Literature DB >> 34070411

Sophisticated Conversations between Chromatin and Chromatin Remodelers, and Dissonances in Cancer.

Cedric R Clapier1.   

Abstract

The establishment and maintenance of genome packaging into chromatin contribute to define specific cellular identity and function. Dynamic regulation of chromatin organization and nucleosome positioning are critical to all DNA transactions-in particular, the regulation of gene expression-and involve the cooperative action of sequence-specific DNA-binding factors, histone modifying enzymes, and remodelers. Remodelers are molecular machines that generate various chromatin landscapes, adjust nucleosome positioning, and alter DNA accessibility by using ATP binding and hydrolysis to perform DNA translocation, which is highly regulated through sophisticated structural and functional conversations with nucleosomes. In this review, I first present the functional and structural diversity of remodelers, while emphasizing the basic mechanism of DNA translocation, the common regulatory aspects, and the hand-in-hand progressive increase in complexity of the regulatory conversations between remodelers and nucleosomes that accompanies the increase in challenges of remodeling processes. Next, I examine how, through nucleosome positioning, remodelers guide the regulation of gene expression. Finally, I explore various aspects of how alterations/mutations in remodelers introduce dissonance into the conversations between remodelers and nucleosomes, modify chromatin organization, and contribute to oncogenesis.

Entities:  

Keywords:  BAF; CHD; INO80; ISWI; SWI/SNF; cancer; chromatin remodeling; nucleosome positioning; promoter; transcription regulation

Year:  2021        PMID: 34070411     DOI: 10.3390/ijms22115578

Source DB:  PubMed          Journal:  Int J Mol Sci        ISSN: 1422-0067            Impact factor:   5.923


  302 in total

1.  NoRC-dependent nucleosome positioning silences rRNA genes.

Authors:  Junwei Li; Gernot Längst; Ingrid Grummt
Journal:  EMBO J       Date:  2006-11-30       Impact factor: 11.598

2.  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

3.  Nucleosome fragility reveals novel functional states of chromatin and poises genes for activation.

Authors:  Yuanxin Xi; Jianhui Yao; Rui Chen; Wei Li; Xiangwei He
Journal:  Genome Res       Date:  2011-03-01       Impact factor: 9.043

4.  The Sequence of Nucleosomal DNA Modulates Sliding by the Chd1 Chromatin Remodeler.

Authors:  Jessica Winger; Gregory D Bowman
Journal:  J Mol Biol       Date:  2017-02-08       Impact factor: 5.469

5.  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

6.  Histone tails modulate nucleosome mobility and regulate ATP-dependent nucleosome sliding by NURF.

Authors:  A Hamiche; J G Kang; C Dennis; H Xiao; C Wu
Journal:  Proc Natl Acad Sci U S A       Date:  2001-11-27       Impact factor: 11.205

7.  Genome-wide profiling of nucleosome sensitivity and chromatin accessibility in Drosophila melanogaster.

Authors:  Răzvan V Chereji; Tsung-Wai Kan; Magda K Grudniewska; Alexander V Romashchenko; Eugene Berezikov; Igor F Zhimulev; Victor Guryev; Alexandre V Morozov; Yuri M Moshkin
Journal:  Nucleic Acids Res       Date:  2015-10-01       Impact factor: 16.971

8.  Mechanistic Insights into Autoinhibition of the Oncogenic Chromatin Remodeler ALC1.

Authors:  Laura C Lehmann; Graeme Hewitt; Shintaro Aibara; Alexander Leitner; Emil Marklund; Sarah L Maslen; Varun Maturi; Yang Chen; David van der Spoel; J Mark Skehel; Aristidis Moustakas; Simon J Boulton; Sebastian Deindl
Journal:  Mol Cell       Date:  2017-12-07       Impact factor: 19.328

9.  The chromatin remodeller ACF acts as a dimeric motor to space nucleosomes.

Authors:  Lisa R Racki; Janet G Yang; Nariman Naber; Peretz D Partensky; Ashley Acevedo; Thomas J Purcell; Roger Cooke; Yifan Cheng; Geeta J Narlikar
Journal:  Nature       Date:  2009-12-24       Impact factor: 49.962

10.  ATR inhibitors as a synthetic lethal therapy for tumours deficient in ARID1A.

Authors:  Chris T Williamson; Rowan Miller; Helen N Pemberton; Samuel E Jones; James Campbell; Asha Konde; Nicholas Badham; Rumana Rafiq; Rachel Brough; Aditi Gulati; Colm J Ryan; Jeff Francis; Peter B Vermulen; Andrew R Reynolds; Philip M Reaper; John R Pollard; Alan Ashworth; Christopher J Lord
Journal:  Nat Commun       Date:  2016-12-13       Impact factor: 14.919

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  6 in total

Review 1.  Emerging roles of SWI/SNF remodelers in fungal pathogens.

Authors:  Vinutha K Balachandra; Santanu K Ghosh
Journal:  Curr Genet       Date:  2022-01-10       Impact factor: 3.886

Review 2.  Oncohistones: Exposing the nuances and vulnerabilities of epigenetic regulation.

Authors:  Michelle M Mitchener; Tom W Muir
Journal:  Mol Cell       Date:  2022-08-18       Impact factor: 19.328

3.  Genome-Wide Identification of Long Noncoding RNA and Their Potential Interactors in ISWI Mutants.

Authors:  Ludan Zhang; Shuai Zhang; Ruixue Wang; Lin Sun
Journal:  Int J Mol Sci       Date:  2022-06-02       Impact factor: 6.208

4.  Comprehensive identification of SWI/SNF complex subunits underpins deep eukaryotic ancestry and reveals new plant components.

Authors:  Jorge Hernández-García; Borja Diego-Martin; Peggy Hsuanyu Kuo; Yasaman Jami-Alahmadi; Ajay A Vashisht; James Wohlschlegel; Steven E Jacobsen; Miguel A Blázquez; Javier Gallego-Bartolomé
Journal:  Commun Biol       Date:  2022-06-06

Review 5.  Toward More Comprehensive Homologous Recombination Deficiency Assays in Ovarian Cancer, Part 1: Technical Considerations.

Authors:  Stanislas Quesada; Michel Fabbro; Jérôme Solassol
Journal:  Cancers (Basel)       Date:  2022-02-23       Impact factor: 6.639

6.  ARID1A-dependent maintenance of H3.3 is required for repressive CHD4-ZMYND8 chromatin interactions at super-enhancers.

Authors:  Jake J Reske; Mike R Wilson; Brooke Armistead; Shannon Harkins; Cristina Perez; Joel Hrit; Marie Adams; Scott B Rothbart; Stacey A Missmer; Asgerally T Fazleabas; Ronald L Chandler
Journal:  BMC Biol       Date:  2022-09-25       Impact factor: 7.364

  6 in total

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