DNA 甲基化增加核小体的紧凑性和刚性。
DNA methylation increases nucleosome compaction and rigidity.
机构信息
Department of Physics, Bio-X Program, Stanford University, Stanford, California 94305, USA.
出版信息
J Am Chem Soc. 2010 Feb 17;132(6):1782-3. doi: 10.1021/ja910264z.
Abstract
Cytosine methylation on CpG dinucleotides is an essential epigenetic modification in eukaryotes. How DNA methylation modulates nucleosome structure and dynamics has been a long-standing question. We implemented a single-molecule method to monitor the effects of DNA methylation on the structure and dynamics of mononucleosomes. Our studies show that DNA methylation induces a more compact and rigid nucleosome structure, providing a physical basis for how DNA methylation might contribute to regulating chromatin structure.
摘要
胞嘧啶在 CpG 二核苷酸上的甲基化是真核生物中一种重要的表观遗传修饰。DNA 甲基化如何调节核小体结构和动力学一直是一个长期存在的问题。我们采用了一种单分子方法来监测 DNA 甲基化对单核小体结构和动力学的影响。我们的研究表明，DNA 甲基化诱导核小体结构更加紧凑和刚性，为 DNA 甲基化如何有助于调节染色质结构提供了物理基础。
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本文引用的文献
1
Structural variability of nucleosomes detected by single-pair Förster resonance energy transfer: histone acetylation, sequence variation, and salt effects.通过单对荧光共振能量转移检测核小体的结构变异性：组蛋白乙酰化、序列变异和盐效应。
J Phys Chem B. 2009 Mar 5;113(9):2604-13. doi: 10.1021/jp7114737.
2
Genomic patterns of DNA methylation: targets and function of an epigenetic mark.DNA甲基化的基因组模式：一种表观遗传标记的靶点与功能
Curr Opin Cell Biol. 2007 Jun;19(3):273-80. doi: 10.1016/j.ceb.2007.04.011. Epub 2007 Apr 26.
3
Cancer epigenomics: DNA methylomes and histone-modification maps.癌症表观基因组学：DNA甲基化组与组蛋白修饰图谱
Nat Rev Genet. 2007 Apr;8(4):286-98. doi: 10.1038/nrg2005. Epub 2007 Mar 6.
4
Chromatin compaction at the mononucleosome level.单核小体水平的染色质压缩
Biochemistry. 2006 Feb 14;45(6):1591-8. doi: 10.1021/bi052110u.
5
DNA methylation, nucleosome formation and positioning.DNA甲基化、核小体形成与定位。
Brief Funct Genomic Proteomic. 2005 Feb;3(4):351-61. doi: 10.1093/bfgp/3.4.351.
6
Structure and dynamic behavior of nucleosomes.核小体的结构与动态行为。
Curr Opin Genet Dev. 2003 Apr;13(2):127-35. doi: 10.1016/s0959-437x(03)00026-1.
7
DNA methylation patterns and epigenetic memory.DNA甲基化模式与表观遗传记忆
Genes Dev. 2002 Jan 1;16(1):6-21. doi: 10.1101/gad.947102.
8
Preparation of nucleosome core particle from recombinant histones.从重组组蛋白制备核小体核心颗粒。
Methods Enzymol. 1999;304:3-19. doi: 10.1016/s0076-6879(99)04003-3.
9
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Nature. 1998 May 28;393(6683):386-9. doi: 10.1038/30764.
10
Methylated DNA and MeCP2 recruit histone deacetylase to repress transcription.甲基化的DNA和MeCP2招募组蛋白去乙酰化酶以抑制转录。
Nat Genet. 1998 Jun;19(2):187-91. doi: 10.1038/561.
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