Literature DB >> 19345177

A genome-scale RNAi screen for Oct4 modulators defines a role of the Paf1 complex for embryonic stem cell identity.

Li Ding1, Maciej Paszkowski-Rogacz, Anja Nitzsche, Mikolaj Michal Slabicki, Anne-Kristin Heninger, Ingrid de Vries, Ralf Kittler, Magno Junqueira, Andrej Shevchenko, Herbert Schulz, Norbert Hubner, Michael Xavier Doss, Agapios Sachinidis, Juergen Hescheler, Roberto Iacone, Konstantinos Anastassiadis, A Francis Stewart, M Teresa Pisabarro, Antonio Caldarelli, Ina Poser, Mirko Theis, Frank Buchholz.   

Abstract

Pluripotent embryonic stem cells (ESCs) maintain self-renewal while ensuring a rapid response to differentiation cues. The identification of genes maintaining ESC identity is important to develop these cells for their potential therapeutic use. Here we report a genome-scale RNAi screen for a global survey of genes affecting ESC identity via alteration of Oct4 expression. Factors with the strongest effect on Oct4 expression included components of the Paf1 complex, a protein complex associated with RNA polymerase II. Using a combination of proteomics, expression profiling, and chromatin immunoprecipitation, we demonstrate that the Paf1C binds to promoters of key pluripotency genes, where it is required to maintain a transcriptionally active chromatin structure. The Paf1C is developmentally regulated and blocks ESC differentiation upon overexpression, and the knockdown in ESCs causes expression changes similar to Oct4 or Nanog depletions. We propose that the Paf1C plays an important role in maintaining ESC identity.

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Year:  2009        PMID: 19345177     DOI: 10.1016/j.stem.2009.03.009

Source DB:  PubMed          Journal:  Cell Stem Cell        ISSN: 1875-9777            Impact factor:   24.633


  142 in total

1.  Cdc73 subunit of Paf1 complex contains C-terminal Ras-like domain that promotes association of Paf1 complex with chromatin.

Authors:  Christopher G Amrich; Christopher P Davis; Walter P Rogal; Margaret K Shirra; Annie Heroux; Richard G Gardner; Karen M Arndt; Andrew P VanDemark
Journal:  J Biol Chem       Date:  2012-02-08       Impact factor: 5.157

2.  Cnot1, Cnot2, and Cnot3 maintain mouse and human ESC identity and inhibit extraembryonic differentiation.

Authors:  Xiaofeng Zheng; Raluca Dumitru; Brad L Lackford; Johannes M Freudenberg; Ajeet P Singh; Trevor K Archer; Raja Jothi; Guang Hu
Journal:  Stem Cells       Date:  2012-05       Impact factor: 6.277

3.  Combined RNAi and localization for functionally dissecting long noncoding RNAs.

Authors:  Debojyoti Chakraborty; Dennis Kappei; Mirko Theis; Anja Nitzsche; Li Ding; Maciej Paszkowski-Rogacz; Vineeth Surendranath; Nicolas Berger; Herbert Schulz; Kathrin Saar; Norbert Hubner; Frank Buchholz
Journal:  Nat Methods       Date:  2012-02-12       Impact factor: 28.547

4.  Histone H3R17me2a mark recruits human RNA polymerase-associated factor 1 complex to activate transcription.

Authors:  Jiacai Wu; Wei Xu
Journal:  Proc Natl Acad Sci U S A       Date:  2012-03-26       Impact factor: 11.205

5.  Transcriptional activators enhance polyadenylation of mRNA precursors.

Authors:  Takashi Nagaike; James L Manley
Journal:  RNA Biol       Date:  2011-11-01       Impact factor: 4.652

6.  Oct4GiP reporter assay to study genes that regulate mouse embryonic stem cell maintenance and self-renewal.

Authors:  Xiaofeng Zheng; Guang Hu
Journal:  J Vis Exp       Date:  2012-05-30       Impact factor: 1.355

7.  The RNA polymerase-associated factor 1 complex (Paf1C) directly increases the elongation rate of RNA polymerase I and is required for efficient regulation of rRNA synthesis.

Authors:  Yinfeng Zhang; Archer D Smith; Matthew B Renfrow; David A Schneider
Journal:  J Biol Chem       Date:  2010-03-18       Impact factor: 5.157

Review 8.  PD2/PAF1 at the Crossroads of the Cancer Network.

Authors:  Saswati Karmakar; Parama Dey; Arokia P Vaz; Sukesh R Bhaumik; Moorthy P Ponnusamy; Surinder K Batra
Journal:  Cancer Res       Date:  2018-01-08       Impact factor: 12.701

Review 9.  Toward a complete in silico, multi-layered embryonic stem cell regulatory network.

Authors:  Huilei Xu; Christoph Schaniel; Ihor R Lemischka; Avi Ma'ayan
Journal:  Wiley Interdiscip Rev Syst Biol Med       Date:  2010 Nov-Dec

10.  Master transcription factors and mediator establish super-enhancers at key cell identity genes.

Authors:  Warren A Whyte; David A Orlando; Denes Hnisz; Brian J Abraham; Charles Y Lin; Michael H Kagey; Peter B Rahl; Tong Ihn Lee; Richard A Young
Journal:  Cell       Date:  2013-04-11       Impact factor: 41.582

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