Structural Basis of Transcriptional Gene Silencing Mediated by Arabidopsis MOM1

Shifts between epigenetic states of transcriptional activity are typically correlated with changes in epigenetic marks. However, exceptions to this rule suggest the existence of additional, as yet uncharacterized, layers of epigenetic regulation. MOM1, a protein of 2,001 amino acids that acts as a t...

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Vydáno v:PLoS genetics Ročník 8; číslo 2; s. e1002484
Hlavní autoři: Nishimura, Taisuke, Molinard, Guillaume, Petty, Tom J., Broger, Larissa, Gabus, Caroline, Halazonetis, Thanos D., Thore, Stéphane, Paszkowski, Jerzy
Médium: Journal Article
Jazyk:angličtina
Vydáno: United States Public Library of Science 01.02.2012
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ISSN:1553-7404, 1553-7390, 1553-7404
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Abstract Shifts between epigenetic states of transcriptional activity are typically correlated with changes in epigenetic marks. However, exceptions to this rule suggest the existence of additional, as yet uncharacterized, layers of epigenetic regulation. MOM1, a protein of 2,001 amino acids that acts as a transcriptional silencer, represents such an exception. Here we define the 82 amino acid domain called CMM2 (Conserved MOM1 Motif 2) as a minimal MOM1 fragment capable of transcriptional regulation. As determined by X-ray crystallography, this motif folds into an unusual hendecad-based coiled-coil. Structure-based mutagenesis followed by transgenic complementation tests in plants demonstrate that CMM2 and its dimerization are effective for transcriptional suppression at chromosomal loci co-regulated by MOM1 and the siRNA pathway but not at loci controlled by MOM1 in an siRNA-independent fashion. These results reveal a surprising separation of epigenetic activities that enable the single, large MOM1 protein to coordinate cooperating mechanisms of epigenetic regulation.
AbstractList Shifts between epigenetic states of transcriptional activity are typically correlated with changes in epigenetic marks. However, exceptions to this rule suggest the existence of additional, as yet uncharacterized, layers of epigenetic regulation. MOM1, a protein of 2,001 amino acids that acts as a transcriptional silencer, represents such an exception. Here we define the 82 amino acid domain called CMM2 (Conserved MOM1 Motif 2) as a minimal MOM1 fragment capable of transcriptional regulation. As determined by X-ray crystallography, this motif folds into an unusual hendecad-based coiled-coil. Structure-based mutagenesis followed by transgenic complementation tests in plants demonstrate that CMM2 and its dimerization are effective for transcriptional suppression at chromosomal loci co-regulated by MOM1 and the siRNA pathway but not at loci controlled by MOM1 in an siRNA-independent fashion. These results reveal a surprising separation of epigenetic activities that enable the single, large MOM1 protein to coordinate cooperating mechanisms of epigenetic regulation.
Shifts between epigenetic states of transcriptional activity are typically correlated with changes in epigenetic marks. However, exceptions to this rule suggest the existence of additional, as yet uncharacterized, layers of epigenetic regulation. MOM1, a protein of 2,001 amino acids that acts as a transcriptional silencer, represents such an exception. Here we define the 82 amino acid domain called CMM2 (Conserved MOM1 Motif 2) as a minimal MOM1 fragment capable of transcriptional regulation. As determined by X-ray crystallography, this motif folds into an unusual hendecad-based coiled-coil. Structure-based mutagenesis followed by transgenic complementation tests in plants demonstrate that CMM2 and its dimerization are effective for transcriptional suppression at chromosomal loci co-regulated by MOM1 and the siRNA pathway but not at loci controlled by MOM1 in an siRNA-independent fashion. These results reveal a surprising separation of epigenetic activities that enable the single, large MOM1 protein to coordinate cooperating mechanisms of epigenetic regulation.Shifts between epigenetic states of transcriptional activity are typically correlated with changes in epigenetic marks. However, exceptions to this rule suggest the existence of additional, as yet uncharacterized, layers of epigenetic regulation. MOM1, a protein of 2,001 amino acids that acts as a transcriptional silencer, represents such an exception. Here we define the 82 amino acid domain called CMM2 (Conserved MOM1 Motif 2) as a minimal MOM1 fragment capable of transcriptional regulation. As determined by X-ray crystallography, this motif folds into an unusual hendecad-based coiled-coil. Structure-based mutagenesis followed by transgenic complementation tests in plants demonstrate that CMM2 and its dimerization are effective for transcriptional suppression at chromosomal loci co-regulated by MOM1 and the siRNA pathway but not at loci controlled by MOM1 in an siRNA-independent fashion. These results reveal a surprising separation of epigenetic activities that enable the single, large MOM1 protein to coordinate cooperating mechanisms of epigenetic regulation.
