Prediction of Cellular Burden with Host--Circuit Models

Evangelos-Marios Nikolados, Andrea Y. Weiße, Diego A. Oyarzún

Research output: Chapter in Book/Report/Conference proceedingChapter

Abstract

Heterologous gene expression draws resources from host cells. These resources include vital components to sustain growth and replication, and the resulting cellular burden is a widely recognized bottleneck in the design of robust circuits. In this tutorial we discuss the use of computational models that integrate gene circuits and the physiology of host cells. Through various use cases, we illustrate the power of host--circuit models to predict the impact of design parameters on both burden and circuit functionality. Our approach relies on a new generation of computational models for microbial growth that can flexibly accommodate resource bottlenecks encountered in gene circuit design. Adoption of this modeling paradigm can facilitate fast and robust design cycles in synthetic biology.
Original languageEnglish
Title of host publicationSynthetic Gene Circuits : Methods and Protocols
EditorsFilippo Menolascina
Place of PublicationNew York, NY
PublisherSpringer US
Pages267-291
Number of pages25
ISBN (Print)978-1-0716-1032-9
DOIs
Publication statusPublished - 7 Jan 2021

Publication series

NameMethods in Molecular Biology
PublisherSpringer
Volume2229

Keywords

  • Cellular burden
  • growth models
  • whole-cell modelling
  • ene circuit design
  • synthetic biology
  • resource allocation

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