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Minimally complex nucleic acid feedback control systems for first experimental implementations

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Paulino, Nuno M.G., Foo, Mathias, de Greef, Tom F.A., Kim, Jongmin and Bates, Declan G. (2020) Minimally complex nucleic acid feedback control systems for first experimental implementations. IFAC-PapersOnLine, 53 (2). pp. 16745-16752. doi:10.1016/j.ifacol.2020.12.1135

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Official URL: https://doi.org/10.1016/j.ifacol.2020.12.1135

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Abstract

Chemical reaction networks based on catalysis, degradation, and annihilation may be used as building blocks to construct a variety of dynamical and feedback control systems in Synthetic Biology. DNA strand-displacement, which is based on DNA hybridisation programmed using Watson-Crick base pairing, is an effective primitive to implement such reactions experimentally. However, experimental construction, validation and scale-up of nucleic acid control systems is still significantly lagging theoretical developments, due to several technical challenges, such as leakage, crosstalk, and toehold sequence design. To help the progress towards experimental implementation, we provide here designs representing two fundamental classes of reference tracking control circuits (integral and state-feedback control), for which the complexity of the chemical reactions required for implementation has been minimised. The supplied ‘minimally complex’ control circuits should be ideal candidates for first experimental validations of nucleic acid controllers.

Item Type: Journal Article
Subjects: Q Science > QP Physiology
T Technology > TJ Mechanical engineering and machinery
Divisions: Faculty of Science > Engineering
Library of Congress Subject Headings (LCSH): Feedback control systems, Nucleic acids, Synthetic biology
Journal or Publication Title: IFAC-PapersOnLine
Publisher: Elsevier
ISSN: 2405-8963
Official Date: 2020
Dates:
DateEvent
2020Published
14 April 2020Available
Volume: 53
Number: 2
Page Range: pp. 16745-16752
DOI: 10.1016/j.ifacol.2020.12.1135
Status: Peer Reviewed
Publication Status: Published
Access rights to Published version: Open Access
RIOXX Funder/Project Grant:
Project/Grant IDRIOXX Funder NameFunder ID
BB/M017982/1[BBSRC] Biotechnology and Biological Sciences Research Councilhttp://dx.doi.org/10.13039/501100000268
BB/M017982/1[EPSRC] Engineering and Physical Sciences Research Councilhttp://dx.doi.org/10.13039/501100000266
EP/L016494/1[EPSRC] Engineering and Physical Sciences Research Councilhttp://dx.doi.org/10.13039/501100000266
EP/L016494/1[BBSRC] Biotechnology and Biological Sciences Research Councilhttp://dx.doi.org/10.13039/501100000268

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