scholarly journals Dynamic Self-organization in an Open Reaction Network as a Fundamental Mechanism for the Emergence of Life

Author(s):  
Yoshiharu Mukouyama, ◽  
Kenya Tanaka ◽  
Shuji Nakanishi ◽  
Yoshihiro Nakato

<p>The emergence of life on the earth has attracted intense attention but still remained an unsolved question. A key problem is that it has been left unclear why a living organism can have self-organizing ability leading to highly ordered structures and evolutionary behavior. This work reveals by computer simulation and experiments that a stationary state of an open reaction network, into which some source substances flow at constant rates, really has such self-organizing ability. The point is that reaction and diffusion processes in an open reaction network are irreversible and always forced to approach equilibrium. Therefore, they necessarily reach a stationary state in which they approach equilibrium to the largest extent as a whole and attain a full balance. This means that a stationary state of an open reaction network is firmly stabilized by irreversible reaction and diffusion processes and kept stable against fluctuation, namely it has ability to organize itself. A stationary state of an open reaction network is also flexible in structure and can evolve based on its own self-organizing ability through interaction with the environment. Thus, this work provides a new general mechanism of self-organization and evolution in a prebiotic chemical system, which is expected to have acted as a fundamental principle for the emergence of life on the earth. It is interesting to note that a network of reversible processes in a machine has no self-organizing ability because a reversible process has no property of spontaneously and irreversibly happening in a particular direction. </p>

2020 ◽  
Author(s):  
Yoshiharu Mukouyama, ◽  
Yoshihiro Nakato

The emergence of life on the earth has attracted intense attention but the mechanism of it still remains an unsolved question. A key problem is that it has been left unclear why a living organism, which is regarded as an open reaction system, can demonstrate dynamic self-organization leading to highly-ordered structures and adaptive and evolutionary behavior. This paper shows by computer simulation that (1) an open reaction network is a network of irreversible processes and for this reason spontaneously reaches a stationary state and (2) a stationary state thus formed is stable against a fluctuation, namely it has self-organizing ability. Strikingly, self-organizing ability can emerge in a prebiotic chemical system with no special mechanism for overcoming disturbances by the second law of thermodynamics. The above self-organizing ability leads to adaptive and evolutionary behavior and has large potential for producing highly organized chemical structures, and is expected to have played a fundamental role in the emergence of life on the primitive earth.


2020 ◽  
Author(s):  
Yoshiharu Mukouyama, ◽  
Yoshihiro Nakato

The emergence of life on the earth has attracted intense attention but the mechanism of it still remains an unsolved question. A key problem is that it has been left unclear why a living organism, which is regarded as an open reaction system, can demonstrate dynamic self-organization leading to highly-ordered structures and adaptive and evolutionary behavior. This paper shows by computer simulation that (1) an open reaction network is a network of irreversible processes and for this reason spontaneously reaches a stationary state and (2) a stationary state thus formed is stable against a fluctuation, namely it has self-organizing ability. Strikingly, self-organizing ability can emerge in a prebiotic chemical system with no special mechanism for overcoming disturbances by the second law of thermodynamics. The above self-organizing ability leads to adaptive and evolutionary behavior and has large potential for producing highly organized chemical structures, and is expected to have played a fundamental role in the emergence of life on the primitive earth.


ACS Nano ◽  
2010 ◽  
Vol 4 (12) ◽  
pp. 7349-7357 ◽  
Author(s):  
Nina Balke ◽  
Stephen Jesse ◽  
Yoongu Kim ◽  
Leslie Adamczyk ◽  
Ilia N. Ivanov ◽  
...  

2021 ◽  
Vol ahead-of-print (ahead-of-print) ◽  
Author(s):  
Bao Qin ◽  
Yexin Zhou ◽  
Zheng Zhong

PurposeA diffusion-reaction-deformation coupled model is employed and implemented as a user-defined element (UEL) subroutine in the commercial finite element software package ABAQUS.Design/methodology/approachChemical reaction and diffusion are treated as two distinct processes by introducing the extent of reaction and the diffusion concentration as two kinds of independent variables, for which the independent governing equations for chemical reaction and diffusion processes are obtained. Furthermore, an exponential form of chemical kinetics, instead of the linearly phenomenological relation, between the reaction rate and the chemical affinity is used to describe reaction process. As a result, complex chemical reaction can be simulated, no matter it is around or away from equilibrium.FindingsTwo numerical examples are presented, one for validation of the model and another for the modeling of the deflection of a plane caused by a chemical reaction.Originality/value1. Independent governing equations for diffusion and reaction processes are given. 2. An exponential relation between the reaction rate and its driving force is employed. 3. The UEL subroutine is used to implement the finite element procedure.


1999 ◽  
Vol 02 (03) ◽  
pp. 221-276 ◽  
Author(s):  
James Tabony ◽  
Laurent Vuillard ◽  
Cyril Papaseit

Chemically dissipative or Turing processes, have been predicted by theoreticians as a way by which an initially homogenous solution of chemicals or biochemicals can spontaneously self-organise and give rise to a macroscopic pattern by way of a combination of reaction and diffusion. They have been advanced as a possible underlying process for biological self-organisation and pattern formation. Until now, there have been no examples of in vitro biological substances showing this type of behaviour. Evidence is presented that microtubule solutions in vitro self-organise in this manner and that similar processes may occur in vivo during embryogenesis.


2021 ◽  
Author(s):  
Yoshiharu Mukouyama, ◽  
Yoshihiro Nakato

<p>The emergence of life on the earth has attracted intense attention but the mechanism of it still remains an unsolved question. A key problem is that it has been left unclear why a living organism, which is regarded as an open reaction system, can demonstrate dynamic self-organization leading to highly-ordered structures and adaptive and evolutionary behavior. This paper shows by computer simulation that an open reaction network, which is characterized as a network of flexible constituent elements and irreversible processes, is converted to a self-organized system with adaptive and evolutionary ability when it has reached a fully-balanced stationary state. Strikingly, this result indicates that dynamic self-organization spontaneously emerges in a prebiotic chemical system placed under constant thermodynamic forces according to the second law of thermodynamics, not against it. The dynamic self-organization has potential for producing highly ordered chemical structures through evolution and is expected to have played a fundamental role in the emergence of life on the primitive earth.</p>


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