Literature DB >> 32144739

Nonspecific characteristics of macromolecules create specific effects in living cells.

Kanta Tsumoto1, Hiroki Sakuta2, Kingo Takiguchi3, Kenichi Yoshikawa2.   

Abstract

Recently, the important role of microphase separation in living cells has been attracting considerable interest in relation to cell organization and function. For example, many studies have focused on liquid-liquid phase separation (LLPS) as a very plausible mechanism for the presence of membraneless organelles. To confirm the role of phase separation in living cells, experimental studies on models and/or reconstructed systems are needed. In this short review, we discuss current paradigms of LLPS and provide some example "review data" to demonstrate particular points relating to the specific localization of biological macromolecules like DNAs and actin proteins with spontaneous domain formation in microdroplets emerging in an aqueous two-phase system (ATPS) (we use polyethylene glycol (PEG)/dextran (DEX)-a binary polymer solution). We also suggest that phase separation and transition may play basic roles in regulation of the biochemical reactivity of individual long genomic DNAs.

Entities:  

Keywords:  Aqueous two-phase system; DNA condensation; Depletion effect; Macromolecular crowding; Microcompartmentalization; Phase transition

Year:  2020        PMID: 32144739      PMCID: PMC7242541          DOI: 10.1007/s12551-020-00673-w

Source DB:  PubMed          Journal:  Biophys Rev        ISSN: 1867-2450


  61 in total

1.  Self-assembled pearling structure of long duplex DNA with histone H1.

Authors:  Y Yoshikawa; Y S Velichko; Y Ichiba; K Yoshikawa
Journal:  Eur J Biochem       Date:  2001-05

2.  Giant DNA molecules exhibit on/off switching of transcriptional activity through conformational transition.

Authors:  Kanta Tsumoto; François Luckel; Kenichi Yoshikawa
Journal:  Biophys Chem       Date:  2003-10-01       Impact factor: 2.352

3.  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 4.  Liposomes and polymersomes: a comparative review towards cell mimicking.

Authors:  Emeline Rideau; Rumiana Dimova; Petra Schwille; Frederik R Wurm; Katharina Landfester
Journal:  Chem Soc Rev       Date:  2018-11-26       Impact factor: 54.564

5.  Membraneless organelles can melt nucleic acid duplexes and act as biomolecular filters.

Authors:  Timothy J Nott; Timothy D Craggs; Andrew J Baldwin
Journal:  Nat Chem       Date:  2016-05-16       Impact factor: 24.427

6.  Physical Principles and Extant Biology Reveal Roles for RNA-Containing Membraneless Compartments in Origins of Life Chemistry.

Authors:  Raghav R Poudyal; Fatma Pir Cakmak; Christine D Keating; Philip C Bevilacqua
Journal:  Biochemistry       Date:  2018-03-21       Impact factor: 3.162

7.  Amino Acid Sequence of Oligopeptide Causes Marked Difference in DNA Compaction and Transcription.

Authors:  Anatoly Zinchenko; Hiroyuki Hiramatsu; Hideaki Yamaguchi; Koji Kubo; Shizuaki Murata; Toshio Kanbe; Norio Hazemoto; Kenichi Yoshikawa; Tatsuo Akitaya
Journal:  Biophys J       Date:  2019-04-19       Impact factor: 4.033

Review 8.  Methods for Physical Characterization of Phase-Separated Bodies and Membrane-less Organelles.

Authors:  Diana M Mitrea; Bappaditya Chandra; Mylene C Ferrolino; Eric B Gibbs; Michele Tolbert; Michael R White; Richard W Kriwacki
Journal:  J Mol Biol       Date:  2018-07-24       Impact factor: 5.469

9.  Coexisting Liquid Phases Underlie Nucleolar Subcompartments.

Authors:  Marina Feric; Nilesh Vaidya; Tyler S Harmon; Diana M Mitrea; Lian Zhu; Tiffany M Richardson; Richard W Kriwacki; Rohit V Pappu; Clifford P Brangwynne
Journal:  Cell       Date:  2016-05-19       Impact factor: 41.582

10.  Formation and manipulation of cell spheroids using a density adjusted PEG/DEX aqueous two phase system.

Authors:  Chungmin Han; Shuichi Takayama; Jaesung Park
Journal:  Sci Rep       Date:  2015-07-06       Impact factor: 4.379

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  2 in total

1.  Biophysical Reviews' national biophysical society partnership program.

Authors:  Damien Hall
Journal:  Biophys Rev       Date:  2020-04-29

2.  Emergence of uniform linearly-arranged micro-droplets entrapping DNA and living cells through water/water phase-separation.

Authors:  Mayu Shono; Ritsuki Ito; Fumika Fujita; Hiroki Sakuta; Kenichi Yoshikawa
Journal:  Sci Rep       Date:  2021-12-07       Impact factor: 4.379

  2 in total

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