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Genome-scale Arabidopsis promoter array identifies targets of the histone acetyltransferase GCN5

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Benhamed, Moussa, Martin-Magniette, Marie-Laure, Taconnat, Ludivine, Bitton, Frederique, Servet, Caroline, De Clercq, Rebecca, De Meyer, Bjorn, Buysschaert, Caroline, Rombauts, Stephane, Villarroel, Raimundo et al.
(2008) Genome-scale Arabidopsis promoter array identifies targets of the histone acetyltransferase GCN5. Plant Journal, Volume 56 (Number 3). pp. 493-504. doi:10.1111/j.1365-313X.2008.03606.x ISSN 0960-7412.

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Abstract

We have assembled approximately 20 000 Arabidopsis thaliana promoter regions, compatible with functional studies that require cloning and with microarray applications. The promoter fragments can be captured as modular entry clones (MultiSite Gateway format) via site-specific recombinational cloning, and transferred into vectors of choice to investigate transcriptional networks. The fragments can also be amplified by PCR and printed on glass arrays. In combination with immunoprecipitation of protein-DNA complexes (ChIP-chip), these arrays enable characterization of binding sites for chromatin-associated proteins or the extent of chromatin modifications at genome scale. The Arabidopsis histone acetyltransferase GCN5 associated with 40% of the tested promoters. At most sites, binding did not depend on the integrity of the GCN5 bromodomain. However, the presence of the bromodomain was necessary for binding to 11% of the promoter regions, and correlated with acetylation of lysine 14 of histone H3 in these promoters. Combined analysis of ChIP-chip and transcriptomic data indicated that binding of GCN5 does not strictly correlate with gene activation. GCN5 has previously been shown to be required for light-regulated gene expression and growth, and we found that GCN5 targets were enriched in early light-responsive genes. Thus, in addition to its transcriptional activation function, GCN5 may play an important role in priming activation of inducible genes under non-induced conditions.

Item Type: Journal Article
Subjects: Q Science > QH Natural history > QH426 Genetics
Q Science > QK Botany
Q Science > QP Physiology
Divisions: Faculty of Science, Engineering and Medicine > Science > Life Sciences (2010- )
Library of Congress Subject Headings (LCSH): Arabidopsis, Chromatin, Histones, Acylation, Catalyst supports, Genetic recombination, Acetyltransferases
Journal or Publication Title: Plant Journal
Publisher: Blackwell
ISSN: 0960-7412
Official Date: November 2008
Dates:
DateEvent
November 2008Published
Volume: Volume 56
Number: Number 3
Number of Pages: 12
Page Range: pp. 493-504
DOI: 10.1111/j.1365-313X.2008.03606.x
Status: Peer Reviewed
Publication Status: Published
Access rights to Published version: Restricted or Subscription Access
Funder: Stiftelsen för strategisk forskning [Swedish Foundation for Strategic Research] (SSF), Nederlandse Organisatie voor Wetenschappelijk Onderzoek [Netherlands Organisation for Scientific Research] (NWO), Eidgenössische Technische Hochschule Zürich [Swiss Federal Institute of Technology Zurich] (ETH), Schweizerischer Nationalfonds zur Förderung der Wissenschaftlichen Forschung [Swiss National Science Foundation] (SNSF), Max-Planck-Gesellschaft zur Förderung der Wissenschaften [Max Planck Society for the Advancement of Science]
Grant number: 3100A0-109475 (SNSF)

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