Literature DB >> 25650798

Histone exchange, chromatin structure and the regulation of transcription.

Swaminathan Venkatesh1, Jerry L Workman1.   

Abstract

The packaging of DNA into strings of nucleosomes is one of the features that allows eukaryotic cells to tightly regulate gene expression. The ordered disassembly of nucleosomes permits RNA polymerase II (Pol II) to access the DNA, whereas nucleosomal reassembly impedes access, thus preventing transcription and mRNA synthesis. Chromatin modifications, chromatin remodellers, histone chaperones and histone variants regulate nucleosomal dynamics during transcription. Disregulation of nucleosome dynamics results in aberrant transcription initiation, producing non-coding RNAs. Ongoing research is elucidating the molecular mechanisms that regulate chromatin structure during transcription by preventing histone exchange, thereby limiting non-coding RNA expression.

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Year:  2015        PMID: 25650798     DOI: 10.1038/nrm3941

Source DB:  PubMed          Journal:  Nat Rev Mol Cell Biol        ISSN: 1471-0072            Impact factor:   94.444


  161 in total

1.  Genome-wide function of H2B ubiquitylation in promoter and genic regions.

Authors:  Kiran Batta; Zhenhai Zhang; Kuangyu Yen; David B Goffman; B Franklin Pugh
Journal:  Genes Dev       Date:  2011-11-01       Impact factor: 11.361

2.  Sequence requirements for combinatorial recognition of histone H3 by the MRG15 and Pf1 subunits of the Rpd3S/Sin3S corepressor complex.

Authors:  Ganesan Senthil Kumar; William Chang; Tao Xie; Anand Patel; Yongbo Zhang; Gang Greg Wang; Gregory David; Ishwar Radhakrishnan
Journal:  J Mol Biol       Date:  2012-06-21       Impact factor: 5.469

3.  Histone H3 methylation by Set2 directs deacetylation of coding regions by Rpd3S to suppress spurious intragenic transcription.

Authors:  Michael J Carrozza; Bing Li; Laurence Florens; Tamaki Suganuma; Selene K Swanson; Kenneth K Lee; Wei-Jong Shia; Scott Anderson; John Yates; Michael P Washburn; Jerry L Workman
Journal:  Cell       Date:  2005-11-18       Impact factor: 41.582

4.  Acetylation by Tip60 is required for selective histone variant exchange at DNA lesions.

Authors:  Thomas Kusch; Laurence Florens; W Hayes Macdonald; Selene K Swanson; Robert L Glaser; John R Yates; Susan M Abmayr; Michael P Washburn; Jerry L Workman
Journal:  Science       Date:  2004-11-04       Impact factor: 47.728

5.  The Iws1:Spt6:CTD complex controls cotranscriptional mRNA biosynthesis and HYPB/Setd2-mediated histone H3K36 methylation.

Authors:  Sunnie M Yoh; Joseph S Lucas; Katherine A Jones
Journal:  Genes Dev       Date:  2008-12-15       Impact factor: 11.361

6.  TrxG and PcG proteins but not methylated histones remain associated with DNA through replication.

Authors:  Svetlana Petruk; Yurii Sedkov; Danika M Johnston; Jacob W Hodgson; Kathryn L Black; Sina K Kovermann; Samantha Beck; Eli Canaani; Hugh W Brock; Alexander Mazo
Journal:  Cell       Date:  2012-08-23       Impact factor: 41.582

7.  Dynamics of replication-independent histone turnover in budding yeast.

Authors:  Michael F Dion; Tommy Kaplan; Minkyu Kim; Stephen Buratowski; Nir Friedman; Oliver J Rando
Journal:  Science       Date:  2007-03-09       Impact factor: 47.728

8.  Stepwise assembly of chromatin during DNA replication in vitro.

Authors:  S Smith; B Stillman
Journal:  EMBO J       Date:  1991-04       Impact factor: 11.598

9.  Psip1/Ledgf p52 binds methylated histone H3K36 and splicing factors and contributes to the regulation of alternative splicing.

