Cell cycle arrest explains the observed bulk 3D genomic alterations in response to long-term heat shock in K562 cells

作者全名："Xu, Bingxiang; Gao, Xiaomeng; Li, Xiaoli; Jia, Yan; Li, Feifei; Zhang, Zhihua"

作者地址："[Xu, Bingxiang; Gao, Xiaomeng; Li, Xiaoli; Jia, Yan; Li, Feifei; Zhang, Zhihua] Chinese Acad Sci, Beijing Inst Genom, China Natl Ctr Bioinformat, Beijing 100101, Peoples R China; [Xu, Bingxiang; Gao, Xiaomeng; Li, Xiaoli; Zhang, Zhihua] Univ Chinese Acad Sci, Sch Life Sci, Beijing 101408, Peoples R China; [Xu, Bingxiang] Shanghai Univ Sport, Sch Kinesiol, Shanghai 200438, Peoples R China; [Li, Xiaoli] Chongqing Med Univ, Dept Cell Biol & Genet, Core Facil Dev Biol, Chongqing 400016, Peoples R China; [Li, Feifei] South China Univ Technol, Sch Med, Div Cell Dev & Integrat Biol, Guangzhou 510006, Peoples R China"

通信作者："Xu, BX; Li, FF; Zhang, ZH (通讯作者)，Chinese Acad Sci, Beijing Inst Genom, China Natl Ctr Bioinformat, Beijing 100101, Peoples R China.; Xu, BX; Zhang, ZH (通讯作者)，Univ Chinese Acad Sci, Sch Life Sci, Beijing 101408, Peoples R China.; Xu, BX (通讯作者)，Shanghai Univ Sport, Sch Kinesiol, Shanghai 200438, Peoples R China.; Li, FF (通讯作者)，South China Univ Technol, Sch Med, Div Cell Dev & Integrat Biol, Guangzhou 510006, Peoples R China."

来源：GENOME RESEARCH

ESI学科分类：MOLECULAR BIOLOGY & GENETICS

WOS号：WOS:000836129800005

JCR分区：Q1

影响因子：7

年份：2022

卷号：32

期号：7

开始页：1285

结束页：1297

文献类型：Article

关键词：　

摘要："Heat shock is a common environmental stress, although the response of the nucleus to it remains controversial in mammalian cells. Acute reaction and chronic adaptation to environmental stress may have distinct internal rewiring in the gene regulation networks. However, this difference remains largely unexplored. Here, we report that chromatin conformation and chromatin accessibility respond differently in short- and long-term heat shock in human K562 cells. We found that chromatin conformation in K562 cells was largely stable in response to short-term heat shock, whereas it showed clear and characteristic changes after long-term heat treatment with little alteration in chromatin accessibility during the whole process. We further show in silico and experimental evidence strongly suggesting that changes in chromatin conformation may largely stem from an accumulation of cells in the M stage of the cell cycle in response to heat shock. Our results represent a paradigm shift away from the controversial view of chromatin response to heat shock and emphasize the necessity of cell cycle analysis when interpreting bulk Hi-C data."

基金机构："Beijing Natural Science Foundation [Z200021]; Strategic Priority Research Program of the Chinese Academy of Sciences, China [XDA24020307]; Special Investigation on Science and Technology Basic Resources of the MOST, China [2019FY100102]; National Key R&D Program of China [2018YFC2000400]; National Nature Science Foundation of China [31671342, 31871331, 91940304]; Beijing Advanced Discipline Fund [115200S001]"

基金资助正文："We thank all members of the Zhihua Zhang laboratory for providing helpful advice and support for this project. We thank Mr. David Martin for English language editorial services and Ziyang An for help with the figures. This work was supported by Beijing Natural Science Foundation (Z200021); the Strategic Priority Research Program of the Chinese Academy of Sciences, China (XDA24020307); Special Investigation on Science and Technology Basic Resources of the MOST, China (2019FY100102); the National Key R & D Program of China (2018YFC2000400); the National Nature Science Foundation of China (31671342, 31871331, 91940304); and the Beijing Advanced Discipline Fund (115200S001)."