Literature DB >> 26969969

Epigenetic Regulation by ATP-Dependent Chromatin-Remodeling Enzymes: SNF-ing Out Crosstalk.

John S Runge1, Jesse R Raab2, Terry Magnuson3.   

Abstract

Cells utilize precise mechanisms to access genomic DNA with spatiotemporal accuracy. ATP-dependent chromatin-remodeling enzymes (also known simply as "remodelers") comprise a specialized class of enzymes that is intimately involved in genomic organization and accessibility. Remodelers selectively position nucleosomes to either alleviate chromatin compaction or achieve genomic condensation locally, based on a multitude of cellular signals. By dictating nucleosome position, remodelers control local euchromatic and heterochromatic states. These activities govern the accessibility of regulatory regions like promoters and enhancers to transcription factors, RNA polymerases, and coactivators or -repressors. As studies unravel the complexities of epigenetic topography, evidence points to a chromatin-based interactome where regulators interact competitively, cooperatively, and/or codependently through physical and functional means. These types of interactions, or crosstalk, between remodelers raise important questions for tissue development. Here, we briefly review the evidence for remodeler interactions and argue for additional studies examining crosstalk.
© 2016 Elsevier Inc. All rights reserved.

Entities:  

Keywords:  ATP-dependent chromatin-remodeling enzymes; Chromatin; Chromatin organization; Chromatin remodeling; Epigenetics; Gene regulation

Mesh:

Substances:

Year:  2016        PMID: 26969969      PMCID: PMC5771231          DOI: 10.1016/bs.ctdb.2015.10.009

Source DB:  PubMed          Journal:  Curr Top Dev Biol        ISSN: 0070-2153            Impact factor:   4.897


  47 in total

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Authors:  Tim Grüne; Jan Brzeski; Anton Eberharter; Cedric R Clapier; Davide F V Corona; Peter B Becker; Christoph W Müller
Journal:  Mol Cell       Date:  2003-08       Impact factor: 17.970

2.  The BAF53a subunit of SWI/SNF-like BAF complexes is essential for hemopoietic stem cell function.

Authors:  Veneta Krasteva; Manuel Buscarlet; Abigail Diaz-Tellez; Marie-Anne Bernard; Gerald R Crabtree; Julie A Lessard
Journal:  Blood       Date:  2012-09-26       Impact factor: 22.113

3.  Dissecting the regulatory circuitry of a eukaryotic genome.

Authors:  F C Holstege; E G Jennings; J J Wyrick; T I Lee; C J Hengartner; M R Green; T R Golub; E S Lander; R A Young
Journal:  Cell       Date:  1998-11-25       Impact factor: 41.582

Review 4.  INO80-C and SWR-C: guardians of the genome.

Authors:  Christian-Benedikt Gerhold; Michael H Hauer; Susan M Gasser
Journal:  J Mol Biol       Date:  2014-10-30       Impact factor: 5.469

5.  RVBs are required for assembling a functional TIP60 complex.

Authors:  Sudhakar Jha; Ashish Gupta; Ashraf Dar; Anindya Dutta
Journal:  Mol Cell Biol       Date:  2013-01-07       Impact factor: 4.272

6.  Actl6a protects embryonic stem cells from differentiating into primitive endoderm.

Authors:  Weisi Lu; Lekun Fang; Bin Ouyang; Xiya Zhang; Shaoquan Zhan; Xuyang Feng; Yaofu Bai; Xin Han; Hyeung Kim; Quanyuan He; Ma Wan; Feng-Tao Shi; Xin-Hua Feng; Dan Liu; Junjiu Huang; Zhou Songyang
Journal:  Stem Cells       Date:  2015-06       Impact factor: 6.277

7.  An essential switch in subunit composition of a chromatin remodeling complex during neural development.

Authors:  Julie Lessard; Jiang I Wu; Jeffrey A Ranish; Mimi Wan; Monte M Winslow; Brett T Staahl; Hai Wu; Ruedi Aebersold; Isabella A Graef; Gerald R Crabtree
Journal:  Neuron       Date:  2007-07-19       Impact factor: 17.173

Review 8.  Snf2 family ATPases and DExx box helicases: differences and unifying concepts from high-resolution crystal structures.

Authors:  Harald Dürr; Andrew Flaus; Tom Owen-Hughes; Karl-Peter Hopfner
Journal:  Nucleic Acids Res       Date:  2006-08-25       Impact factor: 16.971

9.  Overlapping chromatin-remodeling systems collaborate genome wide at dynamic chromatin transitions.

Authors:  Stephanie A Morris; Songjoon Baek; Myong-Hee Sung; Sam John; Malgorzata Wiench; Thomas A Johnson; R Louis Schiltz; Gordon L Hager
Journal:  Nat Struct Mol Biol       Date:  2013-12-08       Impact factor: 15.369

