Prediction of Cellular Burden with Host-Circuit Models

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...

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Bibliographic Details
Published inMethods in molecular biology (Clifton, N.J.) Vol. 2229; p. 267
Main Authors Nikolados, Evangelos-Marios, Weiße, Andrea Y, Oyarzún, Diego A
Format Journal Article
LanguageEnglish
Published United States 2021
Subjects
Bacteria - genetics
Bacterial Physiological Phenomena
Bacterial Proteins - genetics
Gene Expression
Gene Regulatory Networks
Genes, Synthetic
Models, Biological
Synthetic Biology
Systems Biology - methods
Gene circuit design
Synthetic biology
Whole-cell modeling
Growth models
Cellular burden
Resource allocation
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Summary: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.
ISSN:1940-6029
DOI:10.1007/978-1-0716-1032-9_13