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Biochemical characterization of the placeholder nucleosome for DNA hypomethylation maintenance

DNA methylation functions as a prominent epigenetic mark, and its patterns are transmitted to the genomes of offspring. The nucleosome containing the histone H2A.Z variant and histone H3K4 mono-methylation acts as a “placeholder” nucleosome for DNA hypomethylation maintenance in zebrafish embryonic...

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Autores principales: Hirano, Rina, Kujirai, Tomoya, Negishi, Lumi, Kurumizaka, Hitoshi
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Elsevier 2019
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6458450/
https://www.ncbi.nlm.nih.gov/pubmed/31008378
http://dx.doi.org/10.1016/j.bbrep.2019.100634
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author Hirano, Rina
Kujirai, Tomoya
Negishi, Lumi
Kurumizaka, Hitoshi
author_facet Hirano, Rina
Kujirai, Tomoya
Negishi, Lumi
Kurumizaka, Hitoshi
author_sort Hirano, Rina
collection PubMed
description DNA methylation functions as a prominent epigenetic mark, and its patterns are transmitted to the genomes of offspring. The nucleosome containing the histone H2A.Z variant and histone H3K4 mono-methylation acts as a “placeholder” nucleosome for DNA hypomethylation maintenance in zebrafish embryonic cells. However, the mechanism by which DNA methylation is deterred by the placeholder nucleosome is poorly understood. In the present study, we reconstituted the placeholder nucleosome containing histones H2A.Z and H3 with the Lys4 mono-methylation. The thermal stability assay revealed that the placeholder nucleosome is less stable than the canonical nucleosome. Nuclease susceptibility assays suggested that the nucleosomal DNA ends of the placeholder nucleosome are more accessible than those of the canonical nucleosome. These characteristics of the placeholder nucleosome are quite similar to those of the H2A.Z nucleosome without H3K4 methylation. Importantly, the linker histone H1, which is reportedly involved in the recruitment of DNA methyltransferases, efficiently binds to all of the placeholder, H2A.Z, and canonical nucleosomes. Therefore, the characteristics of the H2A.Z nucleosome are conserved in the placeholder nucleosome without synergistic effects on the H3K4 mono-methylation.
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spelling pubmed-64584502019-04-19 Biochemical characterization of the placeholder nucleosome for DNA hypomethylation maintenance Hirano, Rina Kujirai, Tomoya Negishi, Lumi Kurumizaka, Hitoshi Biochem Biophys Rep Research Article DNA methylation functions as a prominent epigenetic mark, and its patterns are transmitted to the genomes of offspring. The nucleosome containing the histone H2A.Z variant and histone H3K4 mono-methylation acts as a “placeholder” nucleosome for DNA hypomethylation maintenance in zebrafish embryonic cells. However, the mechanism by which DNA methylation is deterred by the placeholder nucleosome is poorly understood. In the present study, we reconstituted the placeholder nucleosome containing histones H2A.Z and H3 with the Lys4 mono-methylation. The thermal stability assay revealed that the placeholder nucleosome is less stable than the canonical nucleosome. Nuclease susceptibility assays suggested that the nucleosomal DNA ends of the placeholder nucleosome are more accessible than those of the canonical nucleosome. These characteristics of the placeholder nucleosome are quite similar to those of the H2A.Z nucleosome without H3K4 methylation. Importantly, the linker histone H1, which is reportedly involved in the recruitment of DNA methyltransferases, efficiently binds to all of the placeholder, H2A.Z, and canonical nucleosomes. Therefore, the characteristics of the H2A.Z nucleosome are conserved in the placeholder nucleosome without synergistic effects on the H3K4 mono-methylation. Elsevier 2019-04-10 /pmc/articles/PMC6458450/ /pubmed/31008378 http://dx.doi.org/10.1016/j.bbrep.2019.100634 Text en © 2019 The Authors. Published by Elsevier B.V. http://creativecommons.org/licenses/by/4.0/ This is an open access article under the CC BY license (http://creativecommons.org/licenses/by/4.0/).
spellingShingle Research Article
Hirano, Rina
Kujirai, Tomoya
Negishi, Lumi
Kurumizaka, Hitoshi
Biochemical characterization of the placeholder nucleosome for DNA hypomethylation maintenance
title Biochemical characterization of the placeholder nucleosome for DNA hypomethylation maintenance
title_full Biochemical characterization of the placeholder nucleosome for DNA hypomethylation maintenance
title_fullStr Biochemical characterization of the placeholder nucleosome for DNA hypomethylation maintenance
title_full_unstemmed Biochemical characterization of the placeholder nucleosome for DNA hypomethylation maintenance
title_short Biochemical characterization of the placeholder nucleosome for DNA hypomethylation maintenance
title_sort biochemical characterization of the placeholder nucleosome for dna hypomethylation maintenance
topic Research Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6458450/
https://www.ncbi.nlm.nih.gov/pubmed/31008378
http://dx.doi.org/10.1016/j.bbrep.2019.100634
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