Literature DB >> 28537572

Understanding nucleosome dynamics and their links to gene expression and DNA replication.

William K M Lai1, B Franklin Pugh1.   

Abstract

Advances in genomics technology have provided the means to probe myriad chromatin interactions at unprecedented spatial and temporal resolution. This has led to a profound understanding of nucleosome organization within the genome, revealing that nucleosomes are highly dynamic. Nucleosome dynamics are governed by a complex interplay of histone composition, histone post-translational modifications, nucleosome occupancy and positioning within chromatin, which are influenced by numerous regulatory factors, including general regulatory factors, chromatin remodellers, chaperones and polymerases. It is now known that these dynamics regulate diverse cellular processes ranging from gene transcription to DNA replication and repair.

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Year:  2017        PMID: 28537572      PMCID: PMC5831138          DOI: 10.1038/nrm.2017.47

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


  178 in total

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Authors:  Anthony T Annunziato
Journal:  J Biol Chem       Date:  2005-01-21       Impact factor: 5.157

Review 2.  Nucleosome dynamics as modular systems that integrate DNA damage and repair.

Authors:  Craig L Peterson; Genevieve Almouzni
Journal:  Cold Spring Harb Perspect Biol       Date:  2013-09-01       Impact factor: 10.005

3.  Stable and dynamic nucleosome states during a meiotic developmental process.

Authors:  Liye Zhang; Hong Ma; B Franklin Pugh
Journal:  Genome Res       Date:  2011-04-22       Impact factor: 9.043

4.  Crystal structure of the nucleosome core particle at 2.8 A resolution.

Authors:  K Luger; A W Mäder; R K Richmond; D F Sargent; T J Richmond
Journal:  Nature       Date:  1997-09-18       Impact factor: 49.962

5.  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

6.  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

7.  Dynamic remodeling of individual nucleosomes across a eukaryotic genome in response to transcriptional perturbation.

Authors:  Sushma Shivaswamy; Akshay Bhinge; Yongjun Zhao; Steven Jones; Martin Hirst; Vishwanath R Iyer
Journal:  PLoS Biol       Date:  2008-03-18       Impact factor: 8.029

8.  The octamer is the major form of CENP-A nucleosomes at human centromeres.

Authors:  Dan Hasson; Tanya Panchenko; Kevan J Salimian; Mishah U Salman; Nikolina Sekulic; Alicia Alonso; Peter E Warburton; Ben E Black
Journal:  Nat Struct Mol Biol       Date:  2013-05-05       Impact factor: 15.369

9.  Nucleosome dynamics during chromatin remodeling in vivo.

Authors:  Srinivas Ramachandran; Steven Henikoff
Journal:  Nucleus       Date:  2016-03-02       Impact factor: 4.197

10.  Structural evidence for Nap1-dependent H2A-H2B deposition and nucleosome assembly.

Authors:  Carmen Aguilar-Gurrieri; Amédé Larabi; Vinesh Vinayachandran; Nisha A Patel; Kuangyu Yen; Rohit Reja; Ima-O Ebong; Guy Schoehn; Carol V Robinson; B Franklin Pugh; Daniel Panne
Journal:  EMBO J       Date:  2016-05-25       Impact factor: 11.598

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  142 in total

Review 1.  Environmental influences on RNA processing: Biochemical, molecular and genetic regulators of cellular response.

Authors:  Athma A Pai; Francesca Luca
Journal:  Wiley Interdiscip Rev RNA       Date:  2018-09-14       Impact factor: 9.957

Review 2.  Epigenetic Regulation in Neurodegenerative Diseases.

Authors:  Amit Berson; Raffaella Nativio; Shelley L Berger; Nancy M Bonini
Journal:  Trends Neurosci       Date:  2018-06-07       Impact factor: 13.837

3.  The histone variant H2A.Z and chromatin remodeler BRAHMA act coordinately and antagonistically to regulate transcription and nucleosome dynamics in Arabidopsis.

Authors:  E Shannon Torres; Roger B Deal
Journal:  Plant J       Date:  2019-03-19       Impact factor: 6.417

4.  Chromatin remodeler Ino80C acts independently of H2A.Z to evict promoter nucleosomes and stimulate transcription of highly expressed genes in yeast.

Authors:  Hongfang Qiu; Emily Biernat; Chhabi K Govind; Yashpal Rawal; Răzvan V Chereji; David J Clark; Alan G Hinnebusch
Journal:  Nucleic Acids Res       Date:  2020-09-04       Impact factor: 16.971

5.  Establishment and Maintenance of Chromatin Architecture Are Promoted Independently of Transcription by the Histone Chaperone FACT and H3-K56 Acetylation in Saccharomyces cerevisiae.

Authors:  Laura L McCullough; Trang H Pham; Timothy J Parnell; Zaily Connell; Mahesh B Chandrasekharan; David J Stillman; Tim Formosa
Journal:  Genetics       Date:  2019-01-24       Impact factor: 4.562

6.  Identification of a DNA N6-Adenine Methyltransferase Complex and Its Impact on Chromatin Organization.

Authors:  Leslie Y Beh; Galia T Debelouchina; Derek M Clay; Robert E Thompson; Kelsi A Lindblad; Elizabeth R Hutton; John R Bracht; Robert P Sebra; Tom W Muir; Laura F Landweber
Journal:  Cell       Date:  2019-05-16       Impact factor: 41.582

7.  The Accidental Ally: Nucleosome Barriers Can Accelerate Cohesin-Mediated Loop Formation in Chromatin.

Authors:  Ajoy Maji; Ranjith Padinhateeri; Mithun K Mitra
Journal:  Biophys J       Date:  2020-11-10       Impact factor: 4.033

Review 8.  Pioneer factors and their in vitro identification methods.

Authors:  Xinyang Yu; Michael J Buck
Journal:  Mol Genet Genomics       Date:  2020-04-15       Impact factor: 3.291

9.  Local DNA Sequence Controls Asymmetry of DNA Unwrapping from Nucleosome Core Particles.

Authors:  Alexander W Mauney; Joshua M Tokuda; Lisa M Gloss; Oscar Gonzalez; Lois Pollack
Journal:  Biophys J       Date:  2018-07-31       Impact factor: 4.033

Review 10.  An Epigenetic Journey: Epstein-Barr Virus Transcribes Chromatinized and Subsequently Unchromatinized Templates during Its Lytic Cycle.

Authors:  Adityarup Chakravorty; Bill Sugden; Eric C Johannsen
Journal:  J Virol       Date:  2019-04-03       Impact factor: 5.103

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