Literature DB >> 34717733

The solid and liquid states of chromatin.

Jeffrey C Hansen1, Kazuhiro Maeshima2, Michael J Hendzel3,4.   

Abstract

The review begins with a concise description of the principles of phase separation. This is followed by a comprehensive section on phase separation of chromatin, in which we recount the 60 years history of chromatin aggregation studies, discuss the evidence that chromatin aggregation intrinsically is a physiologically relevant liquid-solid phase separation (LSPS) process driven by chromatin self-interaction, and highlight the recent findings that under specific solution conditions chromatin can undergo liquid-liquid phase separation (LLPS) rather than LSPS. In the next section of the review, we discuss how certain chromatin-associated proteins undergo LLPS in vitro and in vivo. Some chromatin-binding proteins undergo LLPS in purified form in near-physiological ionic strength buffers while others will do so only in the presence of DNA, nucleosomes, or chromatin. The final section of the review evaluates the solid and liquid states of chromatin in the nucleus. While chromatin behaves as an immobile solid on the mesoscale, nucleosomes are mobile on the nanoscale. We discuss how this dual nature of chromatin, which fits well the concept of viscoelasticity, contributes to genome structure, emphasizing the dominant role of chromatin self-interaction.
© 2021. The Author(s).

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Year:  2021        PMID: 34717733      PMCID: PMC8557566          DOI: 10.1186/s13072-021-00424-5

Source DB:  PubMed          Journal:  Epigenetics Chromatin        ISSN: 1756-8935            Impact factor:   4.954


  212 in total

Review 1.  Conformational dynamics of the chromatin fiber in solution: determinants, mechanisms, and functions.

Authors:  Jeffrey C Hansen
Journal:  Annu Rev Biophys Biomol Struct       Date:  2001-10-25

2.  Chromatin motion is constrained by association with nuclear compartments in human cells.

Authors:  Jonathan R Chubb; Shelagh Boyle; Paul Perry; Wendy A Bickmore
Journal:  Curr Biol       Date:  2002-03-19       Impact factor: 10.834

3.  Pericentric chromatin is an elastic component of the mitotic spindle.

Authors:  David C Bouck; Kerry Bloom
Journal:  Curr Biol       Date:  2007-04-05       Impact factor: 10.834

4.  Dynamic Organization of Chromatin Domains Revealed by Super-Resolution Live-Cell Imaging.

Authors:  Tadasu Nozaki; Ryosuke Imai; Mai Tanbo; Ryosuke Nagashima; Sachiko Tamura; Tomomi Tani; Yasumasa Joti; Masaru Tomita; Kayo Hibino; Masato T Kanemaki; Kerstin S Wendt; Yasushi Okada; Takeharu Nagai; Kazuhiro Maeshima
Journal:  Mol Cell       Date:  2017-07-14       Impact factor: 17.970

5.  Open and closed domains in the mouse genome are configured as 10-nm chromatin fibres.

Authors:  Eden Fussner; Mike Strauss; Ugljesa Djuric; Ren Li; Kashif Ahmed; Michael Hart; James Ellis; David P Bazett-Jones
Journal:  EMBO Rep       Date:  2012-11-06       Impact factor: 8.807

Review 6.  The role of the nucleosome acidic patch in modulating higher order chromatin structure.

Authors:  Anna A Kalashnikova; Mary E Porter-Goff; Uma M Muthurajan; Karolin Luger; Jeffrey C Hansen
Journal:  J R Soc Interface       Date:  2013-02-27       Impact factor: 4.118

Review 7.  Liquid-like chromatin in the cell: What can we learn from imaging and computational modeling?

Authors:  Yuji Itoh; Esmae J Woods; Katsuhiko Minami; Kazuhiro Maeshima; Rosana Collepardo-Guevara
Journal:  Curr Opin Struct Biol       Date:  2021-07-22       Impact factor: 6.809

8.  Chromatin domains and the interchromatin compartment form structurally defined and functionally interacting nuclear networks.

Authors:  Heiner Albiez; Marion Cremer; Cinzia Tiberi; Lorella Vecchio; Lothar Schermelleh; Sandra Dittrich; Katrin Küpper; Boris Joffe; Tobias Thormeyer; Johann von Hase; Siwei Yang; Karl Rohr; Heinrich Leonhardt; Irina Solovei; Christoph Cremer; Stanislav Fakan; Thomas Cremer
Journal:  Chromosome Res       Date:  2006-11-22       Impact factor: 4.620

Review 9.  Evolving SAXS versatility: solution X-ray scattering for macromolecular architecture, functional landscapes, and integrative structural biology.

Authors:  Chris A Brosey; John A Tainer
Journal:  Curr Opin Struct Biol       Date:  2019-06-13       Impact factor: 6.809

10.  MeCP2 links heterochromatin condensates and neurodevelopmental disease.

Authors:  Charles H Li; Eliot L Coffey; Alessandra Dall'Agnese; Nancy M Hannett; Xin Tang; Jonathan E Henninger; Jesse M Platt; Ozgur Oksuz; Alicia V Zamudio; Lena K Afeyan; Jurian Schuijers; X Shawn Liu; Styliani Markoulaki; Tenzin Lungjangwa; Gary LeRoy; Devon S Svoboda; Emile Wogram; Tong Ihn Lee; Rudolf Jaenisch; Richard A Young
Journal:  Nature       Date:  2020-07-22       Impact factor: 69.504

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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

2.  Production of nascent ribosome precursors within the nucleolar microenvironment of Saccharomyces cerevisiae.

Authors:  Samantha Lin; Suchita Rajan; Sofia Lemberg; Mark Altawil; Katherine Anderson; Ruth Bryant; Sebastian Cappeta; Brandon Chin; Isabella Hamdan; Annelise Hamer; Rachel Hyzny; Andrew Karp; Daniel Lee; Alexandria Lim; Medha Nayak; Vishnu Palaniappan; Soomin Park; Sarika Satishkumar; Anika Seth; Uva Sri Dasari; Emili Toppari; Ayush Vyas; Julianne Walker; Evan Weston; Atif Zafar; Cecelia Zielke; Ganapati H Mahabeleshwar; Alan M Tartakoff
Journal:  Genetics       Date:  2022-07-04       Impact factor: 4.402

Review 3.  Mechanics and functional consequences of nuclear deformations.

Authors:  Yohalie Kalukula; Andrew D Stephens; Jan Lammerding; Sylvain Gabriele
Journal:  Nat Rev Mol Cell Biol       Date:  2022-05-05       Impact factor: 113.915

4.  Mechanisms governing the accessibility of DNA damage proteins to constitutive heterochromatin.

Authors:  Anastasia Roemer; Lanah Mohammed; Hilmar Strickfaden; D Alan Underhill; Michael J Hendzel
Journal:  Front Genet       Date:  2022-08-26       Impact factor: 4.772

5.  Chromatin Liquid-Liquid Phase Separation (LLPS) Is Regulated by Ionic Conditions and Fiber Length.

Authors:  Qinming Chen; Lei Zhao; Aghil Soman; Anastasia Yu Arkhipova; Jindi Li; Hao Li; Yinglu Chen; Xiangyan Shi; Lars Nordenskiöld
Journal:  Cells       Date:  2022-10-06       Impact factor: 7.666

  5 in total

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