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A fast, robust and tunable synthetic gene oscillator

Author

Listed:
  • Jesse Stricker

    (University of California, San Diego, La Jolla, California 92093, USA)

  • Scott Cookson

    (University of California, San Diego, La Jolla, California 92093, USA)

  • Matthew R. Bennett

    (University of California, San Diego, La Jolla, California 92093, USA
    Institute for Nonlinear Science, University of California, San Diego, La Jolla, California 92093, USA)

  • William H. Mather

    (University of California, San Diego, La Jolla, California 92093, USA)

  • Lev S. Tsimring

    (Institute for Nonlinear Science, University of California, San Diego, La Jolla, California 92093, USA)

  • Jeff Hasty

    (University of California, San Diego, La Jolla, California 92093, USA
    Institute for Nonlinear Science, University of California, San Diego, La Jolla, California 92093, USA)

Abstract

A tunable synthetic gene oscillator Synthetic biologists aim to apply well-known principles of gene regulation to build living systems with desired properties, but practical applications have been disappointing. Jeff Hasty and colleagues have now combined microfluidics, single-cell microscopy and computational modelling to develop a bacterial gene oscillator that is fast, robust, persistent and whose frequency can be tuned externally. Their combination of experimental and theoretical work reveals a simplified oscillator design without the need for positive feedback.

Suggested Citation

  • Jesse Stricker & Scott Cookson & Matthew R. Bennett & William H. Mather & Lev S. Tsimring & Jeff Hasty, 2008. "A fast, robust and tunable synthetic gene oscillator," Nature, Nature, vol. 456(7221), pages 516-519, November.
    • Handle: RePEc:nat:nature:v:456:y:2008:i:7221:d:10.1038_nature07389
    DOI: 10.1038/nature07389
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    Citations

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    Cited by:

    1. Samuel M D Oliveira & Antti Häkkinen & Jason Lloyd-Price & Huy Tran & Vinodh Kandavalli & Andre S Ribeiro, 2016. "Temperature-Dependent Model of Multi-step Transcription Initiation in Escherichia coli Based on Live Single-Cell Measurements," PLOS Computational Biology, Public Library of Science, vol. 12(10), pages 1-18, October.
    2. H. Dehne & A. Reitenbach & A. R. Bausch, 2021. "Reversible and spatiotemporal control of colloidal structure formation," Nature Communications, Nature, vol. 12(1), pages 1-9, December.
    3. Samanthe M Lyons & Wenlong Xu & June Medford & Ashok Prasad, 2014. "Loads Bias Genetic and Signaling Switches in Synthetic and Natural Systems," PLOS Computational Biology, Public Library of Science, vol. 10(3), pages 1-16, March.
    4. Singh, Vijai & Chaudhary, Dharmendra Kumar & Mani, Indra & Dhar, Pawan Kumar, 2016. "Recent advances and challenges of the use of cyanobacteria towards the production of biofuels," Renewable and Sustainable Energy Reviews, Elsevier, vol. 60(C), pages 1-10.
    5. Sara Hooshangi & William E Bentley, 2011. "LsrR Quorum Sensing “Switch” Is Revealed by a Bottom-Up Approach," PLOS Computational Biology, Public Library of Science, vol. 7(9), pages 1-11, September.
    6. Rory L. Williams & Richard M. Murray, 2022. "Integrase-mediated differentiation circuits improve evolutionary stability of burdensome and toxic functions in E. coli," Nature Communications, Nature, vol. 13(1), pages 1-15, December.
    7. Lucia Marucci & David A W Barton & Irene Cantone & Maria Aurelia Ricci & Maria Pia Cosma & Stefania Santini & Diego di Bernardo & Mario di Bernardo, 2009. "How to Turn a Genetic Circuit into a Synthetic Tunable Oscillator, or a Bistable Switch," PLOS ONE, Public Library of Science, vol. 4(12), pages 1-10, December.
    8. Alan Veliz-Cuba & Andrew J Hirning & Adam A Atanas & Faiza Hussain & Flavia Vancia & Krešimir Josić & Matthew R Bennett, 2015. "Sources of Variability in a Synthetic Gene Oscillator," PLOS Computational Biology, Public Library of Science, vol. 11(12), pages 1-23, December.
    9. Miles Miller & Marc Hafner & Eduardo Sontag & Noah Davidsohn & Sairam Subramanian & Priscilla E M Purnick & Douglas Lauffenburger & Ron Weiss, 2012. "Modular Design of Artificial Tissue Homeostasis: Robust Control through Synthetic Cellular Heterogeneity," PLOS Computational Biology, Public Library of Science, vol. 8(7), pages 1-18, July.
    10. Yuqian Tang & Debin Qin & Zhexian Tian & Wenxi Chen & Yuanxi Ma & Jilong Wang & Jianguo Yang & Dalai Yan & Ray Dixon & Yi-Ping Wang, 2023. "Diurnal switches in diazotrophic lifestyle increase nitrogen contribution to cereals," Nature Communications, Nature, vol. 14(1), pages 1-16, December.
    11. Zhou, Peipei & Cai, Shuiming & Liu, Zengrong & Chen, Luonan & Wang, Ruiqi, 2013. "Coupling switches and oscillators as a means to shape cellular signals in biomolecular systems," Chaos, Solitons & Fractals, Elsevier, vol. 50(C), pages 115-126.
    12. Zhdanov, Vladimir P., 2012. "Periodic perturbation of genetic oscillations," Chaos, Solitons & Fractals, Elsevier, vol. 45(5), pages 577-587.
    13. Luna Rizik & Loai Danial & Mouna Habib & Ron Weiss & Ramez Daniel, 2022. "Synthetic neuromorphic computing in living cells," Nature Communications, Nature, vol. 13(1), pages 1-17, December.
    14. Astakhov, Sergey & Astakhov, Oleg & Fadeeva, Natalia & Astakhov, Vladimir, 2021. "Multistability, quasiperiodicity and chaos in a self-oscillating ring dynamical system with three degrees of freedom based on the van der Pol generator," Chaos, Solitons & Fractals, Elsevier, vol. 148(C).
    15. Chelsea Y. Hu & Richard M. Murray, 2022. "Layered feedback control overcomes performance trade-off in synthetic biomolecular networks," Nature Communications, Nature, vol. 13(1), pages 1-13, December.
    16. Evgeni V Nikolaev & Eduardo D Sontag, 2016. "Quorum-Sensing Synchronization of Synthetic Toggle Switches: A Design Based on Monotone Dynamical Systems Theory," PLOS Computational Biology, Public Library of Science, vol. 12(4), pages 1-33, April.
    17. Jiegen Wu & Baoqiang Chen & Yadi Liu & Liang Ma & Wen Huang & Yihan Lin, 2022. "Modulating gene regulation function by chemically controlled transcription factor clustering," Nature Communications, Nature, vol. 13(1), pages 1-15, December.
    18. Lucas Henrion & Juan Andres Martinez & Vincent Vandenbroucke & Mathéo Delvenne & Samuel Telek & Andrew Zicler & Alexander Grünberger & Frank Delvigne, 2023. "Fitness cost associated with cell phenotypic switching drives population diversification dynamics and controllability," Nature Communications, Nature, vol. 14(1), pages 1-13, December.

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