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Semantic closure demonstrated by the evolution of a universal constructor architecture in an artificial chemistry
We present a novel stringmol-based artificial chemistry system modelled on the universal constructor architecture (UCA) first explored by von Neumann. In a UCA, machines interact with an abstract description of themselves to replicate by copying the abstract description and constructing the machines...
Autores principales: | , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
The Royal Society
2017
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5454285/ https://www.ncbi.nlm.nih.gov/pubmed/28515326 http://dx.doi.org/10.1098/rsif.2016.1033 |
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author | Clark, Edward B. Hickinbotham, Simon J. Stepney, Susan |
author_facet | Clark, Edward B. Hickinbotham, Simon J. Stepney, Susan |
author_sort | Clark, Edward B. |
collection | PubMed |
description | We present a novel stringmol-based artificial chemistry system modelled on the universal constructor architecture (UCA) first explored by von Neumann. In a UCA, machines interact with an abstract description of themselves to replicate by copying the abstract description and constructing the machines that the abstract description encodes. DNA-based replication follows this architecture, with DNA being the abstract description, the polymerase being the copier, and the ribosome being the principal machine in expressing what is encoded on the DNA. This architecture is semantically closed as the machine that defines what the abstract description means is itself encoded on that abstract description. We present a series of experiments with the stringmol UCA that show the evolution of the meaning of genomic material, allowing the concept of semantic closure and transitions between semantically closed states to be elucidated in the light of concrete examples. We present results where, for the first time in an in silico system, simultaneous evolution of the genomic material, copier and constructor of a UCA, giving rise to viable offspring. |
format | Online Article Text |
id | pubmed-5454285 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2017 |
publisher | The Royal Society |
record_format | MEDLINE/PubMed |
spelling | pubmed-54542852017-06-05 Semantic closure demonstrated by the evolution of a universal constructor architecture in an artificial chemistry Clark, Edward B. Hickinbotham, Simon J. Stepney, Susan J R Soc Interface Life Sciences–Engineering interface We present a novel stringmol-based artificial chemistry system modelled on the universal constructor architecture (UCA) first explored by von Neumann. In a UCA, machines interact with an abstract description of themselves to replicate by copying the abstract description and constructing the machines that the abstract description encodes. DNA-based replication follows this architecture, with DNA being the abstract description, the polymerase being the copier, and the ribosome being the principal machine in expressing what is encoded on the DNA. This architecture is semantically closed as the machine that defines what the abstract description means is itself encoded on that abstract description. We present a series of experiments with the stringmol UCA that show the evolution of the meaning of genomic material, allowing the concept of semantic closure and transitions between semantically closed states to be elucidated in the light of concrete examples. We present results where, for the first time in an in silico system, simultaneous evolution of the genomic material, copier and constructor of a UCA, giving rise to viable offspring. The Royal Society 2017-05 2017-05-17 /pmc/articles/PMC5454285/ /pubmed/28515326 http://dx.doi.org/10.1098/rsif.2016.1033 Text en © 2017 The Author(s). http://creativecommons.org/licenses/by/4.0/ Published by the Royal Society under the terms of the Creative Commons Attribution License http://creativecommons.org/licenses/by/4.0/, which permits unrestricted use, provided the original author and source are credited. |
spellingShingle | Life Sciences–Engineering interface Clark, Edward B. Hickinbotham, Simon J. Stepney, Susan Semantic closure demonstrated by the evolution of a universal constructor architecture in an artificial chemistry |
title | Semantic closure demonstrated by the evolution of a universal constructor architecture in an artificial chemistry |
title_full | Semantic closure demonstrated by the evolution of a universal constructor architecture in an artificial chemistry |
title_fullStr | Semantic closure demonstrated by the evolution of a universal constructor architecture in an artificial chemistry |
title_full_unstemmed | Semantic closure demonstrated by the evolution of a universal constructor architecture in an artificial chemistry |
title_short | Semantic closure demonstrated by the evolution of a universal constructor architecture in an artificial chemistry |
title_sort | semantic closure demonstrated by the evolution of a universal constructor architecture in an artificial chemistry |
topic | Life Sciences–Engineering interface |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5454285/ https://www.ncbi.nlm.nih.gov/pubmed/28515326 http://dx.doi.org/10.1098/rsif.2016.1033 |
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