Control of Cell Identity Genes Occurs in Insulated Neighborhoods in Mammalian Chromosomes

被引：665

作者：

Dowen, Jill M. ^{[1
]}

Fan, Zi Peng ^{[1
,2
]}

Hnisz, Denes ^{[1
]}

Ren, Gang ^{[3
,4
]}

Abraham, Brian J. ^{[1
]}

Zhang, Lyndon N. ^{[1
,5
]}

Weintraub, Abraham S. ^{[1
,5
]}

Schuijers, Jurian ^{[1
]}

Lee, Tong Ihn ^{[1
]}

Zhao, Keji ^{[3
]}

Young, Richard A. ^{[1
,5
]}

机构：

[1] Whitehead Inst Biomed Res, Cambridge, MA 02142 USA

[2] MIT, Computat & Syst Biol Program, Cambridge, MA 02139 USA

[3] NHLBI, Syst Biol Ctr, NIH, Bethesda, MD 20892 USA

[4] Northwest A&F Univ, Coll Anim Sci & Technol, Yangling 712100, Shaanxi, Peoples R China

[5] MIT, Dept Biol, Cambridge, MA 02139 USA

来源：

CELL | 2014年 / 159卷 / 02期

基金：

美国国家卫生研究院; 奥地利科学基金会;

关键词：

TRANSCRIPTIONAL REGULATION; DEVELOPMENTAL REGULATORS; TOPOLOGICAL DOMAINS; GENOME ORGANIZATION; SUPER-ENHANCERS; BINDING SITES; PROTEIN CTCF; CHROMATIN; COHESIN; POLYCOMB;

D O I：

10.1016/j.cell.2014.09.030

中图分类号：

Q5 [生物化学]; Q7 [分子生物学];

学科分类号：

071010 ; 081704 ;

摘要：

The pluripotent state of embryonic stem cells (ESCs) is produced by active transcription of genes that control cell identity and repression of genes encoding lineage-specifying developmental regulators. Here, we use ESC cohesin ChIA-PET data to identify the local chromosomal structures at both active and repressed genes across the genome. The results produce a map of enhancer-promoter interactions and reveal that super-enhancer-driven genes generally occur within chromosome structures that are formed by the looping of two interacting CTCF sites co-occupied by cohesin. These looped structures form insulated neighborhoods whose integrity is important for proper expression of local genes. We also find that repressed genes encoding lineage-specifying developmental regulators occur within insulated neighborhoods. These results provide insights into the relationship between transcriptional control of cell identity genes and control of local chromosome structure.

引用

页码：374 / 387

页数：14

共 69 条

[1] CTCF and cohesin cooperate to organize the 3D structure of the mammalian genome [J].