involving reiterative transcription. It focuses on the methods by which reiterative transcription is controlled and emphasizes the different fates of transcripts produced by this reaction. The review also includes a discussion of possible new and fundamentally different mechanisms of gene regulation that rely on conditional reiterative transcription.
Copyright © 2011 Elsevier Ltd. All rights reserved.

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Year:  2011        PMID: 21334966      PMCID: PMC3078970          DOI: 10.1016/j.mib.2011.01.012

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


  38 in total

Review 1.  The G x U wobble base pair. A fundamental building block of RNA structure crucial to RNA function in diverse biological systems.

Authors:  G Varani; W H McClain
Journal:  EMBO Rep       Date:  2000-07       Impact factor: 8.807

2.  A long T. A tract in the upp initially transcribed region is required for regulation of upp expression by UTP-dependent reiterative transcription in Escherichia coli.

Authors:  Y Cheng; S M Dylla; C L Turnbough
Journal:  J Bacteriol       Date:  2001-01       Impact factor: 3.490

3.  Polymerase slippage at vesicular stomatitis virus gene junctions to generate poly(A) is regulated by the upstream 3'-AUAC-5' tetranucleotide: implications for the mechanism of transcription termination.

Authors:  J N Barr; G W Wertz
Journal:  J Virol       Date:  2001-08       Impact factor: 5.103

4.  TATA-binding protein and transcription factor IIB induce transcript slipping during early transcription by RNA polymerase II.

Authors:  Benjamin Gilman; Linda F Drullinger; Jennifer F Kugel; James A Goodrich
Journal:  J Biol Chem       Date:  2009-02-04       Impact factor: 5.157

5.  Maintenance of RNA-DNA hybrid length in bacterial RNA polymerases.

Authors:  Tatyana Kent; Ekaterina Kashkina; Michael Anikin; Dmitry Temiakov
Journal:  J Biol Chem       Date:  2009-03-25       Impact factor: 5.157

6.  Nonlinearity in genetic decoding: homologous DNA replicase genes use alternatives of transcriptional slippage or translational frameshifting.

Authors:  B Larsen; N M Wills; C Nelson; J F Atkins; R F Gesteland
Journal:  Proc Natl Acad Sci U S A       Date:  2000-02-15       Impact factor: 11.205

7.  Regulation of transcription of the Bacillus subtilis pyrG gene, encoding cytidine triphosphate synthetase.

Authors:  Q Meng; R L Switzer
Journal:  J Bacteriol       Date:  2001-10       Impact factor: 3.490

8.  PromEC: An updated database of Escherichia coli mRNA promoters with experimentally identified transcriptional start sites.

Authors:  R Hershberg; G Bejerano; A Santos-Zavaleta; H Margalit
Journal:  Nucleic Acids Res       Date:  2001-01-01       Impact factor: 16.971

9.  The 8-nucleotide-long RNA:DNA hybrid is a primary stability determinant of the RNA polymerase II elongation complex.

Authors:  M L Kireeva; N Komissarova; D S Waugh; M Kashlev
Journal:  J Biol Chem       Date:  2000-03-03       Impact factor: 5.157

10.  Molecular evolution of multisubunit RNA polymerases: sequence analysis.

Authors:  William J Lane; Seth A Darst
Journal:  J Mol Biol       Date:  2009-11-03       Impact factor: 5.469

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  24 in total

1.  Preparation of cDNA libraries for high-throughput RNA sequencing analysis of RNA 5' ends.

Authors:  Irina O Vvedenskaya; Seth R Goldman; Bryce E Nickels
Journal:  Methods Mol Biol       Date:  2015

2.  A pilot study of bacterial genes with disrupted ORFs reveals a surprising profusion of protein sequence recoding mediated by ribosomal frameshifting and transcriptional realignment.

Authors:  Virag Sharma; Andrew E Firth; Ivan Antonov; Olivier Fayet; John F Atkins; Mark Borodovsky; Pavel V Baranov
Journal:  Mol Biol Evol       Date:  2011-06-14       Impact factor: 16.240

Review 3.  Regulation of Bacterial Gene Expression by Transcription Attenuation.

Authors:  Charles L Turnbough
Journal:  Microbiol Mol Biol Rev       Date:  2019-07-03       Impact factor: 11.056

4.  X-ray crystal structure of a reiterative transcription complex reveals an atypical RNA extension pathway.

Authors:  Katsuhiko S Murakami; Yeonoh Shin; Charles L Turnbough; Vadim Molodtsov
Journal:  Proc Natl Acad Sci U S A       Date:  2017-06-26       Impact factor: 11.205

5.  Massively Systematic Transcript End Readout, "MASTER": Transcription Start Site Selection, Transcriptional Slippage, and Transcript Yields.

Authors:  Irina O Vvedenskaya; Yuanchao Zhang; Seth R Goldman; Anna Valenti; Valeria Visone; Deanne M Taylor; Richard H Ebright; Bryce E Nickels
Journal:  Mol Cell       Date:  2015-11-25       Impact factor: 17.970

6.  Differential role of base pairs on gal promoters strength.

Authors:  Dale E A Lewis; Phuoc Le; Sankar Adhya
Journal:  J Mol Biol       Date:  2014-12-24       Impact factor: 5.469

7.  The fidelity of transcription: RPB1 (RPO21) mutations that increase transcriptional slippage in S. cerevisiae.

Authors:  Jeffrey Strathern; Francisco Malagon; Jordan Irvin; Deanna Gotte; Brenda Shafer; Maria Kireeva; Lucyna Lubkowska; Ding Jun Jin; Mikhail Kashlev
Journal:  J Biol Chem       Date:  2012-12-05       Impact factor: 5.157

8.  Transcription start site sequence and spacing between the -10 region and the start site affect reiterative transcription-mediated regulation of gene expression in Escherichia coli.

Authors:  Xiaosi Han; Charles L Turnbough
Journal:  J Bacteriol       Date:  2014-06-02       Impact factor: 3.490

9.  The presence of an RNA:DNA hybrid that is prone to slippage promotes termination by T7 RNA polymerase.

Authors:  Vadim Molodtsov; Michael Anikin; William T McAllister
Journal:  J Mol Biol       Date:  2014-06-27       Impact factor: 5.469

Review 10.  A Two-Way Street: Regulatory Interplay between RNA Polymerase and Nascent RNA Structure.

Authors:  Jinwei Zhang; Robert Landick
Journal:  Trends Biochem Sci       Date:  2016-01-25       Impact factor: 13.807

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