Nucleosome destabilization in the epigenetic regulation of gene expression

Henikoff, Steven
January 2008
Nature Reviews Genetics;Jan2008, Vol. 9 Issue 1, p15
Academic Journal
Assembly, mobilization and disassembly of nucleosomes can influence the regulation of gene expression and other processes that act on eukaryotic DNA. Distinct nucleosome-assembly pathways deposit dimeric subunits behind the replication fork or at sites of active processes that mobilize pre-existing nucleosomes. Replication-coupled nucleosome assembly appears to be the default process that maintains silent chromatin, counteracted by active processes that destabilize nucleosomes. Nucleosome stability is regulated by the combined effects of nucleosome-positioning sequences, histone chaperones, ATP-dependent nucleosome remodellers, post-translational modifications and histone variants. Recent studies suggest that histone turnover helps to maintain continuous access to sequence-specific DNA-binding proteins that regulate epigenetic inheritance, providing a dynamic alternative to histone-marking models for the propagation of active chromatin.


Related Articles

  • Nuclear Factor I genomic binding associates with chromatin boundaries. Pjanic, Milos; Schmid, Christoph D.; Gaussin, Armelle; Ambrosini, Giovanna; Adamcik, Jozef; Pjanic, Petar; Plasari, Genta; Kerschgens, Jan; Dietler, Giovani; Bucher, Philipp; Mermod, Nicolas // BMC Genomics;2013, Vol. 14 Issue 1, p1 

    Background: The Nuclear Factor I (NFI) family of DNA binding proteins (also called CCAAT box transcription factors or CTF) is involved in both DNA replication and gene expression regulation. Using chromatin immuno-precipitation and high throughput sequencing (ChIP-Seq), we performed a...

  • RNA-guided gene activation by CRISPR-Cas9-based transcription factors. Perez-Pinera, Pablo; Kocak, D Dewran; Vockley, Christopher M; Adler, Andrew F; Kabadi, Ami M; Polstein, Lauren R; Thakore, Pratiksha I; Glass, Katherine A; Ousterout, David G; Leong, Kam W; Guilak, Farshid; Crawford, Gregory E; Reddy, Timothy E; Gersbach, Charles A // Nature Methods;Oct2013, Vol. 10 Issue 10, p973 

    Technologies for engineering synthetic transcription factors have enabled many advances in medical and scientific research. In contrast to existing methods based on engineering of DNA-binding proteins, we created a Cas9-based transactivator that is targeted to DNA sequences by guide RNA...

  • GC-Rich Sequence Elements Recruit PRC2 in Mammalian ES Cells. Mendenhall, Eric M.; Koche, Richard P.; Thanh Truong; Zhou, Vicky W.; Issac, Biju; Chi, Andrew S.; Manching Ku; Bernstein, Bradley E. // PLoS Pathogens;Feb2011, Vol. 7 Issue 2, Special section p1 

    No abstract available.

  • Gene expression: degrade to derepress. McShane, Erik; Selbach, Matthias // EMBO Journal;3/3/2014, Vol. 33 Issue 5, p407 

    Chromatin immunoprecipitation and sequencing ( Ch IP-seq) provides a static snap-shot of DNA-associated proteins which fails to reflect the dynamics of the DNA-bound proteome. Now, Catic and co-workers combine ubiquitin Ch IP-seq and proteasome inhibitors to map sites of DNA-associated protein...

  • Chromatin Accessibility Data Sets Show Bias Due to Sequence Specificity of the DNase I Enzyme. Koohy, Hashem; Down, Thomas A.; Hubbard, Tim J. // PLoS ONE;Jul2013, Vol. 8 Issue 7, p1 

    Background: DNase I is an enzyme which cuts duplex DNA at a rate that depends strongly upon its chromatin environment. In combination with high-throughput sequencing (HTS) technology, it can be used to infer genome-wide landscapes of open chromatin regions. Using this technology, systematic...

  • BinDNase: a discriminatory approach for transcription factor binding prediction using DNase I hypersensitivity data. Khärä, Juhani; Lahdesmaki, Harri // Bioinformatics;9/1/2015, Vol. 31 Issue 17, p2852 

    Motivation: Transcription factors (TFs) are a class of DNA-binding proteins that have a central role in regulating gene expression. To reveal mechanisms of transcriptional regulation, a number of computational tools have been proposed for predicting TF-DNA interaction sites. Recent studies have...

  • Histone Deacetylase 1 and p300 Can Directly Associate with Chromatin and Compete for Binding in a Mutually Exclusive Manner. Li, Xuehui; Yang, Hui; Huang, Suming; Qiu, Yi // PLoS ONE;Apr2014, Vol. 9 Issue 4, p1 

    Lysine acetyltransferases (KATs) and histone deacetylases (HDACs) are important epigenetic modifiers and dynamically cycled on active gene promoters to regulate transcription. Although HDACs are recruited to gene promoters and DNA hypersensitive sites through interactions with DNA binding...

  • How many remodelers does it take to make a brain? Diverse and cooperative roles of ATP-dependent chromatin-remodeling complexes in development. Brown, Elvin; Malakar, Sreepurna; Krebs, Jocelyn E. // Biochemistry & Cell Biology;Aug2007, Vol. 85 Issue 4, p444 

    The development of a metazoan from a single-celled zygote to a complex multicellular organism requires elaborate and carefully regulated programs of gene expression. However, the tight packaging of genomic DNA into chromatin makes genes inaccessible to the cellular machinery and must be overcome...

  • Distinct Modes of Regulation by Chromatin Encoded through Nucleosome Positioning Signals. Field, Yair; Kaplan, Noam; Fondufe-Mittendorf, Yvonne; Moore, Irene K.; Sharon, Eilon; Lubling, Yaniv; Widom, Jonathan; Segal, Eran // PLoS Computational Biology;Nov2008, Vol. 4 Issue 11, p1 

    The detailed positions of nucleosomes profoundly impact gene regulation and are partly encoded by the genomic DNA sequence. However, less is known about the functional consequences of this encoding. Here, we address this question using a genome-wide map of ∼380,000 yeast nucleosomes that we...


Read the Article


Sorry, but this item is not currently available from your library.

Try another library?
Sign out of this library

Other Topics