Literature DB >> 17984961

Chromatin remodeling: insights and intrigue from single-molecule studies.

Bradley R Cairns1.   

Abstract

Chromatin remodelers are ATP-hydrolyzing machines specialized to restructure, mobilize or eject nucleosomes, allowing regulated exposure of DNA in chromatin. Recently, remodelers have been analyzed using single-molecule techniques in real time, revealing them to be complex DNA-pumping machines. The results both support and challenge aspects of current models of remodeling, supporting the idea that the remodeler translocates or pumps DNA loops into and around the nucleosome, while also challenging earlier concepts about loop formation, the character of the loop and how it propagates. Several complex behaviors were observed, such as reverse translocation and long translocation bursts of the remodeler, without appreciable DNA twist. This review presents and discusses revised models for nucleosome sliding and ejection that integrate this new information with the earlier biochemical studies.

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Year:  2007        PMID: 17984961      PMCID: PMC2788559          DOI: 10.1038/nsmb1333

Source DB:  PubMed          Journal:  Nat Struct Mol Biol        ISSN: 1545-9985            Impact factor:   15.369


  75 in total

1.  SWI/SNF chromatin remodeling requires changes in DNA topology.

Authors:  I Gavin; P J Horn; C L Peterson
Journal:  Mol Cell       Date:  2001-01       Impact factor: 17.970

2.  Evidence for DNA translocation by the ISWI chromatin-remodeling enzyme.

Authors:  Iestyn Whitehouse; Chris Stockdale; Andrew Flaus; Mark D Szczelkun; Tom Owen-Hughes
Journal:  Mol Cell Biol       Date:  2003-03       Impact factor: 4.272

3.  Dynamic properties of nucleosomes during thermal and ATP-driven mobilization.

Authors:  Andrew Flaus; Tom Owen-Hughes
Journal:  Mol Cell Biol       Date:  2003-11       Impact factor: 4.272

4.  Structural analysis of the RSC chromatin-remodeling complex.

Authors:  Francisco J Asturias; Wen-Hsiang Chung; Roger D Kornberg; Yahli Lorch
Journal:  Proc Natl Acad Sci U S A       Date:  2002-10-04       Impact factor: 11.205

5.  Topography of the ISW2-nucleosome complex: insights into nucleosome spacing and chromatin remodeling.

Authors:  Mohamedi N Kagalwala; Benjamin J Glaus; Weiwei Dang; Martin Zofall; Blaine Bartholomew
Journal:  EMBO J       Date:  2004-05-06       Impact factor: 11.598

Review 6.  Cellular machineries for chromosomal DNA repair.

Authors:  Craig L Peterson; Jacques Côté
Journal:  Genes Dev       Date:  2004-03-15       Impact factor: 11.361

7.  Interplay between Ino80 and Swr1 chromatin remodeling enzymes regulates cell cycle checkpoint adaptation in response to DNA damage.

Authors:  Manolis Papamichos-Chronakis; Jocelyn E Krebs; Craig L Peterson
Journal:  Genes Dev       Date:  2006-09-01       Impact factor: 11.361

8.  Chromatin remodeling by ISW2 and SWI/SNF requires DNA translocation inside the nucleosome.

Authors:  Martin Zofall; Jim Persinger; Stefan R Kassabov; Blaine Bartholomew
Journal:  Nat Struct Mol Biol       Date:  2006-03-05       Impact factor: 15.369

9.  Modulation of ISWI function by site-specific histone acetylation.

Authors:  Davide F V Corona; Cedric R Clapier; Peter B Becker; John W Tamkun
Journal:  EMBO Rep       Date:  2002-03       Impact factor: 8.807

10.  DNA translocation and loop formation mechanism of chromatin remodeling by SWI/SNF and RSC.

Authors:  Yongli Zhang; Corey L Smith; Anjanabha Saha; Stephan W Grill; Shirley Mihardja; Steven B Smith; Bradley R Cairns; Craig L Peterson; Carlos Bustamante
Journal:  Mol Cell       Date:  2006-11-17       Impact factor: 17.970

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  125 in total

Review 1.  Basic concepts of epigenetics: impact of environmental signals on gene expression.

Authors:  Elizabeth A Mazzio; Karam F A Soliman
Journal:  Epigenetics       Date:  2012-02       Impact factor: 4.528

2.  Single-molecule tools elucidate H2A.Z nucleosome composition.

Authors:  Jiji Chen; Andrew Miller; Ann L Kirchmaier; Joseph M K Irudayaraj
Journal:  J Cell Sci       Date:  2012-03-05       Impact factor: 5.285

3.  In vivo role for the chromatin-remodeling enzyme SWI/SNF in the removal of promoter nucleosomes by disassembly rather than sliding.

Authors:  Christopher R Brown; Changhui Mao; Elena Falkovskaia; Jason K Law; Hinrich Boeger
Journal:  J Biol Chem       Date:  2011-10-06       Impact factor: 5.157

Review 4.  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

Review 5.  Micro- and nanoscale devices for the investigation of epigenetics and chromatin dynamics.

Authors:  Carlos A Aguilar; Harold G Craighead
Journal:  Nat Nanotechnol       Date:  2013-10       Impact factor: 39.213

6.  Bayesian network analysis of targeting interactions in chromatin.

Authors:  Bas van Steensel; Ulrich Braunschweig; Guillaume J Filion; Menzies Chen; Joke G van Bemmel; Trey Ideker
Journal:  Genome Res       Date:  2009-12-09       Impact factor: 9.043

7.  Three-dimensional structure of human chromatin accessibility complex hCHRAC by electron microscopy.

Authors:  Minghui Hu; Yian-Biao Zhang; Luping Qian; Raymond P Briñas; Larisa Kuznetsova; James F Hainfeld
Journal:  J Struct Biol       Date:  2008-09-10       Impact factor: 2.867

Review 8.  Deconstructing repression: evolving models of co-repressor action.

Authors:  Valentina Perissi; Kristen Jepsen; Christopher K Glass; Michael G Rosenfeld
Journal:  Nat Rev Genet       Date:  2010-02       Impact factor: 53.242

9.  Mammalian SWI/SNF--a subunit BAF250/ARID1 is an E3 ubiquitin ligase that targets histone H2B.

Authors:  Xuan Shirley Li; Patrick Trojer; Tatsushi Matsumura; Jessica E Treisman; Naoko Tanese
Journal:  Mol Cell Biol       Date:  2010-01-19       Impact factor: 4.272

Review 10.  How eukaryotic genes are transcribed.

Authors:  Bryan J Venters; B Franklin Pugh
Journal:  Crit Rev Biochem Mol Biol       Date:  2009-06       Impact factor: 8.250

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