Forward engineering of synthetic bio-logical AND gates

Kavita Iyer Ramalingam, Jonathan R. Tomshine, Jennifer A. Maynard, Yiannis N. Kaznessis

Research output: Contribution to journalArticle

47 Scopus citations

Abstract

The field of synthetic biology has produced genetic circuits capable of emulating functional paradigms seen in digital electronic circuits. Examples are bistable switches, oscillators, and logic gates. The present work combines detailed mechanistic-kinetic models and stochastic simulation techniques as well as the techniques of in vivo molecular biology to study the potential of a synthetic, single promoter AND gate. This device is composed of elements of the tet, lac, and λ-phage promoters and is responsive to the commonly used inducers IPTG and aTc, producing GFP as an output signal. The quantitative behavior of the AND gate phenotype is studied both in numero and in vivo as a function of promoter topology. The model is constructed from kinetic data obtained from the literature and yields clearly defined ON/OFF logical behavior at realistic inducer concentrations. These behaviors are matched with observed in vivo data obtained through fluorescence-activated cell sorting. The effect of incomplete repression by weaker LacI repressor is also investigated and quantified. The simulation results, coupled with in vivo data, not only identify important design degrees of freedom, but also provide parameters that can be used to guide future synthetic designs using these common regulatory elements.

Original languageEnglish (US)
Pages (from-to)38-47
Number of pages10
JournalBiochemical Engineering Journal
Volume47
Issue number1-3
DOIs
StatePublished - Dec 1 2009

Keywords

  • Biocomputing
  • Computer-aided design
  • Gene regulatory networks
  • Logical AND gate
  • Multiscale models
  • Stochastic simulations
  • Synthetic biology

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    Ramalingam, K. I., Tomshine, J. R., Maynard, J. A., & Kaznessis, Y. N. (2009). Forward engineering of synthetic bio-logical AND gates. Biochemical Engineering Journal, 47(1-3), 38-47. https://doi.org/10.1016/j.bej.2009.06.014