Literature DB >> 27259199

Chromatin Scanning by Dynamic Binding of Pioneer Factors.

Kenneth S Zaret1, Jonathan Lerner2, Makiko Iwafuchi-Doi2.   

Abstract

Pioneer factors such as FoxA target nucleosomal DNA and initiate cooperative interactions at silent genes during development, cellular reprogramming, and steroid hormone induction. Biophysical studies previously showed that the nuclear mobility of FoxA1 is slower than for many other transcription factors, whereas a new single molecule study (Swinstead et al., 2016, Cell) shows comparable chromatin residence times for FoxA1 and steroid receptors. Despite that steroid receptors engage nucleosome-remodeling complexes, the vast majority of co-bound sites with FoxA are dependent upon FoxA, not vice versa. Taken together, the distinguishing feature of pioneer factors remains nucleosomal access rather than an exceptional residence time in chromatin.
Copyright © 2016 Elsevier Inc. All rights reserved.

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Year:  2016        PMID: 27259199      PMCID: PMC4893772          DOI: 10.1016/j.molcel.2016.05.024

Source DB:  PubMed          Journal:  Mol Cell        ISSN: 1097-2765            Impact factor:   17.970


  31 in total

1.  From the Cover: Location analysis of estrogen receptor alpha target promoters reveals that FOXA1 defines a domain of the estrogen response.

Authors:  Josée Laganière; Geneviève Deblois; Céline Lefebvre; Alain R Bataille; François Robert; Vincent Giguère
Journal:  Proc Natl Acad Sci U S A       Date:  2005-08-08       Impact factor: 11.205

2.  Steroid Receptors Reprogram FoxA1 Occupancy through Dynamic Chromatin Transitions.

Authors:  Erin E Swinstead; Tina B Miranda; Ville Paakinaho; Songjoon Baek; Ido Goldstein; Mary Hawkins; Tatiana S Karpova; David Ball; Davide Mazza; Luke D Lavis; Jonathan B Grimm; Tatsuya Morisaki; Lars Grøntved; Diego M Presman; Gordon L Hager
Journal:  Cell       Date:  2016-04-07       Impact factor: 41.582

3.  TNFα signaling exposes latent estrogen receptor binding sites to alter the breast cancer cell transcriptome.

Authors:  Hector L Franco; Anusha Nagari; W Lee Kraus
Journal:  Mol Cell       Date:  2015-03-05       Impact factor: 17.970

4.  Facilitators and impediments of the pluripotency reprogramming factors' initial engagement with the genome.

Authors:  Abdenour Soufi; Greg Donahue; Kenneth S Zaret
Journal:  Cell       Date:  2012-11-15       Impact factor: 41.582

Review 5.  Dynamic regulation of transcriptional states by chromatin and transcription factors.

Authors:  Ty C Voss; Gordon L Hager
Journal:  Nat Rev Genet       Date:  2013-12-17       Impact factor: 53.242

6.  The BAF complex interacts with Pax6 in adult neural progenitors to establish a neurogenic cross-regulatory transcriptional network.

Authors:  Jovica Ninkovic; Andrea Steiner-Mezzadri; Melanie Jawerka; Umut Akinci; Giacomo Masserdotti; Stefania Petricca; Judith Fischer; Alexander von Holst; Johanes Beckers; Chichung D Lie; David Petrik; Erik Miller; Jiong Tang; Jiang Wu; Veronique Lefebvre; Jeroen Demmers; Amelia Eisch; Daniel Metzger; Gerald Crabtree; Martin Irmler; Raymond Poot; Magdalena Götz
Journal:  Cell Stem Cell       Date:  2013-08-08       Impact factor: 24.633

Review 7.  Pioneer factors in hormone-dependent cancers.

Authors:  Kamila M Jozwik; Jason S Carroll
Journal:  Nat Rev Cancer       Date:  2012-05-04       Impact factor: 60.716

8.  Discovery of directional and nondirectional pioneer transcription factors by modeling DNase profile magnitude and shape.

