Steric repulsion introduced by loop constraints modulates the microphase separation of chromatins

doi:10.1063/5.0189692

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	Steric repulsion introduced by loop constraints modulates the microphase separation of chromatins
	Wei JC(韦佳辰); Xue, Yue; Liu, Yawei; Tian, Hao; Shao YF(邵颖峰); Gao, Yi Qin
通讯作者	Wei, Jiachen(weijiachen@cpl.ac.cn) ; Gao, Yi Qin(gaoyq@pku.edu.cn)
发表期刊	JOURNAL OF CHEMICAL PHYSICS
	2024-02-07
卷号	160 期号:5 页码:9
ISSN	0021-9606
摘要	Within the confines of a densely populated cell nucleus, chromatin undergoes intricate folding, forming loops, domains, and compartments under the governance of topological constraints and phase separation. This coordinated process inevitably introduces interference between different folding strategies. In this study, we model interphase chromatins as block copolymers with hetero-hierarchical loops within a confined system. Employing dissipative particle dynamics simulations and scaling analysis, we aim to explain how the structure and distribution of loop domains modulate the microphase separation of chromatins. Our results highlight the correlation between the microphase separation of the copolymer and the length, heterogeneity, and hierarchically nested levels of the loop domains. This correlation arises from steric repulsion intrinsic to loop domains. The steric repulsion induces variations in chain stiffness (including local orientation correlations and the persistence length), thereby influencing the degree of phase separation. Through simulations of block copolymers with distinct groups of hetero-hierarchical loop anchors, we successfully reproduce changes in phase separation across diverse cell lines, under fixed interaction parameters. These findings, in qualitative alignment with Hi-C data, suggest that the variations of loop constraints alone possess the capacity to regulate higher-order structures and the gene expressions of interphase chromatins.
DOI	10.1063/5.0189692
收录类别	SCI ; EI
语种	英语
WOS记录号	WOS:001158735500012
关键词[WOS]	MECHANISMS ; BRUSHES
WOS研究方向	Chemistry ; Physics
WOS类目	Chemistry, Physical ; Physics, Atomic, Molecular & Chemical
资助项目	National Natural Science Foundation of China[92053202] ; National Natural Science Foundation of China[22050003]
项目资助者	National Natural Science Foundation of China
论文分区	二类/Q1
力学所作者排名	3+
RpAuthor	Wei, Jiachen ; Gao, Yi Qin
引用统计
文献类型	期刊论文
条目标识符	http://dspace.imech.ac.cn/handle/311007/94343
专题	非线性力学国家重点实验室
推荐引用方式 GB/T 7714	Wei JC,Xue, Yue,Liu, Yawei,et al. Steric repulsion introduced by loop constraints modulates the microphase separation of chromatins[J]. JOURNAL OF CHEMICAL PHYSICS,2024,160,5,:9.
APA	韦佳辰,Xue, Yue,Liu, Yawei,Tian, Hao,邵颖峰,&Gao, Yi Qin.(2024).Steric repulsion introduced by loop constraints modulates the microphase separation of chromatins.JOURNAL OF CHEMICAL PHYSICS,160(5),9.
MLA	韦佳辰,et al."Steric repulsion introduced by loop constraints modulates the microphase separation of chromatins".JOURNAL OF CHEMICAL PHYSICS 160.5(2024):9.