Literature DB >> 29310890

The Latest Twists in Chromatin Remodeling.

Ralf Blossey1, Helmut Schiessel2.   

Abstract

In its most restrictive interpretation, the notion of chromatin remodeling refers to the action of chromatin-remodeling enzymes on nucleosomes with the aim of displacing and removing them from the chromatin fiber (the effective polymer formed by a DNA molecule and proteins). This local modification of the fiber structure can have consequences for the initiation and repression of the transcription process, and when the remodeling process spreads along the fiber, it also results in long-range effects essential for fiber condensation. There are three regulatory levels of relevance that can be distinguished for this process: the intrinsic sequence preference of the histone octamer, which rules the positioning of the nucleosome along the DNA, notably in relation to the genetic information coded in DNA; the recognition or selection of nucleosomal substrates by remodeling complexes; and, finally, the motor action on the nucleosome exerted by the chromatin remodeler. Recent work has been able to provide crucial insights at each of these three levels that add new twists to this exciting and unfinished story, which we highlight in this perspective.
Copyright © 2017 Biophysical Society. Published by Elsevier Inc. All rights reserved.

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Year:  2018        PMID: 29310890      PMCID: PMC6129451          DOI: 10.1016/j.bpj.2017.12.008

Source DB:  PubMed          Journal:  Biophys J        ISSN: 0006-3495            Impact factor:   4.033


  53 in total

1.  Nucleosome switches.

Authors:  David J Schwab; Robijn F Bruinsma; Joseph Rudnick; Jonathan Widom
Journal:  Phys Rev Lett       Date:  2008-06-06       Impact factor: 9.161

2.  Kinetic proofreading in chromatin remodeling: the case of ISWI/ACF.

Authors:  Ralf Blossey; Helmut Schiessel
Journal:  Biophys J       Date:  2011-08-17       Impact factor: 4.033

3.  Sequence periodicities in chicken nucleosome core DNA.

Authors:  S C Satchwell; H R Drew; A A Travers
Journal:  J Mol Biol       Date:  1986-10-20       Impact factor: 5.469

4.  Statistical distributions of nucleosomes: nonrandom locations by a stochastic mechanism.

Authors:  R D Kornberg; L Stryer
Journal:  Nucleic Acids Res       Date:  1988-07-25       Impact factor: 16.971

5.  Mechanism of protein access to specific DNA sequences in chromatin: a dynamic equilibrium model for gene regulation.

Authors:  K J Polach; J Widom
Journal:  J Mol Biol       Date:  1995-11-24       Impact factor: 5.469

Review 6.  Determinants of nucleosome positioning.

Authors:  Kevin Struhl; Eran Segal
Journal:  Nat Struct Mol Biol       Date:  2013-03       Impact factor: 15.369

7.  A role for Snf2-related nucleosome-spacing enzymes in genome-wide nucleosome organization.

Authors:  Triantaffyllos Gkikopoulos; Pieta Schofield; Vijender Singh; Marina Pinskaya; Jane Mellor; Michaela Smolle; Jerry L Workman; Geoffrey J Barton; Tom Owen-Hughes
Journal:  Science       Date:  2011-09-23       Impact factor: 47.728

8.  A map of nucleosome positions in yeast at base-pair resolution.

Authors:  Kristin Brogaard; Liqun Xi; Ji-Ping Wang; Jonathan Widom
Journal:  Nature       Date:  2012-06-28       Impact factor: 49.962

9.  Evidence of selection for an accessible nucleosomal array in human.

Authors:  Guénola Drillon; Benjamin Audit; Françoise Argoul; Alain Arneodo
Journal:  BMC Genomics       Date:  2016-07-29       Impact factor: 3.969

10.  Benchmarking and refining probability-based models for nucleosome-DNA interaction.

Authors:  Marco Tompitak; Gerard T Barkema; Helmut Schiessel
Journal:  BMC Bioinformatics       Date:  2017-03-07       Impact factor: 3.169

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  3 in total

Review 1.  BAZ1B the Protean Protein.

Authors:  Shahin Behrouz Sharif; Nina Zamani; Brian P Chadwick
Journal:  Genes (Basel)       Date:  2021-09-28       Impact factor: 4.096

Review 2.  Alternative Splicing, Epigenetic Modifications and Cancer: A Dangerous Triangle, or a Hopeful One?

Authors:  Francisco Gimeno-Valiente; Gerardo López-Rodas; Josefa Castillo; Luis Franco
Journal:  Cancers (Basel)       Date:  2022-01-22       Impact factor: 6.639

3.  Crystal structure of the full Swi2/Snf2 remodeler Mot1 in the resting state.

Authors:  Agata Butryn; Stephan Woike; Savera J Shetty; David T Auble; Karl-Peter Hopfner
Journal:  Elife       Date:  2018-10-05       Impact factor: 8.140

  3 in total

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