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染色质空间组织的物理机制。

Physical mechanisms of chromatin spatial organization.

机构信息

Dipartimento di Fisica, Università di Napoli Federico II, and INFN Napoli, Complesso Universitario di Monte Sant'Angelo, Naples, Italy.

Berlin Institute for Medical Systems Biology, Max-Delbrück Centre (MDC) for Molecular Medicine, Berlin, Germany.

出版信息

FEBS J. 2022 Mar;289(5):1180-1190. doi: 10.1111/febs.15762. Epub 2021 Feb 22.

DOI:10.1111/febs.15762
PMID:33583147
Abstract

In higher eukaryotes, chromosomes have a complex three-dimensional (3D) conformation in the cell nucleus serving vital functional purposes, yet their folding principles remain poorly understood at the single-molecule level. Here, we summarize recent approaches from polymer physics to comprehend the physical mechanisms underlying chromatin architecture. In particular, we focus on two models that have been supported by recent, growing experimental evidence, the Loop Extrusion model and the Strings&Binders phase separation model. We discuss their key ingredients, how they compare to experimental data and some insight they provide on chromatin architecture and gene regulation. Progress in that research field are opening the possibility to predict how genomic mutations alter the network of contacts between genes and their regulators and how that is linked to genetic diseases, such as congenital disorders and cancer.

摘要

在高等真核生物中,染色体在细胞核中具有复杂的三维(3D)构象,这些构象对其功能至关重要,但在单分子水平上,其折叠原理仍知之甚少。在这里,我们总结了近年来从高分子物理角度理解染色质结构基础物理机制的方法。特别地,我们重点介绍了两种模型,它们得到了最近越来越多的实验证据的支持,即环挤出模型和串珠-黏合剂相分离模型。我们讨论了它们的关键成分,以及它们与实验数据的比较,并探讨了它们对染色质结构和基因调控的一些见解。该研究领域的进展为预测基因组突变如何改变基因与其调控因子之间的接触网络以及如何与遗传疾病(如先天性疾病和癌症)相关提供了可能性。

相似文献

1
Physical mechanisms of chromatin spatial organization.染色质空间组织的物理机制。
FEBS J. 2022 Mar;289(5):1180-1190. doi: 10.1111/febs.15762. Epub 2021 Feb 22.
2
Polymer models are a versatile tool to study chromatin 3D organization.聚合物模型是研究染色质三维结构的一种通用工具。
Biochem Soc Trans. 2021 Aug 27;49(4):1675-1684. doi: 10.1042/BST20201004.
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Computational approaches from polymer physics to investigate chromatin folding.从高分子物理角度研究染色质折叠的计算方法。
Curr Opin Cell Biol. 2020 Jun;64:10-17. doi: 10.1016/j.ceb.2020.01.002. Epub 2020 Feb 8.
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Simulation of different three-dimensional polymer models of interphase chromosomes compared to experiments-an evaluation and review framework of the 3D genome organization.模拟不同的相间染色体的三维聚合物模型与实验比较——3D 基因组组织的评估和综述框架。
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Physics-Based Polymer Models to Probe Chromosome Structure in Single Molecules.基于物理的聚合物模型探测单分子中的染色体结构。
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7
Models of polymer physics for the architecture of the cell nucleus.用于细胞核结构的聚合物物理模型。
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Loop-extrusion and polymer phase-separation can co-exist at the single-molecule level to shape chromatin folding.环挤出和聚合物相分离可以在单分子水平上共存,从而塑造染色质折叠。
Nat Commun. 2022 Jul 13;13(1):4070. doi: 10.1038/s41467-022-31856-6.
9
Complexity of chromatin folding is captured by the strings and binders switch model.染色质折叠的复杂性由串和结合蛋白开关模型捕获。
Proc Natl Acad Sci U S A. 2012 Oct 2;109(40):16173-8. doi: 10.1073/pnas.1204799109. Epub 2012 Sep 17.
10
A model of the large-scale organization of chromatin.染色质的大规模组织模型。
Biochem Soc Trans. 2013 Apr;41(2):508-12. doi: 10.1042/BST20120238.

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Polymer Physics Models Reveal Structural Folding Features of Single-Molecule Gene Chromatin Conformations.高分子物理模型揭示单分子基因染色质构象的结构折叠特征。
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