Shifts between epigenetic states of transcriptional activity are typically correlated with changes in epigenetic marks. However, exceptions to this rule suggest the existence of additional, as yet uncharacterized, layers of epigenetic regulation. MOM1, a protein of 2,001 amino acids that acts as a transcriptional silencer, represents such an exception. Here we define the 82 amino acid domain called CMM2 (Conserved MOM1 Motif 2) as a minimal MOM1 fragment capable of transcriptional regulation. As determined by X-ray crystallography, this motif folds into an unusual hendecad-based coiled-coil. Structure-based mutagenesis followed by transgenic complementation tests in plants demonstrate that CMM2 and its dimerization are effective for transcriptional suppression at chromosomal loci co-regulated by MOM1 and the siRNA pathway but not at loci controlled by MOM1 in an siRNA–independent fashion. These results reveal a surprising separation of epigenetic activities that enable the single, large MOM1 protein to coordinate cooperating mechanisms of epigenetic regulation. Epigenetic shifts in transcriptional activities are usually correlated with changes in chromatin properties and covalent modification of DNA and/or histones. There are, however, exceptional regulators that are able to switch epigenetic states without the apparent involvement of changes in chromatin or DNA modifications. MOM1 protein, derived from CHD3 chromatin remodelers, belongs to this group. Here we defined a very small domain of MOM1 (less than 5% of its total sequence) that is sufficient for epigenetic regulation. We solved the structure of this domain and found that it forms a dimer with each monomer consisting of unusual consecutive 11 amino-acid hendecad repeats folding into an antiparallel coiled-coil. In vivo experiments demonstrated that the formation of this coiled-coil is essential for silencing activity; however, it is effective only at loci co-silenced by MOM1 and small RNAs. At loci not controlled by small RNAs, the entire MOM1 protein is required. Our results demonstrate that a single epigenetic regulator is able to differentially use its domains to control diverse chromosomal targets. The acquisition of the coiled-coil domain of MOM1 reflects a neofunctionalization of CHD3 proteins, which allowed MOM1 to broaden its activity and to provide input into multiple epigenetic pathways.
  Shifts between epigenetic states of transcriptional activity are typically correlated with changes in epigenetic marks. However, exceptions to this rule suggest the existence of additional, as yet uncharacterized, layers of epigenetic regulation. MOM1, a protein of 2,001 amino acids that acts as a transcriptional silencer, represents such an exception. Here we define the 82 amino acid domain called CMM2 (Conserved MOM1 Motif 2) as a minimal MOM1 fragment capable of transcriptional regulation. As determined by X-ray crystallography, this motif folds into an unusual hendecad-based coiled-coil. Structure-based mutagenesis followed by transgenic complementation tests in plants demonstrate that CMM2 and its dimerization are effective for transcriptional suppression at chromosomal loci co-regulated by MOM1 and the siRNA pathway but not at loci controlled by MOM1 in an siRNA-independent fashion. These results reveal a surprising separation of epigenetic activities that enable the single, large MOM1 protein to coordinate cooperating mechanisms of epigenetic regulation.
Audience Academic
Author Gabus, Caroline
Broger, Larissa
Petty, Tom J.
Paszkowski, Jerzy
Halazonetis, Thanos D.
Molinard, Guillaume
Nishimura, Taisuke
Thore, Stéphane
AuthorAffiliation 2 Department of Molecular Biology, University of Geneva, Geneva, Switzerland
University of Michigan, United States of America
1 Department of Plant Biology, University of Geneva, Geneva, Switzerland
AuthorAffiliation_xml – name: 1 Department of Plant Biology, University of Geneva, Geneva, Switzerland
– name: University of Michigan, United States of America
– name: 2 Department of Molecular Biology, University of Geneva, Geneva, Switzerland
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ContentType Journal Article
Copyright COPYRIGHT 2012 Public Library of Science
2012 Nishimura et al. This is an open-access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited: Nishimura T, Molinard G, Petty TJ, Broger L, Gabus C, et al. (2012) Structural Basis of Transcriptional Gene Silencing Mediated by Arabidopsis MOM1. PLoS Genet 8(2): e1002484. doi:10.1371/journal.pgen.1002484
Nishimura et al. 2012
Copyright_xml – notice: COPYRIGHT 2012 Public Library of Science
– notice: 2012 Nishimura et al. This is an open-access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited: Nishimura T, Molinard G, Petty TJ, Broger L, Gabus C, et al. (2012) Structural Basis of Transcriptional Gene Silencing Mediated by Arabidopsis MOM1. PLoS Genet 8(2): e1002484. doi:10.1371/journal.pgen.1002484
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a: Current address: PRESTO, Japan Science and Technology Agency, Honcho Kawaguchi, Japan
b: Current address: Bioscience and Biotechnology Center, Nagoya University, Nagoya, Japan
Conceived and designed the experiments: TN TDH ST JP. Performed the experiments: TN GM TJP LB CG TDH ST. Analyzed the data: TN TJP TDH ST JP. Contributed reagents/materials/analysis tools: TN TDH ST JP. Wrote the paper: TN ST JP.
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Snippet Shifts between epigenetic states of transcriptional activity are typically correlated with changes in epigenetic marks. However, exceptions to this rule...
  Shifts between epigenetic states of transcriptional activity are typically correlated with changes in epigenetic marks. However, exceptions to this rule...
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StartPage e1002484
SubjectTerms Amino Acid Sequence
Arabidopsis - chemistry
Arabidopsis - genetics
Arabidopsis Proteins - chemistry
Arabidopsis Proteins - genetics
Arabidopsis thaliana
Biology
Crystallography, X-Ray
Deoxyribonucleic acid
Derivatives
DNA
DNA methylation
Efficiency
Epigenesis, Genetic - genetics
Epigenetics
Experiments
Gene Expression Regulation, Plant
Gene Silencing
Genes
Genetic aspects
Genetic engineering
Genetic transcription
Molecular Sequence Data
Mutagenesis
Nuclear Proteins - chemistry
Nuclear Proteins - genetics
Plants, Genetically Modified
Protein Conformation
Protein Folding
Protein Multimerization
Protein Structure, Tertiary - genetics
Proteins
RNA, Small Interfering - genetics
Structure-Activity Relationship
Transcription Factors - chemistry
Transcription Factors - genetics
Transcription, Genetic
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Title Structural Basis of Transcriptional Gene Silencing Mediated by Arabidopsis MOM1
URI https://www.ncbi.nlm.nih.gov/pubmed/22346760
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http://dx.doi.org/10.1371/journal.pgen.1002484
Volume 8
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