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PMID: 20008096 Published · ppublish English Journal Article Research Support, N.I.H., Extramural Research Support, Non-U.S. Gov't

Dynamic landscapes of four histone modifications during deetiolation in Arabidopsis.

The Plant cell ·Vol. 21 ·No. 12 ·2009-12-00 ·Pages 3732-48

Charron JB, He H, Elling AA, Deng XW

Abstract

Although landscapes of several histone marks are now available for Arabidopsis thaliana and Oryza sativa, such profiles remain static and do not provide information about dynamic changes of plant epigenomes in response to developmental or environmental cues. Here, we analyzed the effects of light on four histone modifications (acetylation and trimethylation of lysines 9 and 27 on histone H3: H3K9ac, H3K9me3, H3K27ac, and H3K27me3, respectively). Our genome-wide profiling of H3K9ac and H3K27ac revealed that these modifications are nontransposable element gene-specific. By contrast, we found that H3K9me3 and H3K27me3 target nontransposable element genes, but also intergenic regions and transposable elements. Specific light conditions affected the number of modified regions as well as the overall correlation strength between the presence of specific modifications and transcription. Furthermore, we observed that acetylation marks not only ELONGATED HYPOCOTYL5 and HY5-HOMOLOG upon deetiolation, but also their downstream targets. We found that the activation of photosynthetic genes correlates with dynamic acetylation changes in response to light, while H3K27ac and H3K27me3 potentially contribute to light regulation of the gibberellin metabolism. Thus, this work provides a dynamic portrait of the variations in histone modifications in response to the plant's changing light environment and strengthens the concept that histone modifications represent an additional layer of control for light-regulated genes involved in photomorphogenesis.

MeSH Terms
Acetylation Arabidopsis/genetics,metabolism,radiation effects Chromatin Immunoprecipitation Chromosomes, Plant DNA Transposable Elements DNA, Intergenic/metabolism DNA, Plant/metabolism Euchromatin/metabolism Gene Expression Profiling Gene Expression Regulation, Plant Gibberellins/biosynthesis Histones/metabolism Light Methylation Oligonucleotide Array Sequence Analysis Photosynthesis Protein Processing, Post-Translational Seedlings/genetics,metabolism,radiation effects
Chemicals
DNA Transposable Elements DNA, Intergenic DNA, Plant Euchromatin Gibberellins Histones
Authors & Affiliations
4 authors, click to expand affiliations / ORCID
Charron Jean-Benoit F
Department of Molecular, Cellular, and Developmental Biology, Yale University, New Haven, Conecticut 06520, USA.
He Hang
Elling Axel A
Deng Xing Wang
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Article Info
Journal
The Plant cell
Abbr.
Plant Cell
ISSN
1532-298X
DOI
10.1105/tpc.109.066845
Published
2009-12-00
Epub
2009-00-11
Pages
3732-48
Language
English
Region
England
NLM ID
9208688
PMCID
PMC2814509
Subset
IM
Grants
NIGMS NIH HHS · R01 GM047850 · United States
NIGMS NIH HHS · R37 GM047850 · United States
NIGMS NIH HHS · GM47850 · United States
External Links
PubMed source DOI: 10.1105/tpc.109.066845 PMC Full Text View journal details
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