Authors:  Richard I Sherwood; Tatsunori Hashimoto; Charles W O'Donnell; Sophia Lewis; Amira A Barkal; John Peter van Hoff; Vivek Karun; Tommi Jaakkola; David K Gifford
Journal:  Nat Biotechnol       Date:  2014-01-19       Impact factor: 54.908

9.  GATA transcription factors as potentiators of gut endoderm differentiation.

Authors:  P Bossard; K S Zaret
Journal:  Development       Date:  1998-12       Impact factor: 6.868

10.  Genome-wide nucleosome specificity and function of chromatin remodellers in ES cells.

Authors:  Maud de Dieuleveult; Kuangyu Yen; Isabelle Hmitou; Arnaud Depaux; Fayçal Boussouar; Daria Bou Dargham; Sylvie Jounier; Hélène Humbertclaude; Florence Ribierre; Céline Baulard; Nina P Farrell; Bongsoo Park; Céline Keime; Lucie Carrière; Soizick Berlivet; Marta Gut; Ivo Gut; Michel Werner; Jean-François Deleuze; Robert Olaso; Jean-Christophe Aude; Sophie Chantalat; B Franklin Pugh; Matthieu Gérard
Journal:  Nature       Date:  2016-01-27       Impact factor: 49.962

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  29 in total

1.  Catalytic-Independent Functions of PARP-1 Determine Sox2 Pioneer Activity at Intractable Genomic Loci.

Authors:  Ziying Liu; W Lee Kraus
Journal:  Mol Cell       Date:  2017-02-16       Impact factor: 17.970

Review 2.  Nucleosome structure and dynamics are coming of age.

Authors:  Keda Zhou; Guillaume Gaullier; Karolin Luger
Journal:  Nat Struct Mol Biol       Date:  2018-12-10       Impact factor: 15.369

3.  Meta-analysis of Chromatin Programming by Steroid Receptors.

Authors:  Ville Paakinaho; Erin E Swinstead; Diego M Presman; Lars Grøntved; Gordon L Hager
Journal:  Cell Rep       Date:  2019-09-24       Impact factor: 9.423

Review 4.  Nuclear Receptor Function through Genomics: Lessons from the Glucocorticoid Receptor.

Authors:  Daniel M Cohen; David J Steger
Journal:  Trends Endocrinol Metab       Date:  2017-05-08       Impact factor: 12.015

5.  Negative reciprocity, not ordered assembly, underlies the interaction of Sox2 and Oct4 on DNA.

Authors:  John W Biddle; Maximilian Nguyen; Jeremy Gunawardena
Journal:  Elife       Date:  2019-02-14       Impact factor: 8.140

6.  Enhancer Reprogramming Promotes Pancreatic Cancer Metastasis.

Authors:  Jae-Seok Roe; Chang-Il Hwang; Tim D D Somerville; Joseph P Milazzo; Eun Jung Lee; Brandon Da Silva; Laura Maiorino; Hervé Tiriac; C Megan Young; Koji Miyabayashi; Dea Filippini; Brianna Creighton; Richard A Burkhart; Jonathan M Buscaglia; Edward J Kim; Jean L Grem; Audrey J Lazenby; James A Grunkemeyer; Michael A Hollingsworth; Paul M Grandgenett; Mikala Egeblad; Youngkyu Park; David A Tuveson; Christopher R Vakoc
Journal:  Cell       Date:  2017-07-27       Impact factor: 41.582

7.  Nucleosome allostery in pioneer transcription factor binding.

Authors:  Cheng Tan; Shoji Takada
Journal:  Proc Natl Acad Sci U S A       Date:  2020-08-10       Impact factor: 11.205

Review 8.  Diversity among POU transcription factors in chromatin recognition and cell fate reprogramming.

Authors:  Vikas Malik; Dennis Zimmer; Ralf Jauch
Journal:  Cell Mol Life Sci       Date:  2018-01-15       Impact factor: 9.261

9.  FOXA2 controls the cis-regulatory networks of pancreatic cancer cells in a differentiation grade-specific manner.

Authors:  Marta Milan; Chiara Balestrieri; Gabriele Alfarano; Sara Polletti; Elena Prosperini; Paola Spaggiari; Alessandro Zerbi; Giuseppe R Diaferia; Gioacchino Natoli
Journal:  EMBO J       Date:  2019-09-17       Impact factor: 11.598

10.  SOX9 is dispensable for the initiation of epigenetic remodeling and the activation of marker genes at the onset of chondrogenesis.

Authors:  Chia-Feng Liu; Marco Angelozzi; Abdul Haseeb; Véronique Lefebvre
Journal:  Development       Date:  2018-07-18       Impact factor: 6.868

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