Literature DB >> 33582138

Phase separation of DNA: From past to present.

John T King1, Anisha Shakya2.   

Abstract

Phase separation of biological molecules, such as nucleic acids and proteins, has garnered widespread attention across many fields in recent years. For instance, liquid-liquid phase separation has been implicated not only in membraneless intracellular organization but also in many biochemical processes, including transcription, translation, and cellular signaling. Here, we present a historical background of biological phase separation and survey current work on nuclear organization and its connection to DNA phase separation from the perspective of DNA sequence, structure, and genomic context.
Copyright © 2021 Biophysical Society. Published by Elsevier Inc. All rights reserved.

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Year:  2021        PMID: 33582138      PMCID: PMC8059212          DOI: 10.1016/j.bpj.2021.01.033

Source DB:  PubMed          Journal:  Biophys J        ISSN: 0006-3495            Impact factor:   4.033


  159 in total

Review 1.  Higher-order structures of chromatin: the elusive 30 nm fiber.

Authors:  David J Tremethick
Journal:  Cell       Date:  2007-02-23       Impact factor: 41.582

2.  Germline P granules are liquid droplets that localize by controlled dissolution/condensation.

Authors:  Clifford P Brangwynne; Christian R Eckmann; David S Courson; Agata Rybarska; Carsten Hoege; Jöbin Gharakhani; Frank Jülicher; Anthony A Hyman
Journal:  Science       Date:  2009-05-21       Impact factor: 47.728

Review 3.  Liquid-liquid phase separation in cellular signaling systems.

Authors:  P Andrew Chong; Julie D Forman-Kay
Journal:  Curr Opin Struct Biol       Date:  2016-08-20       Impact factor: 6.809

4.  Comprehensive mapping of long-range interactions reveals folding principles of the human genome.

Authors:  Erez Lieberman-Aiden; Nynke L van Berkum; Louise Williams; Maxim Imakaev; Tobias Ragoczy; Agnes Telling; Ido Amit; Bryan R Lajoie; Peter J Sabo; Michael O Dorschner; Richard Sandstrom; Bradley Bernstein; M A Bender; Mark Groudine; Andreas Gnirke; John Stamatoyannopoulos; Leonid A Mirny; Eric S Lander; Job Dekker
Journal:  Science       Date:  2009-10-09       Impact factor: 47.728

5.  Phase transitions in the assembly of multivalent signalling proteins.

Authors:  Pilong Li; Sudeep Banjade; Hui-Chun Cheng; Soyeon Kim; Baoyu Chen; Liang Guo; Marc Llaguno; Javoris V Hollingsworth; David S King; Salman F Banani; Paul S Russo; Qiu-Xing Jiang; B Tracy Nixon; Michael K Rosen
Journal:  Nature       Date:  2012-03-07       Impact factor: 49.962

6.  Phase separation of 53BP1 determines liquid-like behavior of DNA repair compartments.

Authors:  Sinan Kilic; Aleksandra Lezaja; Marco Gatti; Eliana Bianco; Jone Michelena; Ralph Imhof; Matthias Altmeyer
Journal:  EMBO J       Date:  2019-07-01       Impact factor: 11.598

Review 7.  Evidence for and against Liquid-Liquid Phase Separation in the Nucleus.

Authors:  Peng A; Stephanie C Weber
Journal:  Noncoding RNA       Date:  2019-11-01

Review 8.  Conversion of DNA Sequences: From a Transposable Element to a Tandem Repeat or to a Gene.

Authors:  Ana Paço; Renata Freitas; Ana Vieira-da-Silva
Journal:  Genes (Basel)       Date:  2019-12-05       Impact factor: 4.096

9.  RNA phase transitions in repeat expansion disorders.

Authors:  Ankur Jain; Ronald D Vale
Journal:  Nature       Date:  2017-05-31       Impact factor: 49.962

Review 10.  Exploring Mammalian Genome within Phase-Separated Nuclear Bodies: Experimental Methods and Implications for Gene Expression.

Authors:  Annick Lesne; Marie-Odile Baudement; Cosette Rebouissou; Thierry Forné
Journal:  Genes (Basel)       Date:  2019-12-17       Impact factor: 4.096

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  5 in total

1.  Histone H3 and H4 tails play an important role in nucleosome phase separation.

Authors:  Erin F Hammonds; Megan Cleland Harwig; Emeleeta A Paintsil; Emma A Tillison; R Blake Hill; Emma A Morrison
Journal:  Biophys Chem       Date:  2022-02-02       Impact factor: 2.352

Review 2.  Telomere Length Regulation.

Authors:  Peter Lansdorp
Journal:  Front Oncol       Date:  2022-07-04       Impact factor: 5.738

Review 3.  Phase Separation in the Nucleus and at the Nuclear Periphery during Post-Mitotic Nuclear Envelope Reformation.

Authors:  Klizia Maccaroni; Mattia La Torre; Romina Burla; Isabella Saggio
Journal:  Cells       Date:  2022-05-25       Impact factor: 7.666

4.  Faces, facets, and functions of biomolecular condensates driven by multivalent proteins and nucleic acids.

Authors:  Jason D Kahn; Edward A Lemke; Rohit V Pappu
Journal:  Biophys J       Date:  2021-03-16       Impact factor: 4.033

Review 5.  Phase Separation-Mediated Chromatin Organization and Dynamics: From Imaging-Based Quantitative Characterizations to Functional Implications.

Authors:  Woei Shyuan Ng; Hendrik Sielaff; Ziqing Winston Zhao
Journal:  Int J Mol Sci       Date:  2022-07-21       Impact factor: 6.208

  5 in total

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