The connection between BRG1, CTCF and topoisomerases at TAD boundaries

被引：23

作者：

Barutcu, A. Rasim ^{[1
]}

Lian, Jane B. ^{[2
]}

Stein, Janet L. ^{[2
]}

Stein, Gary S. ^{[2
]}

Imbalzano, Anthony N. ^{[1
]}

机构：

[1] Univ Massachusetts, Sch Med, Dept Cell & Dev Biol, 55 Lake Ave North, Worcester, MA 01655 USA

[2] Univ Vermont, Coll Med, Dept Biochem, Burlington, VT 05405 USA

来源：

NUCLEUS | 2017年 / 8卷 / 02期

关键词：

BRG1; CTCF; Hi-C; SWI; SNF; TADs; topologically associated domains; topoisomerase; TOPOLOGICALLY ASSOCIATING DOMAINS; GENE-EXPRESSION; 3D GENOME; CHROMATIN DOMAINS; ORGANIZATION; DNA; TRANSCRIPTION; ARCHITECTURE; CHROMOSOMES; INSIGHTS;

D O I：

10.1080/19491034.2016.1276145

中图分类号：

Q2 [细胞生物学];

学科分类号：

071009 ; 090102 ;

摘要：

The eukaryotic genome is partitioned into topologically associating domains (TADs). Despite recent advances characterizing TADs and TAD boundaries, the organization of these structures is an important dimension of genome architecture and function that is not well understood. Recently, we demonstrated that knockdown of BRG1, an ATPase driving the chromatin remodeling activity of mammalian SWI/SNF enzymes, globally alters long-range genomic interactions and results in a reduction of TAD boundary strength. We provided evidence suggesting that this effect may be due to BRG1 affecting nucleosome occupancy around CTCF sites present at TAD boundaries. In this review, we elaborate on our findings and speculate that BRG1 may contribute to the regulation of the structural and functional properties of chromatin at TAD boundaries by affecting the function or the recruitment of CTCF and DNA topoisomerase complexes.

引用

页码：150 / 155

页数：6

共 51 条

[1] Tissue-specific SMARCA4 binding at active and repressed regulatory elements during embryogenesis [J].

Attanasio, Catia ;

Nord, Alex S. ;

Zhu, Yiwen ;

Blow, Matthew J. ;

Biddie, Simon C. ;

Mendenhall, Eric M. ;

Dixon, Jesse ;

Wright, Crystal ;

Hosseini, Roya ;

Akiyama, Jennifer A. ;

Holt, Amy ;

Plajzer-Frick, Ingrid ;

Shoukry, Malak ;

Afzal, Veena ;

Ren, Bing ;

Bernstein, Bradley E. ;

Rubin, Edward M. ;

Visel, Axel ;

Pennacchio, Len A. .

GENOME RESEARCH, 2014, 24 (06) :920-929

[2] SMARCA4 regulates gene expression and higher order chromatin structure in proliferating mammary epithelial cells [J].

Barutcu, A. Rasim ;

Lajoie, Bryan R. ;

Fritz, Andrew J. ;

McCord, Rachel P. ;

Nickerson, Jeffrey A. ;

van Wijnen, Andre J. ;

Lian, Jane B. ;

Stein, Janet L. ;

Dekker, Job ;

Stein, Gary S. ;

Imbalzano, Anthony N. .

GENOME RESEARCH, 2016, 26 (09) :1188-1201

[3] C-ing the Genome: A Compendium of Chromosome Conformation Capture Methods to Study Higher-Order Chromatin Organization [J].

Barutcu, A. Rasim ;

Fritz, Andrew J. ;

Zaidi, Sayyed K. ;

van Wijnen, Andre J. ;

Lian, Jane B. ;

Stein, Janet L. ;

Nickerson, Jeffrey A. ;

Imbalzano, Anthony N. ;

Stein, Gary S. .

JOURNAL OF CELLULAR PHYSIOLOGY, 2016, 231 (01) :31-35

[4] Chromatin interaction analysis reveals changes in small chromosome and telomere clustering between epithelial and breast cancer cells [J].

Barutcu, A. Rasim ;

Lajoie, Bryan R. ;

McCord, Rachel P. ;

Tye, Coralee E. ;

Hong, Deli ;

Messier, Terri L. ;

Browne, Gillian ;

van Wijnen, Andre J. ;

Lian, Jane B. ;

Stein, Janet L. ;

Dekker, Job ;

Imbalzano, Anthony N. ;

Stein, Gary S. .

GENOME BIOLOGY, 2015, 16

[5] Condensin-driven remodelling of X chromosome topology during dosage compensation [J].

Crane, Emily ;

Bian, Qian ;

McCord, Rachel Patton ;

Lajoie, Bryan R. ;

Wheeler, Bayly S. ;

Ralston, Edward J. ;

Uzawa, Satoru ;

Dekker, Job ;

Meyer, Barbara J. .

NATURE, 2015, 523 (7559) :240-U299

[6] Topologically Associating Domains: An invariant framework or a dynamic scaffold? [J].

Cubenas-Potts, Caelin ;

Corces, Victor G. .

NUCLEUS, 2015, 6 (06) :430-434

[7] Architectural proteins, transcription, and the three-dimensional organization of the genome [J].

Cubenas-Potts, Caelin ;

Corces, Victor G. .

FEBS LETTERS, 2015, 589 (20) :2923-2930

[8] A decade of 3C technologies: insights into nuclear organization [J].

de Wit, Elzo ;

de laat, Wouter .

GENES & DEVELOPMENT, 2012, 26 (01) :11-24

[9] The 3D Genome as Moderator of Chromosomal Communication [J].

Dekker, Job ;

Mirny, Leonid .

CELL, 2016, 164 (06) :1110-1121

[10] The second decade of 3C technologies: detailed insights into nuclear organization [J].

Denker, Annette ;

de laat, Wouter .

GENES & DEVELOPMENT, 2016, 30 (12) :1357-1382

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