10.  Integrative analysis of 111 reference human epigenomes.

Authors:  Anshul Kundaje; Wouter Meuleman; Jason Ernst; Misha Bilenky; Angela Yen; Alireza Heravi-Moussavi; Pouya Kheradpour; Zhizhuo Zhang; Jianrong Wang; Michael J Ziller; Viren Amin; John W Whitaker; Matthew D Schultz; Lucas D Ward; Abhishek Sarkar; Gerald Quon; Richard S Sandstrom; Matthew L Eaton; Yi-Chieh Wu; Andreas R Pfenning; Xinchen Wang; Melina Claussnitzer; Yaping Liu; Cristian Coarfa; R Alan Harris; Noam Shoresh; Charles B Epstein; Elizabeta Gjoneska; Danny Leung; Wei Xie; R David Hawkins; Ryan Lister; Chibo Hong; Philippe Gascard; Andrew J Mungall; Richard Moore; Eric Chuah; Angela Tam; Theresa K Canfield; R Scott Hansen; Rajinder Kaul; Peter J Sabo; Mukul S Bansal; Annaick Carles; Jesse R Dixon; Kai-How Farh; Soheil Feizi; Rosa Karlic; Ah-Ram Kim; Ashwinikumar Kulkarni; Daofeng Li; Rebecca Lowdon; GiNell Elliott; Tim R Mercer; Shane J Neph; Vitor Onuchic; Paz Polak; Nisha Rajagopal; Pradipta Ray; Richard C Sallari; Kyle T Siebenthall; Nicholas A Sinnott-Armstrong; Michael Stevens; Robert E Thurman; Jie Wu; Bo Zhang; Xin Zhou; Arthur E Beaudet; Laurie A Boyer; Philip L De Jager; Peggy J Farnham; Susan J Fisher; David Haussler; Steven J M Jones; Wei Li; Marco A Marra; Michael T McManus; Shamil Sunyaev; James A Thomson; Thea D Tlsty; Li-Huei Tsai; Wei Wang; Robert A Waterland; Michael Q Zhang; Lisa H Chadwick; Bradley E Bernstein; Joseph F Costello; Joseph R Ecker; Martin Hirst; Alexander Meissner; Aleksandar Milosavljevic; Bing Ren; John A Stamatoyannopoulos; Ting Wang; Manolis Kellis
Journal:  Nature       Date:  2015-02-19       Impact factor: 69.504

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  9 in total

Review 1.  Epigenetic modifications-insight into oligodendrocyte lineage progression, regeneration, and disease.

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Journal:  FEBS Lett       Date:  2018-02-22       Impact factor: 4.124

Review 2.  Chromatin remodeling and epigenetic regulation of oligodendrocyte myelination and myelin repair.

Authors:  Elijah Koreman; Xiaowei Sun; Q Richard Lu
Journal:  Mol Cell Neurosci       Date:  2017-12-15       Impact factor: 4.314

3.  BRG1 (Brahma-Related Gene 1) Promotes Endothelial Mrtf Transcription to Establish Embryonic Capillary Integrity.

Authors:  Matthew T Menendez; E-Ching Ong; Brian T Shepherd; Vijay Muthukumar; Robert Silasi-Mansat; Florea Lupu; Courtney T Griffin
Journal:  Arterioscler Thromb Vasc Biol       Date:  2017-07-20       Impact factor: 8.311

4.  CHD7 regulates cardiovascular development through ATP-dependent and -independent activities.

Authors:  Shun Yan; Rassarin Thienthanasit; Dongquan Chen; Erik Engelen; Joanna Brühl; David K Crossman; Robert Kesterson; Qin Wang; Karim Bouazoune; Kai Jiao
Journal:  Proc Natl Acad Sci U S A       Date:  2020-10-30       Impact factor: 11.205

5.  Identification of Two Distinct Classes of the Human INO80 Complex Genome-Wide.

Authors:  John S Runge; Jesse R Raab; Terry Magnuson
Journal:  G3 (Bethesda)       Date:  2018-03-28       Impact factor: 3.154

6.  Cooperation of the NEIL3 and Fanconi anemia/BRCA pathways in interstrand crosslink repair.

Authors:  Niu Li; Jian Wang; Susan S Wallace; Jing Chen; Jia Zhou; Alan D D'Andrea
Journal:  Nucleic Acids Res       Date:  2020-04-06       Impact factor: 16.971

Review 7.  Epigenetic Regulation of Cardiac Neural Crest Cells.

Authors:  Shun Yan; Jin Lu; Kai Jiao
Journal:  Front Cell Dev Biol       Date:  2021-04-21

Review 8.  Regulation of Neural Stem Cell Competency and Commitment during Indirect Neurogenesis.

Authors:  Arjun Rajan; Cyrina M Ostgaard; Cheng-Yu Lee
Journal:  Int J Mol Sci       Date:  2021-11-28       Impact factor: 5.923

Review 9.  Epigenetic regulation of oligodendrocyte myelination in developmental disorders and neurodegenerative diseases.

Authors:  Kalen Berry; Jiajia Wang; Q Richard Lu
Journal:  F1000Res       Date:  2020-02-11
  9 in total

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