Literature DB >> 30109341

Salt-dependent properties of a coacervate-like, self-assembled DNA liquid.

Byoung-Jin Jeon1, Dan T Nguyen, Gabrielle R Abraham, Nathaniel Conrad, Deborah K Fygenson, Omar A Saleh.   

Abstract

Liquid-liquid phase separation of a polymer-rich phase from a polymer-dilute solution, known generally as coacervation, has been observed in a variety of biomolecular systems. Understanding of this process, and the properties of the resulting liquid, has been hampered in typical systems by the complexity of the components and of the intermolecular interactions. Here, we examine a single-component system comprised entirely of DNA, in which tetravalent DNA nanostar particles condense into liquids through attractive bonds formed from basepairing interactions. We measure the density, viscosity, particle self-diffusion, and surface tension of NS-liquid droplets. The sequence- and salt-dependent thermodynamics of basepairing accounts for most properties, particularly indicating that particle transport is an activated process whose barrier is the breaking of a single bond, and that very few bonds are broken at the surface. However, more complex effects are also seen. The relation of density to salt shows that electrostatic screening compacts the NS particles. Further, the interrelation of the transport properties indicates a breakdown of the Stokes-Einstein relation. This observation, in concert with the low surface tension and single-bond transport barrier, suggests this DNA liquid has a heterogeneous, clustered structure that is likely enabled by internal NS particle flexibility. We discuss these results in comparison to other coacervate systems.

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Year:  2018        PMID: 30109341     DOI: 10.1039/c8sm01085d

Source DB:  PubMed          Journal:  Soft Matter        ISSN: 1744-683X            Impact factor:   3.679


  10 in total

1.  Increasing valence pushes DNA nanostar networks to the isostatic point.

Authors:  Nathaniel Conrad; Tynan Kennedy; Deborah K Fygenson; Omar A Saleh
Journal:  Proc Natl Acad Sci U S A       Date:  2019-03-26       Impact factor: 11.205

2.  Enzymatic degradation of liquid droplets of DNA is modulated near the phase boundary.

Authors:  Omar A Saleh; Byoung-Jin Jeon; Tim Liedl
Journal:  Proc Natl Acad Sci U S A       Date:  2020-06-29       Impact factor: 11.205

3.  Programmable and Chemically Fueled DNA Coacervates by Transient Liquid-Liquid Phase Separation.

Authors:  Jie Deng; Andreas Walther
Journal:  Chem       Date:  2020-10-21       Impact factor: 22.804

4.  Formation of non-base-pairing DNA microgels using directed phase transition of amphiphilic monomers.

Authors:  Chanseok Lee; Sungho Do; Jae Young Lee; Minju Kim; Sang Moon Kim; Yongdae Shin; Do-Nyun Kim
Journal:  Nucleic Acids Res       Date:  2022-04-22       Impact factor: 19.160

5.  Quantifying viscosity and surface tension of multicomponent protein-nucleic acid condensates.

Authors:  Ibraheem Alshareedah; George M Thurston; Priya R Banerjee
Journal:  Biophys J       Date:  2021-01-14       Impact factor: 4.033

6.  Methods for characterizing the material properties of biomolecular condensates.

Authors:  Ibraheem Alshareedah; Taranpreet Kaur; Priya R Banerjee
Journal:  Methods Enzymol       Date:  2020-07-22       Impact factor: 1.600

7.  Capsule-like DNA Hydrogels with Patterns Formed by Lateral Phase Separation of DNA Nanostructures.

Authors:  Yusuke Sato; Masahiro Takinoue
Journal:  JACS Au       Date:  2021-11-29

Review 8.  Physics of compartmentalization: How phase separation and signaling shape membrane and organelle identity.

Authors:  Elisa Floris; Andrea Piras; Luca Dall'Asta; Andrea Gamba; Emilio Hirsch; Carlo C Campa
Journal:  Comput Struct Biotechnol J       Date:  2021-05-24       Impact factor: 7.271

9.  Sequence-based engineering of dynamic functions of micrometer-sized DNA droplets.

Authors:  Yusuke Sato; Tetsuro Sakamoto; Masahiro Takinoue
Journal:  Sci Adv       Date:  2020-06-03       Impact factor: 14.136

10.  Optimized cDICE for Efficient Reconstitution of Biological Systems in Giant Unilamellar Vesicles.

Authors:  Lori Van de Cauter; Federico Fanalista; Lennard van Buren; Nicola De Franceschi; Elisa Godino; Sharon Bouw; Christophe Danelon; Cees Dekker; Gijsje H Koenderink; Kristina A Ganzinger
Journal:  ACS Synth Biol       Date:  2021-06-29       Impact factor: 5.110

  10 in total

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