Literature DB >> 34373598

A dissipative pathway for the structural evolution of DNA fibres.

Felix J Rizzuto1, Casey M Platnich1, Xin Luo1, Yao Shen2, Michael D Dore1, Christophe Lachance-Brais1, Alba Guarné2, Gonzalo Cosa1, Hanadi F Sleiman3.   

Abstract

Biochemical networks interconnect, grow and evolve to express new properties as different chemical pathways are selected during a continuous cycle of energy consumption and transformation. In contrast, synthetic systems that push away from equilibrium usually return to the same self-assembled state, often generating waste that limits system recyclability and prevents the formation of adaptable networks. Here we show that annealing by slow proton dissipation selects for otherwise inaccessible morphologies of fibres built from DNA and cyanuric acid. Using single-molecule fluorescence microscopy, we observe that proton dissipation influences the growth mechanism of supramolecular polymerization, healing gaps within fibres and converting highly branched, interwoven networks into nanocable superstructures. Just as the growth kinetics of natural fibres determine their structural attributes to modulate function, our system of photoacid-enabled depolymerization and repolymerization selects for healed materials to yield organized, robust fibres. Our method provides a chemical route for error-checking, distinct from thermal annealing, that improves the morphologies and properties of supramolecular materials using out-of-equilibrium systems.
© 2021. The Author(s), under exclusive licence to Springer Nature Limited.

Entities:  

Year:  2021        PMID: 34373598     DOI: 10.1038/s41557-021-00751-w

Source DB:  PubMed          Journal:  Nat Chem        ISSN: 1755-4330            Impact factor:   24.427


  41 in total

Review 1.  Supramolecular systems chemistry.

Authors:  Elio Mattia; Sijbren Otto
Journal:  Nat Nanotechnol       Date:  2015-02       Impact factor: 39.213

Review 2.  Self-assembling outside equilibrium: emergence of structures mediated by dissipation.

Authors:  A Arango-Restrepo; D Barragán; J M Rubi
Journal:  Phys Chem Chem Phys       Date:  2019-08-15       Impact factor: 3.676

3.  A cargo-sorting DNA robot.

Authors:  Anupama J Thubagere; Wei Li; Robert F Johnson; Zibo Chen; Shayan Doroudi; Yae Lim Lee; Gregory Izatt; Sarah Wittman; Niranjan Srinivas; Damien Woods; Erik Winfree; Lulu Qian
Journal:  Science       Date:  2017-09-15       Impact factor: 47.728

4.  Dissipative out-of-equilibrium assembly of man-made supramolecular materials.

Authors:  Susan A P van Rossum; Marta Tena-Solsona; Jan H van Esch; Rienk Eelkema; Job Boekhoven
Journal:  Chem Soc Rev       Date:  2017-09-18       Impact factor: 54.564

5.  Autonomous dynamic control of DNA nanostructure self-assembly.

Authors:  Leopold N Green; Hari K K Subramanian; Vahid Mardanlou; Jongmin Kim; Rizal F Hariadi; Elisa Franco
Journal:  Nat Chem       Date:  2019-04-22       Impact factor: 24.427

6.  A discrete self-assembled metal array in artificial DNA.

Authors:  Kentaro Tanaka; Atsushi Tengeiji; Tatsuhisa Kato; Namiki Toyama; Mitsuhiko Shionoya
Journal:  Science       Date:  2003-02-21       Impact factor: 47.728

7.  Programmable dynamic steady states in ATP-driven nonequilibrium DNA systems.

Authors:  Laura Heinen; Andreas Walther
Journal:  Sci Adv       Date:  2019-07-19       Impact factor: 14.136

8.  Biomimetic temporal self-assembly via fuel-driven controlled supramolecular polymerization.

Authors:  Ananya Mishra; Divya B Korlepara; Mohit Kumar; Ankit Jain; Narendra Jonnalagadda; Karteek K Bejagam; Sundaram Balasubramanian; Subi J George
Journal:  Nat Commun       Date:  2018-03-30       Impact factor: 14.919

9.  ATP-powered molecular recognition to engineer transient multivalency and self-sorting 4D hierarchical systems.

Authors:  Jie Deng; Andreas Walther
Journal:  Nat Commun       Date:  2020-07-21       Impact factor: 14.919

10.  Role of nanoscale antigen organization on B-cell activation probed using DNA origami.

Authors:  Rémi Veneziano; Tyson J Moyer; Matthew B Stone; Eike-Christian Wamhoff; Benjamin J Read; Sayak Mukherjee; Tyson R Shepherd; Jayajit Das; William R Schief; Darrell J Irvine; Mark Bathe
Journal:  Nat Nanotechnol       Date:  2020-06-29       Impact factor: 40.523

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  6 in total

Review 1.  Dissipative DNA nanotechnology.

Authors:  Erica Del Grosso; Elisa Franco; Leonard J Prins; Francesco Ricci
Journal:  Nat Chem       Date:  2022-06-06       Impact factor: 24.274

2.  Spontaneous Reorganization of DNA-Based Polymers in Higher Ordered Structures Fueled by RNA.

Authors:  Serena Gentile; Erica Del Grosso; Passa E Pungchai; Elisa Franco; Leonard J Prins; Francesco Ricci
Journal:  J Am Chem Soc       Date:  2021-11-29       Impact factor: 15.419

3.  Using transient equilibria (TREQ) to measure the thermodynamics of slowly assembling supramolecular systems.

Authors:  Christopher D Hennecker; Christophe Lachance-Brais; Hanadi Sleiman; Anthony Mittermaier
Journal:  Sci Adv       Date:  2022-04-06       Impact factor: 14.136

4.  Dissipative Control over the Toehold-Mediated DNA Strand Displacement Reaction.

Authors:  Erica Del Grosso; Patrick Irmisch; Serena Gentile; Leonard J Prins; Ralf Seidel; Francesco Ricci
Journal:  Angew Chem Int Ed Engl       Date:  2022-04-05       Impact factor: 16.823

5.  Cascaded dissipative DNAzyme-driven layered networks guide transient replication of coded-strands as gene models.

Authors:  Jianbang Wang; Zhenzhen Li; Itamar Willner
Journal:  Nat Commun       Date:  2022-07-29       Impact factor: 17.694

6.  Dissipative Formation of Covalent Basket Cages.

Authors:  Vageesha W Liyana Gunawardana; Tyler J Finnegan; Carson E Ward; Curtis E Moore; Jovica D Badjić
Journal:  Angew Chem Int Ed Engl       Date:  2022-07-11       Impact factor: 16.823

  6 in total

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