Literature DB >> 27893319

Insight into the machinery that oils chromatin dynamics.

Roni H G Wright1,2, Narcis Fernandez-Fuentes3, Baldomero Oliva2, Miguel Beato1,2.   

Abstract

The packaging of genetic information in form of chromatin within the nucleus provides cells with the ability to store and protect massive amounts of information within a compact space. Storing information within chromatin allows selective access to specific DNA sequences by regulating the various levels of chromatin structure from nucleosomes, to chromatin fibers, loops and topological associating domains (TADs) using mechanisms that are being progressively unravelled. However, a relatively unexplored aspect is the energetic cost of changing the chromatin configuration to gain access to DNA information. Among the enzymes responsible for regulating chromatin access are the ATP-dependent chromatin remodellers that act on nucleosomes and use the energy of ATP hydrolysis to make chromatin DNA more accessible. It is assumed that the ATP used by these enzymes is provided by the mitochondria or by cytoplasmic glycolysis. We hypothesize that though this may be the case for cells in steady state, when gene expression has to be globally reprogramed in response to externals signals or stress conditions, the cell directs energy production to the cell nucleus, where rapid chromatin reorganization is needed for cell survival. We discovered that in response to hormones a nuclear ATP synthesis mechanism is activated that utilizing ADP-ribose and pyrophosphate as substrates. 1 This extra view aims to put this process within its historical context, to describe the enzymatic steps in detail, to propose a possible structure of the ATP synthesising enzyme, and to shed light on how this may link to other reactions within the cell providing a perspective for future lines of investigation.

Entities:  

Keywords:  ATP; breast cancer; chromatin; chromatin remodelling; gene regulation; steroid hormones

Mesh:

Substances:

Year:  2016        PMID: 27893319      PMCID: PMC5214059          DOI: 10.1080/19491034.2016.1255392

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


  41 in total

1.  THE ROLE OF DEOXYRIBONUCLEIC ACID AND OTHER POLYNUCLEOTIDES IN ATP SYNTHESIS BY ISOLATED CELL NUCLEI.

Authors:  V G Allfrey; A E Mirsky
Journal:  Proc Natl Acad Sci U S A       Date:  1957-07-15       Impact factor: 11.205

2.  ADP-ribose-derived nuclear ATP synthesis by NUDIX5 is required for chromatin remodeling.

Authors:  Roni H G Wright; Antonios Lioutas; Francois Le Dily; Daniel Soronellas; Andy Pohl; Jaume Bonet; A S Nacht; Sara Samino; Jofre Font-Mateu; Guillermo P Vicent; Michael Wierer; Miriam A Trabado; Constanze Schelhorn; Carlo Carolis; Maria J Macias; Oscar Yanes; Baldo Oliva; Miguel Beato
Journal:  Science       Date:  2016-06-03       Impact factor: 47.728

Review 3.  The 3D Genome as Moderator of Chromosomal Communication.

Authors:  Job Dekker; Leonid Mirny
Journal:  Cell       Date:  2016-03-10       Impact factor: 41.582

Review 4.  Links between metabolism and cancer.

Authors:  Chi V Dang
Journal:  Genes Dev       Date:  2012-05-01       Impact factor: 11.361

5.  Nucleosome-driven transcription factor binding and gene regulation.

Authors:  Cecilia Ballaré; Giancarlo Castellano; Laura Gaveglia; Sonja Althammer; Juan González-Vallinas; Eduardo Eyras; Francois Le Dily; Roser Zaurin; Daniel Soronellas; Guillermo P Vicent; Miguel Beato
Journal:  Mol Cell       Date:  2012-11-21       Impact factor: 17.970

6.  Formation of Chromosomal Domains by Loop Extrusion.

Authors:  Geoffrey Fudenberg; Maxim Imakaev; Carolyn Lu; Anton Goloborodko; Nezar Abdennur; Leonid A Mirny
Journal:  Cell Rep       Date:  2016-05-19       Impact factor: 9.423

7.  Hormone induces binding of receptors and transcription factors to a rearranged nucleosome on the MMTV promoter in vivo.

Authors:  M Truss; J Bartsch; A Schelbert; R J Haché; M Beato
Journal:  EMBO J       Date:  1995-04-18       Impact factor: 11.598

Review 8.  Parthanatos, a messenger of death.

Authors:  Karen Kate David; Shaida Ahmad Andrabi; Ted Murray Dawson; Valina Lynn Dawson
Journal:  Front Biosci (Landmark Ed)       Date:  2009-01-01

9.  Liquid demixing of intrinsically disordered proteins is seeded by poly(ADP-ribose).

Authors:  Matthias Altmeyer; Kai J Neelsen; Federico Teloni; Irina Pozdnyakova; Stefania Pellegrino; Merete Grøfte; Maj-Britt Druedahl Rask; Werner Streicher; Stephanie Jungmichel; Michael Lund Nielsen; Jiri Lukas
Journal:  Nat Commun       Date:  2015-08-19       Impact factor: 14.919

10.  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

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  6 in total

Review 1.  Poly(ADP-Ribosylation) in Age-Related Neurological Disease.

Authors:  Leeanne McGurk; Olivia M Rifai; Nancy M Bonini
Journal:  Trends Genet       Date:  2019-06-07       Impact factor: 11.639

Review 2.  Regulation of epigenetic state by non-histone chromatin proteins and transcription factors: Implications in disease.

Authors:  Sweta Sikder; Stephanie Kaypee; Tapas K Kundu
Journal:  J Biosci       Date:  2020       Impact factor: 1.826

3.  Expression of Oncogenic Drivers in 3D Cell Culture Depends on Nuclear ATP Synthesis by NUDT5.

Authors:  Katherine E Pickup; Felicitas Pardow; José Carbonell-Caballero; Antonios Lioutas; José Luis Villanueva-Cañas; Roni H G Wright; Miguel Beato
Journal:  Cancers (Basel)       Date:  2019-09-10       Impact factor: 6.575

Review 4.  Role of the NUDT Enzymes in Breast Cancer.

Authors:  Roni H G Wright; Miguel Beato
Journal:  Int J Mol Sci       Date:  2021-02-25       Impact factor: 5.923

Review 5.  Autism Spectrum Disorder from the Womb to Adulthood: Suggestions for a Paradigm Shift.

Authors:  Cristina Panisi; Franca Rosa Guerini; Provvidenza Maria Abruzzo; Federico Balzola; Pier Mario Biava; Alessandra Bolotta; Marco Brunero; Ernesto Burgio; Alberto Chiara; Mario Clerici; Luigi Croce; Carla Ferreri; Niccolò Giovannini; Alessandro Ghezzo; Enzo Grossi; Roberto Keller; Andrea Manzotti; Marina Marini; Lucia Migliore; Lucio Moderato; Davide Moscone; Michele Mussap; Antonia Parmeggiani; Valentina Pasin; Monica Perotti; Cristina Piras; Marina Saresella; Andrea Stoccoro; Tiziana Toso; Rosa Anna Vacca; David Vagni; Salvatore Vendemmia; Laura Villa; Pierluigi Politi; Vassilios Fanos
Journal:  J Pers Med       Date:  2021-01-25

Review 6.  Dynamic and Systemic Perspective in Autism Spectrum Disorders: A Change of Gaze in Research Opens to A New Landscape of Needs and Solutions.

Authors:  Cristina Panisi; Marina Marini
Journal:  Brain Sci       Date:  2022-02-11
  6 in total

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