Biological Implications and Regulatory Mechanisms of Long-range Chromosomal Interactions

被引:14
作者
Wei, Zong [1 ,2 ]
Huang, David [1 ,2 ]
Gao, Fan [1 ,2 ,3 ]
Chang, Wen-Hsuan [1 ,2 ]
An, Woojin [2 ]
Coetzee, Gerhard A. [4 ,5 ]
Wang, Kai [3 ]
Lu, Wange [2 ]
机构
[1] Univ So Calif, Keck Sch Med, Eli & Edythe Broad Ctr Regenerat Med & Stem Cell, Los Angeles, CA 90033 USA
[2] Univ So Calif, Keck Sch Med, Dept Biochem & Mol Biol, Los Angeles, CA 90033 USA
[3] Univ So Calif, Keck Sch Med, Zilkha Neurogenet Inst, Dept Prevent Med & Psychiat, Los Angeles, CA 90033 USA
[4] Univ So Calif, Keck Sch Med, Norris Comprehens Canc Ctr, Dept Prevent Med, Los Angeles, CA 90033 USA
[5] Univ So Calif, Keck Sch Med, Norris Comprehens Canc Ctr, Dept Urol, Los Angeles, CA 90033 USA
关键词
RNA-POLYMERASE-II; GLOBIN LOCUS REQUIRES; CHROMATIN INTERACTIONS; SPATIAL-ORGANIZATION; NUCLEAR SPECKLES; TRANSCRIPTION; GENOME; TRANSLOCATIONS; DOMAINS; GENES;
D O I
10.1074/jbc.R113.485292
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
Development of high-throughput sequencing-based methods has enabled us to examine nuclear architecture at unprecedented resolution, allowing further examination of the function of long-range chromosomal interactions. Here, we review methods used to investigate novel long-range chromosomal interactions and genome-wide organization of chromatin. We further discuss transcriptional activation and silencing in relation to organization and positioning of gene loci and regulation of chromatin organization through protein complexes and noncoding RNAs.
引用
收藏
页码:22369 / 22377
页数:9
相关论文
共 97 条
[1]   Genome-wide Chromatin Interactions of the Nanog Locus in Pluripotency, Differentiation, and Reprogramming [J].
Apostolou, Effie ;
Ferrari, Francesco ;
Walsh, Ryan M. ;
Bar-Nur, Ori ;
Stadtfeld, Matthias ;
Cheloufi, Sihem ;
Stuart, Hannah T. ;
Polo, Jose M. ;
Ohsumi, Toshiro K. ;
Borowsky, Mark L. ;
Kharchenko, Peter V. ;
Park, Peter J. ;
Hochedlinger, Konrad .
CELL STEM CELL, 2013, 12 (06) :699-712
[2]   Revisiting higher-order and large-scale chromatin organization [J].
Bian, Qian ;
Belmont, Andrew S. .
CURRENT OPINION IN CELL BIOLOGY, 2012, 24 (03) :359-366
[3]   Intermingling of chromosome territories in interphase suggests role in translocations and transcription-dependent associations [J].
Branco, Miguel R. ;
Pombo, Ana .
PLOS BIOLOGY, 2006, 4 (05) :780-788
[4]   Association between active genes occurs at nuclear speckles and is modulated by chromatin environment [J].
Brown, Jill M. ;
Green, Joanne ;
das Neves, Ricardo Pires ;
Wallace, Helen A. C. ;
Smith, Andrew J. H. ;
Hughes, Jim ;
Gray, Nicki ;
Taylor, Steve ;
Wood, William G. ;
Higgs, Douglas R. ;
Iborra, Francisco J. ;
Buckle, Veronica J. .
JOURNAL OF CELL BIOLOGY, 2008, 182 (06) :1083-1097
[5]   Dynamic repositioning of genes in the nucleus of lymphocytes preparing for cell division [J].
Brown, KE ;
Baxter, J ;
Graf, D ;
Merkenschlager, M ;
Fisher, AG .
MOLECULAR CELL, 1999, 3 (02) :207-217
[6]   Organization of Transcription [J].
Chakalova, Lyubomira ;
Fraser, Peter .
COLD SPRING HARBOR PERSPECTIVES IN BIOLOGY, 2010, 2 (09) :a000729
[7]   Chromatin decondensation and nuclear reorganization of the HoxB locus upon induction of transcription [J].
Chambeyron, S ;
Bickmore, WA .
GENES & DEVELOPMENT, 2004, 18 (10) :1119-1130
[8]   Integration of external signaling pathways with the core transcriptional network in embryonic stem cells [J].
Chen, Xi ;
Xu, Han ;
Yuan, Ping ;
Fang, Fang ;
Huss, Mikael ;
Vega, Vinsensius B. ;
Wong, Eleanor ;
Orlov, Yuriy L. ;
Zhang, Weiwei ;
Jiang, Jianming ;
Loh, Yuin-Han ;
Yeo, Hock Chuan ;
Yeo, Zhen Xuan ;
Narang, Vipin ;
Govindarajan, Kunde Ramamoorthy ;
Leong, Bernard ;
Shahab, Atif ;
Ruan, Yijun ;
Bourque, Guillaume ;
Sung, Wing-Kin ;
Clarke, Neil D. ;
Wei, Chia-Lin ;
Ng, Huck-Hui .
CELL, 2008, 133 (06) :1106-1117
[9]   Predicting three-dimensional genome structure from transcriptional activity [J].
Cook, PR .
NATURE GENETICS, 2002, 32 (03) :347-352
[10]  
CREMER C, 1982, CYTOMETRY, V2, P287