Literature DB >> 25565413

The ubiquitous transcription factor CTCF promotes lineage-specific epigenomic remodeling and establishment of transcriptional networks driving cell differentiation.

Julie Dubois-Chevalier1, Bart Staels, Philippe Lefebvre, Jérôme Eeckhoute.   

Abstract

Cell differentiation relies on tissue-specific transcription factors (TFs) that cooperate to establish unique transcriptomes and phenotypes. However, the role of ubiquitous TFs in these processes remains poorly defined. Recently, we have shown that the CCCTC-binding factor (CTCF) is required for adipocyte differentiation through epigenomic remodelling of adipose tissue-specific enhancers and transcriptional activation of Peroxisome proliferator-activated receptor gamma (PPARG), the main driver of the adipogenic program (PPARG), and its target genes. Here, we discuss how these findings, together with the recent literature, illuminate a functional role for ubiquitous TFs in lineage-determining transcriptional networks.

Entities:  

Keywords:  5hmC, 5-hydroxymethylcytosine; 5mC, 5-methylcytosine; CCCTC-binding factor (CTCF); CEBP, CCAAT/enhancer binding protein; CTCF, CCCTC-binding factor; DNA hydroxymethylation; H3K27ac, acetylation of histone H3 lysine 27; H3K4me1, monomethylation of histone H3 lysine 4; KLF, Krüppel-like factors; PPARG, Peroxisome proliferator-activated receptor gamma; TET methylcytosine dioxygenase; TET, Ten-eleven translocation methylcytosine dioxygenase; TF, Transcription factor; cell differentiation; cistrome; enhancer; epigenome; transcriptome; ubiquitous transcription factor

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Year:  2015        PMID: 25565413      PMCID: PMC4615151          DOI: 10.1080/19491034.2015.1004258

Source DB:  PubMed          Journal:  Nucleus        ISSN: 1949-1034            Impact factor:   4.197


  48 in total

1.  CTCF promotes muscle differentiation by modulating the activity of myogenic regulatory factors.

Authors:  Paul Delgado-Olguín; Koroboshka Brand-Arzamendi; Ian C Scott; Benno Jungblut; Didier Y Stainier; Benoit G Bruneau; Félix Recillas-Targa
Journal:  J Biol Chem       Date:  2011-02-02       Impact factor: 5.157

2.  CTCF and its protein partners: divide and rule?

Authors:  Jordanka Zlatanova; Paola Caiafa
Journal:  J Cell Sci       Date:  2009-05-01       Impact factor: 5.285

3.  Propagation of adipogenic signals through an epigenomic transition state.

Authors:  David J Steger; Gregory R Grant; Michael Schupp; Takuya Tomaru; Martina I Lefterova; Jonathan Schug; Elisabetta Manduchi; Christian J Stoeckert; Mitchell A Lazar
Journal:  Genes Dev       Date:  2010-05-15       Impact factor: 11.361

4.  Transcription factor cooperativity in early adipogenic hotspots and super-enhancers.

Authors:  Rasmus Siersbæk; Atefeh Rabiee; Ronni Nielsen; Simone Sidoli; Sofie Traynor; Anne Loft; Lars La Cour Poulsen; Adelina Rogowska-Wrzesinska; Ole N Jensen; Susanne Mandrup
Journal:  Cell Rep       Date:  2014-05-22       Impact factor: 9.423

5.  5mC oxidation by Tet2 modulates enhancer activity and timing of transcriptome reprogramming during differentiation.

Authors:  Gary C Hon; Chun-Xiao Song; Tingting Du; Fulai Jin; Siddarth Selvaraj; Ah Young Lee; Chia-An Yen; Zhen Ye; Shi-Qing Mao; Bang-An Wang; Samantha Kuan; Lee E Edsall; Boxuan Simen Zhao; Guo-Liang Xu; Chuan He; Bing Ren
Journal:  Mol Cell       Date:  2014-09-25       Impact factor: 17.970

6.  A map of the cis-regulatory sequences in the mouse genome.

Authors:  Yin Shen; Feng Yue; David F McCleary; Zhen Ye; Lee Edsall; Samantha Kuan; Ulrich Wagner; Jesse Dixon; Leonard Lee; Victor V Lobanenkov; Bing Ren
Journal:  Nature       Date:  2012-08-02       Impact factor: 49.962

7.  Dynamic hydroxymethylation of deoxyribonucleic acid marks differentiation-associated enhancers.

Authors:  Aurélien A Sérandour; Stéphane Avner; Frédérik Oger; Maud Bizot; Frédéric Percevault; Céline Lucchetti-Miganeh; Gaëlle Palierne; Céline Gheeraert; Frédérique Barloy-Hubler; Christine Le Péron; Thierry Madigou; Emmanuelle Durand; Philippe Froguel; Bart Staels; Philippe Lefebvre; Raphaël Métivier; Jérôme Eeckhoute; Gilles Salbert
Journal:  Nucleic Acids Res       Date:  2012-06-22       Impact factor: 16.971

8.  Patterns of regulatory activity across diverse human cell types predict tissue identity, transcription factor binding, and long-range interactions.

Authors:  Nathan C Sheffield; Robert E Thurman; Lingyun Song; Alexias Safi; John A Stamatoyannopoulos; Boris Lenhard; Gregory E Crawford; Terrence S Furey
Journal:  Genome Res       Date:  2013-03-12       Impact factor: 9.043

9.  A high-resolution map of the three-dimensional chromatin interactome in human cells.

Authors:  Fulai Jin; Yan Li; Jesse R Dixon; Siddarth Selvaraj; Zhen Ye; Ah Young Lee; Chia-An Yen; Anthony D Schmitt; Celso A Espinoza; Bing Ren
Journal:  Nature       Date:  2013-10-20       Impact factor: 49.962

10.  Role of Tet proteins in enhancer activity and telomere elongation.

Authors:  Falong Lu; Yuting Liu; Lan Jiang; Shinpei Yamaguchi; Yi Zhang
Journal:  Genes Dev       Date:  2014-09-15       Impact factor: 11.361

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  3 in total

1.  CORR® ORS Richard A. Brand Award: Disruption in Peroxisome Proliferator-Activated Receptor-γ (PPARG) Increases Osteonecrosis Risk Through Genetic Variance and Pharmacologic Modulation.

Authors:  Cody C Wyles; Christopher R Paradise; Matthew T Houdek; Susan L Slager; Andre Terzic; Atta Behfar; Andre J van Wijnen; Rafael J Sierra
Journal:  Clin Orthop Relat Res       Date:  2019-08       Impact factor: 4.176

2.  Subsets of Visceral Adipose Tissue Nuclei with Distinct Levels of 5-Hydroxymethylcytosine.

Authors:  Ping Yu; Lexiang Ji; Kevin J Lee; Miao Yu; Chuan He; Suresh Ambati; Elizabeth C McKinney; Crystal Jackson; Clifton A Baile; Robert J Schmitz; Richard B Meagher
Journal:  PLoS One       Date:  2016-05-12       Impact factor: 3.240

3.  Computational identification of tissue-specific transcription factor cooperation in ten cattle tissues.

Authors:  Lukas Steuernagel; Cornelia Meckbach; Felix Heinrich; Sebastian Zeidler; Armin O Schmitt; Mehmet Gültas
Journal:  PLoS One       Date:  2019-05-16       Impact factor: 3.240

  3 in total

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