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组蛋白H3K4去甲基化酶KDM5A与核小体重塑和去乙酰化酶(NuRD)复合物之间的物理和功能相互作用。

Physical and functional interactions between the histone H3K4 demethylase KDM5A and the nucleosome remodeling and deacetylase (NuRD) complex.

作者信息

Nishibuchi Gohei, Shibata Yukimasa, Hayakawa Tomohiro, Hayakawa Noriyo, Ohtani Yasuko, Sinmyozu Kaori, Tagami Hideaki, Nakayama Jun-ichi

机构信息

From the Graduate School of Natural Sciences, Nagoya City University, Nagoya 467-8501.

the Department of Bioscience, Graduate School of Science and Technology, Kwansei-Gakuin University, Sanda, Hyogo 669-1337, and.

出版信息

J Biol Chem. 2014 Oct 17;289(42):28956-70. doi: 10.1074/jbc.M114.573725. Epub 2014 Sep 4.

Abstract

Histone H3K4 methylation has been linked to transcriptional activation. KDM5A (also known as RBP2 or JARID1A), a member of the KDM5 protein family, is an H3K4 demethylase, previously implicated in the regulation of transcription and differentiation. Here, we show that KDM5A is physically and functionally associated with two histone deacetylase complexes. Immunoaffinity purification of KDM5A confirmed a previously described association with the SIN3B-containing histone deacetylase complex and revealed an association with the nucleosome remodeling and deacetylase (NuRD) complex. Sucrose density gradient and sequential immunoprecipitation analyses further confirmed the stable association of KDM5A with these two histone deacetylase complexes. KDM5A depletion led to changes in the expression of hundreds of genes, two-thirds of which were also controlled by CHD4, the NuRD catalytic subunit. Gene ontology analysis confirmed that the genes commonly regulated by both KDM5A and CHD4 were categorized as developmentally regulated genes. ChIP analyses suggested that CHD4 modulates H3K4 methylation levels at the promoter and coding regions of target genes. We further demonstrated that the Caenorhabditis elegans homologues of KDM5 and CHD4 function in the same pathway during vulva development. These results suggest that KDM5A and the NuRD complex cooperatively function to control developmentally regulated genes.

摘要

组蛋白H3K4甲基化与转录激活相关。KDM5A(也称为RBP2或JARID1A)是KDM5蛋白家族的成员,是一种H3K4去甲基化酶,先前已涉及转录和分化的调控。在此,我们表明KDM5A在物理和功能上与两种组蛋白去乙酰化酶复合物相关。对KDM5A进行免疫亲和纯化证实了其与含SIN3B的组蛋白去乙酰化酶复合物的先前描述的关联,并揭示了其与核小体重塑和去乙酰化酶(NuRD)复合物的关联。蔗糖密度梯度和连续免疫沉淀分析进一步证实了KDM5A与这两种组蛋白去乙酰化酶复合物的稳定关联。KDM5A的缺失导致数百个基因表达的变化,其中三分之二也受NuRD催化亚基CHD4的控制。基因本体分析证实,由KDM5A和CHD4共同调控的基因被归类为发育调控基因。染色质免疫沉淀分析表明,CHD4调节靶基因启动子和编码区的H3K4甲基化水平。我们进一步证明,在秀丽隐杆线虫中,KDM5和CHD4的同源物在外阴发育过程中在同一途径中发挥作用。这些结果表明,KDM5A和NuRD复合物协同作用以控制发育调控基因。

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