| 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
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| Corresponding Author | Wei, Jiachen(weijiachen@cpl.ac.cn) ; Gao, Yi Qin(gaoyq@pku.edu.cn) |
| Source Publication | JOURNAL OF CHEMICAL PHYSICS
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| 2024-02-07 | |
| Volume | 160Issue:5Pages:9 |
| ISSN | 0021-9606 |
| Abstract | 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 |
| Indexed By | SCI ; EI |
| Language | 英语 |
| WOS ID | WOS:001158735500012 |
| WOS Keyword | MECHANISMS ; BRUSHES |
| WOS Research Area | Chemistry ; Physics |
| WOS Subject | Chemistry, Physical ; Physics, Atomic, Molecular & Chemical |
| Funding Project | National Natural Science Foundation of China[92053202] ; National Natural Science Foundation of China[22050003] |
| Funding Organization | National Natural Science Foundation of China |
| Classification | 二类/Q1 |
| Ranking | 3+ |
| Contributor | Wei, Jiachen ; Gao, Yi Qin |
| Citation statistics | |
| Document Type | 期刊论文 |
| Identifier | http://dspace.imech.ac.cn/handle/311007/94343 |
| Collection | 非线性力学国家重点实验室 |
| Recommended Citation 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. |
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