Boosting functionality of synthetic DNA circuits with tailored deactivation

Kevin Montagne, Guillaume Gines, Teruo Fujii and Yannick Rondelez ()
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Kevin Montagne: University of Tokyo
Guillaume Gines: LIMMS/CNRS-IIS (UMI 2820), Institute of Industrial Science, The University of Tokyo
Teruo Fujii: LIMMS/CNRS-IIS (UMI 2820), Institute of Industrial Science, The University of Tokyo
Yannick Rondelez: LIMMS/CNRS-IIS (UMI 2820), Institute of Industrial Science, The University of Tokyo

Nature Communications, 2016, vol. 7, issue 1, 1-12

Abstract: Abstract Molecular programming takes advantage of synthetic nucleic acid biochemistry to assemble networks of reactions, in vitro, with the double goal of better understanding cellular regulation and providing information-processing capabilities to man-made chemical systems. The function of molecular circuits is deeply related to their topological structure, but dynamical features (rate laws) also play a critical role. Here we introduce a mechanism to tune the nonlinearities associated with individual nodes of a synthetic network. This mechanism is based on programming deactivation laws using dedicated saturable pathways. We demonstrate this approach through the conversion of a single-node homoeostatic network into a bistable and reversible switch. Furthermore, we prove its generality by adding new functions to the library of reported man-made molecular devices: a system with three addressable bits of memory, and the first DNA-encoded excitable circuit. Specific saturable deactivation pathways thus greatly enrich the functional capability of a given circuit topology.

Date: 2016
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DOI: 10.1038/ncomms13474

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