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Cooperativity To Increase Turing Pattern Space for Synthetic Biology

[Image: see text] It is hard to bridge the gap between mathematical formulations and biological implementations of Turing patterns, yet this is necessary for both understanding and engineering these networks with synthetic biology approaches. Here, we model a reaction–diffusion system with two morph...

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Autores principales: Diambra, Luis, Senthivel, Vivek Raj, Menendez, Diego Barcena, Isalan, Mark
Formato: Online Artículo Texto
Lenguaje:English
Publicado: American Chemical Society 2014
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4384830/
https://www.ncbi.nlm.nih.gov/pubmed/25122550
http://dx.doi.org/10.1021/sb500233u
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author Diambra, Luis
Senthivel, Vivek Raj
Menendez, Diego Barcena
Isalan, Mark
author_facet Diambra, Luis
Senthivel, Vivek Raj
Menendez, Diego Barcena
Isalan, Mark
author_sort Diambra, Luis
collection PubMed
description [Image: see text] It is hard to bridge the gap between mathematical formulations and biological implementations of Turing patterns, yet this is necessary for both understanding and engineering these networks with synthetic biology approaches. Here, we model a reaction–diffusion system with two morphogens in a monostable regime, inspired by components that we recently described in a synthetic biology study in mammalian cells.1 The model employs a single promoter to express both the activator and inhibitor genes and produces Turing patterns over large regions of parameter space, using biologically interpretable Hill function reactions. We applied a stability analysis and identified rules for choosing biologically tunable parameter relationships to increase the likelihood of successful patterning. We show how to control Turing pattern sizes and time evolution by manipulating the values for production and degradation relationships. More importantly, our analysis predicts that steep dose–response functions arising from cooperativity are mandatory for Turing patterns. Greater steepness increases parameter space and even reduces the requirement for differential diffusion between activator and inhibitor. These results demonstrate some of the limitations of linear scenarios for reaction–diffusion systems and will help to guide projects to engineer synthetic Turing patterns.
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spelling pubmed-43848302015-04-07 Cooperativity To Increase Turing Pattern Space for Synthetic Biology Diambra, Luis Senthivel, Vivek Raj Menendez, Diego Barcena Isalan, Mark ACS Synth Biol [Image: see text] It is hard to bridge the gap between mathematical formulations and biological implementations of Turing patterns, yet this is necessary for both understanding and engineering these networks with synthetic biology approaches. Here, we model a reaction–diffusion system with two morphogens in a monostable regime, inspired by components that we recently described in a synthetic biology study in mammalian cells.1 The model employs a single promoter to express both the activator and inhibitor genes and produces Turing patterns over large regions of parameter space, using biologically interpretable Hill function reactions. We applied a stability analysis and identified rules for choosing biologically tunable parameter relationships to increase the likelihood of successful patterning. We show how to control Turing pattern sizes and time evolution by manipulating the values for production and degradation relationships. More importantly, our analysis predicts that steep dose–response functions arising from cooperativity are mandatory for Turing patterns. Greater steepness increases parameter space and even reduces the requirement for differential diffusion between activator and inhibitor. These results demonstrate some of the limitations of linear scenarios for reaction–diffusion systems and will help to guide projects to engineer synthetic Turing patterns. American Chemical Society 2014-08-14 2015-02-20 /pmc/articles/PMC4384830/ /pubmed/25122550 http://dx.doi.org/10.1021/sb500233u Text en Copyright © 2014 American Chemical Society This is an open access article published under a Creative Commons Attribution (CC-BY) License (http://pubs.acs.org/page/policy/authorchoice_ccby_termsofuse.html) , which permits unrestricted use, distribution and reproduction in any medium, provided the author and source are cited.
spellingShingle Diambra, Luis
Senthivel, Vivek Raj
Menendez, Diego Barcena
Isalan, Mark
Cooperativity To Increase Turing Pattern Space for Synthetic Biology
title Cooperativity To Increase Turing Pattern Space for Synthetic Biology
title_full Cooperativity To Increase Turing Pattern Space for Synthetic Biology
title_fullStr Cooperativity To Increase Turing Pattern Space for Synthetic Biology
title_full_unstemmed Cooperativity To Increase Turing Pattern Space for Synthetic Biology
title_short Cooperativity To Increase Turing Pattern Space for Synthetic Biology
title_sort cooperativity to increase turing pattern space for synthetic biology
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4384830/
https://www.ncbi.nlm.nih.gov/pubmed/25122550
http://dx.doi.org/10.1021/sb500233u
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