Topological Constraints with Optimal Length Promote the Formation of Chromosomal Territories at Weakened Degree of Phase Separation

doi:10.1021/acs.jpcb.1c03523

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	Topological Constraints with Optimal Length Promote the Formation of Chromosomal Territories at Weakened Degree of Phase Separation
	Wei JC(韦佳辰)1,3,4; Tian, Hao 5,6; Zhou, Rui 6; Shao YF(邵颖峰)2,3,4; Song F(宋凡)2,3,4; Gao, Yi Qin 1,5,6
刊名	JOURNAL OF PHYSICAL CHEMISTRY B
	2021-08-19
卷号	125 期号:32 页码:9092-9101
ISSN号	1520-6106
DOI	10.1021/acs.jpcb.1c03523
通讯作者	Wei, Jiachen(weijiachen@lnm.imech.ac.cn) ; Gao, Yi Qin(gaoyq@pku.edu.cn)
英文摘要	It is generally agreed that the nuclei of eukaryotic cells at interphase are partitioned into disjointed territories, with distinct regions occupied by certain chromosomes. However, the underlying mechanism for such territorialization is still under debate. Here we model chromosomes as coarse-grained block copolymers and to investigate the effect of loop domains (LDs) on the formation of compartments and territories based on dissipative particle dynamics. A critical length of LDs, which depends sensitively on the length of polymeric blocks, is obtained to minimize the degree of phase separation. This also applies to the two-polymer system: The critical length not only maximizes the degree of territorialization but also minimizes the degree of phase separation. Interestingly, by comparing with experimental data, we find the critical length for LDs and the corresponding length of blocks to be respectively very close to the mean length of topologically associating domains (TADs) and chromosomal segments with different densities of CpG islands for human chromosomes. The results indicate that topological constraints with optimal length can contribute to the formation of territories by weakening the degree of phase separation, which likely promotes the chromosomal flexibility in response to genetic regulations.
分类号	Q3
资助项目	NSFC Basic Science Center Program for Multiscale Problems in Nonlinear Mechanics[11988102] ; National Natural Science Foundation of China[92053202] ; National Natural Science Foundation of China[22050003] ; Strategic Priority Research Program of the Chinese Academy of Sciences[XDB22040102]
WOS关键词	RANDOM COPOLYMERS ; CHROMATIN ; MECHANISMS ; GENOME ; ORGANIZATION ; PRINCIPLES ; DYNAMICS ; DOMAINS ; REGIONS
WOS研究方向	Chemistry
语种	英语
WOS记录号	WOS:000687835300005
资助机构	NSFC Basic Science Center Program for Multiscale Problems in Nonlinear Mechanics ; National Natural Science Foundation of China ; Strategic Priority Research Program of the Chinese Academy of Sciences
其他责任者	Wei, Jiachen ; Gao, Yi Qin
内容类型	期刊论文
源URL	[http://dspace.imech.ac.cn/handle/311007/87353]
专题	力学研究所_非线性力学国家重点实验室
作者单位	1.Shenzhen Bay Lab, Shenzhen 518055, Guangdong, Peoples R China 2.Univ Chinese Acad Sci, Sch Engn Sci, Beijing 100049, Peoples R China; 3.Chinese Acad Sci, Inst Mech, Beijing Key Lab Engn Construct & Mechanobiol, Beijing 100190, Peoples R China; 4.Chinese Acad Sci, Inst Mech, State Key Lab Nonlinear Mech, Beijing 100190, Peoples R China; 5.Peking Univ, Beijing Adv Innovat Ctr Genom ICG, Beijing 100871, Peoples R China; 6.Peking Univ, Beijing Natl Lab Mol Sci, Coll Chem & Mol Engn, Biomed Pioneering Innovat Ctr BIOPIC, Beijing 100871, Peoples R China;
推荐引用方式 GB/T 7714	Wei JC,Tian, Hao,Zhou, Rui,et al. Topological Constraints with Optimal Length Promote the Formation of Chromosomal Territories at Weakened Degree of Phase Separation[J]. JOURNAL OF PHYSICAL CHEMISTRY B,2021,125(32):9092-9101.
APA	韦佳辰,Tian, Hao,Zhou, Rui,邵颖峰,宋凡,&Gao, Yi Qin.(2021).Topological Constraints with Optimal Length Promote the Formation of Chromosomal Territories at Weakened Degree of Phase Separation.JOURNAL OF PHYSICAL CHEMISTRY B,125(32),9092-9101.
MLA	韦佳辰,et al."Topological Constraints with Optimal Length Promote the Formation of Chromosomal Territories at Weakened Degree of Phase Separation".JOURNAL OF PHYSICAL CHEMISTRY B 125.32(2021):9092-9101.