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ACS Synth Biol. 2018 May 18;7(5):1406-1412. doi: 10.1021/acssynbio.8b00016. Epub 2018 May 4.

An Automated Design Framework for Multicellular Recombinase Logic.

Author information

1
Centre de Biochimie Structurale (CBS), INSERM U1054 , CNRS UMR5048, University of Montpellier , 34090 Montpellier , France.
2
Laboratoire d'Informatique, de Robotique et de Microelectronique de Montpellier (LIRMM) , CNRS UMR 5506, University of Montpellier , 34090 Montpellier , France.

Abstract

Tools to systematically reprogram cellular behavior are crucial to address pressing challenges in manufacturing, environment, or healthcare. Recombinases can very efficiently encode Boolean and history-dependent logic in many species, yet current designs are performed on a case-by-case basis, limiting their scalability and requiring time-consuming optimization. Here we present an automated workflow for designing recombinase logic devices executing Boolean functions. Our theoretical framework uses a reduced library of computational devices distributed into different cellular subpopulations, which are then composed in various manners to implement all desired logic functions at the multicellular level. Our design platform called CALIN (Composable Asynchronous Logic using Integrase Networks) is broadly accessible via a web server, taking truth tables as inputs and providing corresponding DNA designs and sequences as outputs (available at http://synbio.cbs.cnrs.fr/calin ). We anticipate that this automated design workflow will streamline the implementation of Boolean functions in many organisms and for various applications.

KEYWORDS:

automated genetic design; biological computing; distributed multicellular computing; logic gates; recombinases; synthetic biology

PMID:
29641183
PMCID:
PMC5962929
DOI:
10.1021/acssynbio.8b00016
[Indexed for MEDLINE]
Free PMC Article

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