Literature DB >> 26530021

Dissipative adaptation in driven self-assembly.

Jeremy L England1.   

Abstract

In a collection of assembling particles that is allowed to reach thermal equilibrium, the energy of a given microscopic arrangement and the probability of observing the system in that arrangement obey a simple exponential relationship known as the Boltzmann distribution. Once the same thermally fluctuating particles are driven away from equilibrium by forces that do work on the system over time, however, it becomes significantly more challenging to relate the likelihood of a given outcome to familiar thermodynamic quantities. Nonetheless, it has long been appreciated that developing a sound and general understanding of the thermodynamics of such non-equilibrium scenarios could ultimately enable us to control and imitate the marvellous successes that living things achieve in driven self-assembly. Here, I suggest that such a theoretical understanding may at last be emerging, and trace its development from historic first steps to more recent discoveries. Focusing on these newer results, I propose that they imply a general thermodynamic mechanism for self-organization via dissipation of absorbed work that may be applicable in a broad class of driven many-body systems.

Year:  2015        PMID: 26530021     DOI: 10.1038/nnano.2015.250

Source DB:  PubMed          Journal:  Nat Nanotechnol        ISSN: 1748-3387            Impact factor:   39.213


  23 in total

1.  Directed evolution of a genetic circuit.

Authors:  Yohei Yokobayashi; Ron Weiss; Frances H Arnold
Journal:  Proc Natl Acad Sci U S A       Date:  2002-11-25       Impact factor: 11.205

2.  Equilibrium information from nonequilibrium measurements in an experimental test of Jarzynski's equality.

Authors:  Jan Liphardt; Sophie Dumont; Steven B Smith; Ignacio Tinoco; Carlos Bustamante
Journal:  Science       Date:  2002-06-07       Impact factor: 47.728

3.  Three detailed fluctuation theorems.

Authors:  Massimiliano Esposito; Christian Van den Broeck
Journal:  Phys Rev Lett       Date:  2010-03-01       Impact factor: 9.161

4.  Verification of the Crooks fluctuation theorem and recovery of RNA folding free energies.

Authors:  D Collin; F Ritort; C Jarzynski; S B Smith; I Tinoco; C Bustamante
Journal:  Nature       Date:  2005-09-08       Impact factor: 49.962

5.  Formation and structure of ramified charge transportation networks in an electromechanical system.

Authors:  Joseph K Jun; Alfred H Hübler
Journal:  Proc Natl Acad Sci U S A       Date:  2005-01-06       Impact factor: 11.205

6.  Statistical physics of self-replication.

Authors:  Jeremy L England
Journal:  J Chem Phys       Date:  2013-09-28       Impact factor: 3.488

Review 7.  Protein design by directed evolution.

Authors:  Christian Jäckel; Peter Kast; Donald Hilvert
Journal:  Annu Rev Biophys       Date:  2008       Impact factor: 12.981

Review 8.  The ATP synthase--a splendid molecular machine.

Authors:  P D Boyer
Journal:  Annu Rev Biochem       Date:  1997       Impact factor: 23.643

9.  Crystallographic insights into the autocatalytic assembly mechanism of a bacteriophage tail spike.

Authors:  Ye Xiang; Petr G Leiman; Long Li; Shelley Grimes; Dwight L Anderson; Michael G Rossmann
Journal:  Mol Cell       Date:  2009-05-15       Impact factor: 17.970

10.  Selective optical assembly of highly uniform nanoparticles by doughnut-shaped beams.

Authors:  Syoji Ito; Hiroaki Yamauchi; Mamoru Tamura; Shimpei Hidaka; Hironori Hattori; Taichi Hamada; Keisuke Nishida; Shiho Tokonami; Tamitake Itoh; Hiroshi Miyasaka; Takuya Iida
Journal:  Sci Rep       Date:  2013-10-25       Impact factor: 4.379

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  31 in total

1.  Driven by theory.

Authors: 
Journal:  Nat Nanotechnol       Date:  2015-11       Impact factor: 39.213

2.  Emergence of an enslaved phononic bandgap in a non-equilibrium pseudo-crystal.

Authors:  Nicolas Bachelard; Chad Ropp; Marc Dubois; Rongkuo Zhao; Yuan Wang; Xiang Zhang
Journal:  Nat Mater       Date:  2017-06-19       Impact factor: 43.841

3.  Design principles for nonequilibrium self-assembly.

Authors:  Michael Nguyen; Suriyanarayanan Vaikuntanathan
Journal:  Proc Natl Acad Sci U S A       Date:  2016-11-22       Impact factor: 11.205

4.  The origin and early evolution of life in chemical composition space.

Authors:  David A Baum
Journal:  J Theor Biol       Date:  2018-08-12       Impact factor: 2.691

5.  Stochastically pumped adaptation and directional motion of molecular machines.

Authors:  R Dean Astumian
Journal:  Proc Natl Acad Sci U S A       Date:  2018-03-09       Impact factor: 11.205

6.  Elastic Multi-scale Mechanisms: Computation and Biological Evolution.

Authors:  Juan G Diaz Ochoa
Journal:  J Mol Evol       Date:  2017-12-16       Impact factor: 2.395

7.  Spontaneous fine-tuning to environment in many-species chemical reaction networks.

Authors:  Jordan M Horowitz; Jeremy L England
Journal:  Proc Natl Acad Sci U S A       Date:  2017-07-03       Impact factor: 11.205

Review 8.  Models of vestibular semicircular canal afferent neuron firing activity.

Authors:  Michael G Paulin; Larry F Hoffman
Journal:  J Neurophysiol       Date:  2019-11-06       Impact factor: 2.714

Review 9.  Non-equilibrium assembly of microtubules: from molecules to autonomous chemical robots.

Authors:  H Hess; Jennifer L Ross
Journal:  Chem Soc Rev       Date:  2017-09-18       Impact factor: 54.564

10.  Equilibrium and non-equilibrium furanose selection in the ribose isomerisation network.

Authors:  Avinash Vicholous Dass; Thomas Georgelin; Frances Westall; Frédéric Foucher; Paolo De Los Rios; Daniel Maria Busiello; Shiling Liang; Francesco Piazza
Journal:  Nat Commun       Date:  2021-05-12       Impact factor: 14.919

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