Authors:  Madapura M Pradeepa; Heidi G Sutherland; Jernej Ule; Graeme R Grimes; Wendy A Bickmore
Journal:  PLoS Genet       Date:  2012-05-17       Impact factor: 5.917

10.  The histone chaperones Nap1 and Vps75 bind histones H3 and H4 in a tetrameric conformation.

Authors:  Andrew Bowman; Richard Ward; Nicola Wiechens; Vijender Singh; Hassane El-Mkami; David George Norman; Tom Owen-Hughes
Journal:  Mol Cell       Date:  2011-02-18       Impact factor: 17.970

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  365 in total

1.  Promoter-Targeted Histone Acetylation of Chromatinized Parvoviral Genome Is Essential for the Progress of Infection.

Authors:  Elina Mäntylä; Kari Salokas; Mikko Oittinen; Vesa Aho; Pekka Mäntysaari; Lassi Palmujoki; Olli Kalliolinna; Teemu O Ihalainen; Einari A Niskanen; Jussi Timonen; Keijo Viiri; Maija Vihinen-Ranta
Journal:  J Virol       Date:  2016-03-28       Impact factor: 5.103

2.  Lens differentiation is characterized by stage-specific changes in chromatin accessibility correlating with differentiation state-specific gene expression.

Authors:  Joshua Disatham; Daniel Chauss; Rifah Gheyas; Lisa Brennan; David Blanco; Lauren Daley; A Sue Menko; Marc Kantorow
Journal:  Dev Biol       Date:  2019-05-25       Impact factor: 3.582

3.  A Light-Inducible Strain for Genome-Wide Histone Turnover Profiling in Neurospora crassa.

Authors:  William K Storck; Sabrina Z Abdulla; Michael R Rountree; Vincent T Bicocca; Eric U Selker
Journal:  Genetics       Date:  2020-05-01       Impact factor: 4.562

4.  Emerging Chemistry Strategies for Engineering Native Chromatin.

Authors:  Yael David; Tom W Muir
Journal:  J Am Chem Soc       Date:  2017-06-27       Impact factor: 15.419

Review 5.  Mechanisms of action and regulation of ATP-dependent chromatin-remodelling complexes.

Authors:  Cedric R Clapier; Janet Iwasa; Bradley R Cairns; Craig L Peterson
Journal:  Nat Rev Mol Cell Biol       Date:  2017-05-17       Impact factor: 94.444

6.  RNA polymerase I (Pol I) passage through nucleosomes depends on Pol I subunits binding its lobe structure.

Authors:  Philipp E Merkl; Michael Pilsl; Tobias Fremter; Katrin Schwank; Christoph Engel; Gernot Längst; Philipp Milkereit; Joachim Griesenbeck; Herbert Tschochner
Journal:  J Biol Chem       Date:  2020-02-14       Impact factor: 5.157

7.  Inferring expressed genes by whole-genome sequencing of plasma DNA.

Authors:  Peter Ulz; Gerhard G Thallinger; Martina Auer; Ricarda Graf; Karl Kashofer; Stephan W Jahn; Luca Abete; Gunda Pristauz; Edgar Petru; Jochen B Geigl; Ellen Heitzer; Michael R Speicher
Journal:  Nat Genet       Date:  2016-08-29       Impact factor: 38.330

Review 8.  Chaperone-mediated chromatin assembly and transcriptional regulation in Xenopus laevis.

Authors:  Takashi Onikubo; David Shechter
Journal:  Int J Dev Biol       Date:  2016       Impact factor: 2.203

9.  Epigenetics in the Primary Biliary Cholangitis and Primary Sclerosing Cholangitis.

Authors:  Angela C Cheung; Nicholas F LaRusso; Gregory J Gores; Konstantinos N Lazaridis
Journal:  Semin Liver Dis       Date:  2017-05-31       Impact factor: 6.115

10.  Protein Palmitoylation Regulates Neural Stem Cell Differentiation by Modulation of EID1 Activity.

Authors:  Xueran Chen; Zhaoxia Du; Xian Li; Liyan Wang; Fuwu Wang; Wei Shi; Aijun Hao
Journal:  Mol Neurobiol       Date:  2015-10-26       Impact factor: 5.590

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