A wave of nascent transcription on activated human genes

被引：120

作者：

Wada, Youichiro ^{[1
]}

Ohta, Yoshihiro ^{[1
]}

Xu, Meng ^{[2
]}

Tsutsumi, Shuichi ^{[1
]}

Minami, Takashi ^{[1
]}

Inoue, Kenji ^{[1
]}

Komura, Daisuke ^{[1
]}

Kitakami, Jun'ichi ^{[1
]}

Oshida, Nobuhiko ^{[1
]}

Papantonis, Argyris ^{[2
]}

Izumi, Akashi ^{[1
]}

Kobayashi, Mika ^{[1
]}

Meguro, Hiroko ^{[1
]}

Kanki, Yasuharu ^{[1
]}

Mimura, Imari ^{[1
]}

Yamamoto, Kazuki ^{[1
]}

Mataki, Chikage ^{[1
]}

Hamakubo, Takao ^{[1
]}

Shirahige, Katsuhiko ^{[3
]}

Aburatani, Hiroyuki ^{[1
]}

Kimura, Hiroshi ^{[4
]}

Kodama, Tatsuhiko ^{[1
]}

Cook, Peter R. ^{[2
]}

Ihara, Sigeo ^{[1
]}

机构：

[1] Univ Tokyo, Lab Syst Biol & Med, Res Ctr Adv Sci & Technol, Meguro Ku, Tokyo 1538904, Japan

[2] Univ Oxford, Sir William Dunn Sch Pathol, Oxford OX1 3RE, England

[3] Tokyo Inst Technol, Grad Sch Biosci & Biotechnol, Midori Ku, Yokohama, Kanagawa 2268501, Japan

[4] Osaka Univ, Grad Sch Frontier Biosci, Suita, Osaka 5650871, Japan

来源：

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA | 2009年 / 106卷 / 43期

关键词：

endothelial cell; polymerase II; RNA; tumor necrosis factor alpha; RNA-POLYMERASE-II; LIVING CELLS; EXPRESSION; PROMOTERS; GENOME; INITIATION; CHROMATIN; DYNAMICS; COHESIN; IICTD;

D O I：

10.1073/pnas.0902573106

中图分类号：

O [数理科学和化学]; P [天文学、地球科学]; Q [生物科学]; N [自然科学总论];

学科分类号：

07 ; 0710 ; 09 ;

摘要：

Genome-wide studies reveal that transcription by RNA polymerase II (Pol II) is dynamically regulated. To obtain a comprehensive view of a single transcription cycle, we switched on transcription of five long human genes (>100 kbp) with tumor necrosis factor-alpha (TNF alpha) and monitored (using microarrays, RNA fluorescence in situ hybridization, and chromatin immunoprecipitation) the appearance of nascent RNA, changes in binding of Pol II and two insulators (the cohesin subunit RAD21 and the CCCTC-binding factor CTCF), and modifications of histone H3. Activation triggers a wave of transcription that sweeps along the genes at approximate to 3.1 kbp/min; splicing occurs cotranscriptionally, a major checkpoint acts several kilobases downstream of the transcription start site to regulate polymerase transit, and Pol II tends to stall at cohesin/CTCF binding sites.

引用

页码：18357 / 18361

页数：5

共 30 条

[1] High-resolution profiling of histone methylations in the human genome [J].

Barski, Artern ;

Cuddapah, Suresh ;

Cui, Kairong ;

Roh, Tae-Young ;

Schones, Dustin E. ;

Wang, Zhibin ;

Wei, Gang ;

Chepelev, Iouri ;

Zhao, Keji .

CELL, 2007, 129 (04) :823-837

[2] Transcription regulation through promoter-proximal pausing of RNA polymerase II [J].

Core, Leighton J. ;

Lis, John T. .

SCIENCE, 2008, 319 (5871) :1791-1792

[3] Nascent RNA Sequencing Reveals Widespread Pausing and Divergent Initiation at Human Promoters [J].

Core, Leighton J. ;

Waterfall, Joshua J. ;

Lis, John T. .

SCIENCE, 2008, 322 (5909) :1845-1848

[4] In vivo dynamics of RNA polymerase II transcription [J].

Darzacq, Xavier ;

Shav-Tal, Yaron ;

de Turris, Valeria ;

Brody, Yehuda ;

Shenoy, Shailesh M. ;

Phair, Robert D. ;

Singer, Robert H. .

NATURE STRUCTURAL & MOLECULAR BIOLOGY, 2007, 14 (09) :796-806

[5] Functional coupling of RNAP II transcription to spliceosome assembly [J].

Das, R ;

Dufu, K ;

Romney, B ;

Feldt, M ;

Elenko, M ;

Reed, R .

GENES & DEVELOPMENT, 2006, 20 (09) :1100-1109

[6] Cracking the RNA polymerase IICTD code [J].

Egloff, Sylvain ;

Murphy, Shona .

TRENDS IN GENETICS, 2008, 24 (06) :280-288

[7] Visualization of single RNA transcripts in situ [J].

Femino, A ;

Fay, FS ;

Fogarty, K ;

Singer, RH .

SCIENCE, 1998, 280 (5363) :585-590

[8] Nuclear organization of the genome and the potential for gene regulation [J].

Fraser, Peter ;

Bickmore, Wendy .

NATURE, 2007, 447 (7143) :413-417

[9] The Insulator Binding Protein CTCF Positions 20 Nucleosomes around Its Binding Sites across the Human Genome [J].

Fu, Yutao ;

Sinha, Manisha ;

Peterson, Craig L. ;

Weng, Zhiping .

PLOS GENETICS, 2008, 4 (07)

[10] A chromatin landmark and transcription initiation at most promoters in human cells [J].

Guenther, Matthew G. ;

Levine, Stuart S. ;

Boyer, Laurie A. ;

Jaenisch, Rudolf ;

Young, Richard A. .

CELL, 2007, 130 (01) :77-88

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