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Designing Spatially Distributed Gene Regulatory Networks To Elicit Contrasting Patterns.

Mika Tei1, Melinda Liu Perkins2, Justin Hsia2

  • 1The UC Berkeley-UCSF Graduate Program in Bioengineering , University of California - Berkeley , Berkeley , California 94704 , United States.

ACS Synthetic Biology
|December 13, 2018
PubMed
Summary
This summary is machine-generated.

We developed a computational method to simulate microbial colonies with different gene networks, enabling control over gene expression patterns. This research highlights spatial arrangement

Keywords:
lateral inhibitionpattern formationsynthetic biologysystems biology

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Area of Science:

  • Synthetic biology
  • Computational biology
  • Microbial ecology

Background:

  • Microbial consortia rely on pattern formation and differential interactions for complex functions.
  • Understanding these interactions is key to engineering microbial communities.

Purpose of the Study:

  • To present a computational method for simulating physically separated microbial colonies with distinct gene regulatory networks.
  • To experimentally validate the computational model and demonstrate control over gene expression.

Main Methods:

  • Development of a computational simulation for spatially separated microbial colonies.
  • Experimental validation using a diffusion-mediated lateral inhibition circuit.
  • Analysis of gene expression patterns and system behavior modulation.

Main Results:

  • Successful simulation of microbial colonies with varying gene regulatory networks.
  • Experimental demonstration of controlled gene expression patterns.
  • Identification of spatial arrangement as a critical factor in system behavior.

Conclusions:

  • The computational method provides a foundation for understanding and engineering multistrain microbial communities.
  • Spatial arrangement is a key parameter for modulating the behavior of microbial consortia.
  • This work paves the way for sophisticated, synergistic functions in engineered microbial systems.