Growth defects and loss-of-function in synthetic gene circuits
File(s)CriticalCap.pdf (578.18 KB)
Accepted version
Author(s)
Nikolados, Evangelios
Weisse, Andrea
Ceroni, Francesca
Oyarzun, Diego
Type
Journal Article
Abstract
Synthetic gene circuits perturb the physiology of their cellular host. The extra load on endogenous processes shifts the equilibrium of resource allocation in the host, leading to slow growth and reduced biosynthesis. Here we built integrated host-circuit models to quantify growth defects caused by synthetic gene circuits. Simulations reveal a complex relation between circuit output and cellular capacity for gene expression. For weak induction of heterologous genes, protein output can be increased at the expense of growth defects. Yet for stronger induction, cellular capacity reaches a tipping point, beyond which both gene expression and growth rate drop sharply. Extensive simulations across various growth conditions and large regions of the design space suggest that the critical capacity is a result of ribosomal scarcity. We studied the impact of growth defects on various gene circuits and transcriptional logic gates, which highlights the extent to which cellular burden can limit, shape, and even break down circuit function. Our approach offers a comprehensive framework to assess the impact of host-circuit interactions in silico, with wide-ranging implications for the design and optimization of bacterial gene circuits.
Date Issued
2019-06-21
Date Acceptance
2019-05-01
Citation
ACS Synthetic Biology, 2019, 8 (6), pp.1231-1240
ISSN
2161-5063
Publisher
American Chemical Society
Start Page
1231
End Page
1240
Journal / Book Title
ACS Synthetic Biology
Volume
8
Issue
6
Copyright Statement
© 2019 American Chemical Society. This document is the Accepted Manuscript version of a Published Work that appeared in final form in ACS Synthetic Biology, after peer review and technical editing by the publisher. To access the final edited and published work see https://dx.doi.org/10.1021/acssynbio.8b00531
Subjects
genetic burden
genetic logic gates
host-circuit interactions
mechanistic modeling
model-based design
synthetic gene circuits
Publication Status
Published
Date Publish Online
2019-05-22