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核小体组装动力学涉及四体螺旋方向的自发波动。

Nucleosome assembly dynamics involve spontaneous fluctuations in the handedness of tetrasomes.

作者信息

Vlijm Rifka, Lee Mina, Lipfert Jan, Lusser Alexandra, Dekker Cees, Dekker Nynke H

机构信息

Department of Bionanoscience, Kavli Institute of Nanoscience, Delft University of Technology, Lorentzweg 1, 2628 CJ Delft, the Netherlands.

Division of Molecular Biology, Biocenter, Innsbruck Medical University, Innrain 80-82, 6020 Innsbruck, Austria.

出版信息

Cell Rep. 2015 Jan 13;10(2):216-25. doi: 10.1016/j.celrep.2014.12.022. Epub 2015 Jan 8.

Abstract

DNA wrapping around histone octamers generates nucleosomes, the basic compaction unit of eukaryotic chromatin. Nucleosome stability is carefully tuned to maintain DNA accessibility in transcription, replication, and repair. Using freely orbiting magnetic tweezers, which measure the twist and length of single DNA molecules, we monitor the real-time loading of tetramers or complete histone octamers onto DNA by Nucleosome Assembly Protein-1 (NAP1). Remarkably, we find that tetrasomes exhibit spontaneous flipping between a preferentially occupied left-handed state (ΔLk = -0.73) and a right-handed state (ΔLk = +1.0), separated by a free energy difference of 2.3 kBT (1.5 kcal/mol). This flipping occurs without concomitant changes in DNA end-to-end length. The application of weak positive torque converts left-handed tetrasomes into right-handed tetrasomes, whereas nucleosomes display more gradual conformational changes. Our findings reveal unexpected dynamical rearrangements of the nucleosomal structure, suggesting that chromatin can serve as a "twist reservoir," offering a mechanistic explanation for the regulation of DNA supercoiling in chromatin.

摘要

DNA缠绕在组蛋白八聚体周围形成核小体,这是真核染色质的基本压缩单元。核小体稳定性经过精心调节,以在转录、复制和修复过程中维持DNA的可及性。我们使用自由轨道磁镊来测量单个DNA分子的扭曲和长度,通过核小体组装蛋白-1(NAP1)监测四聚体或完整组蛋白八聚体实时加载到DNA上的过程。值得注意的是,我们发现四联体在优先占据的左手状态(ΔLk = -0.73)和右手状态(ΔLk = +1.0)之间自发翻转,两者之间的自由能差为2.3 kBT(1.5千卡/摩尔)。这种翻转发生时DNA的端到端长度没有伴随变化。施加弱正扭矩可将左手四联体转化为右手四联体,而核小体则表现出更渐进的构象变化。我们的研究结果揭示了核小体结构意想不到的动态重排,表明染色质可作为一个“扭曲库”,为染色质中DNA超螺旋的调控提供了一种机制解释。

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