Oct 3, 2015

Rapid cell-free forward engineering of novel genetic ring oscillators

ELife
Henrike NiederholtmeyerSebastian J Maerkl

Abstract

While complex dynamic biological networks control gene expression in all living organisms, the forward engineering of comparable synthetic networks remains challenging. The current paradigm of characterizing synthetic networks in cells results in lengthy design-build-test cycles, minimal data collection, and poor quantitative characterization. Cell-free systems are appealing alternative environments, but it remains questionable whether biological networks behave similarly in cell-free systems and in cells. We characterized in a cell-free system the 'repressilator', a three-node synthetic oscillator. We then engineered novel three, four, and five-gene ring architectures, from characterization of circuit components to rapid analysis of complete networks. When implemented in cells, our novel 3-node networks produced population-wide oscillations and 95% of 5-node oscillator cells oscillated for up to 72 hr. Oscillation periods in cells matched the cell-free system results for all networks tested. An alternate forward engineering paradigm using cell-free systems can thus accurately capture cellular behavior.

  • References35
  • Citations22

Mentioned in this Paper

Fluctuation
Solocyte
Protein Degradation, Regulatory
Physiologic Pulse
Transcription Repressor/Corepressor
Alkalescens-Dispar Group
TFPI gene
Proteins, Recombinant DNA
Environment
Protein Degradation, Metabolic

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