Diversity, versatility and complexity of bacterial gene regulation mechanisms: opportunities and drawbacks for applications in synthetic biology
I Bervoets, D Charlier - FEMS microbiology reviews, 2019 - academic.oup.com
Gene expression occurs in two essential steps: transcription and translation. In bacteria, the
two processes are tightly coupled in time and space, and highly regulated. Tight regulation …
two processes are tightly coupled in time and space, and highly regulated. Tight regulation …
Systematic quantification of sequence and structural determinants controlling mRNA stability in bacterial operons
mRNA degradation is a central process that affects all gene expression levels, and yet, the
determinants that control mRNA decay rates remain poorly characterized. Here, we applied …
determinants that control mRNA decay rates remain poorly characterized. Here, we applied …
Metabolic perceptrons for neural computing in biological systems
Synthetic biological circuits are promising tools for developing sophisticated systems for
medical, industrial, and environmental applications. So far, circuit implementations …
medical, industrial, and environmental applications. So far, circuit implementations …
Systematic inference identifies a major source of heterogeneity in cell signaling dynamics: The rate-limiting step number
Identifying the sources of cell-to-cell variability in signaling dynamics is essential to
understand drug response variability and develop effective therapeutics. However, it is …
understand drug response variability and develop effective therapeutics. However, it is …
Toward a systematic design of smart probiotics
R Choudhary, R Mahadevan - Current Opinion in Biotechnology, 2020 - Elsevier
Synthetic biology has been instrumental in turning microbes into cell-factories capable of
diverse processes. A recent application has been to convert them into living therapeutics …
diverse processes. A recent application has been to convert them into living therapeutics …
Inferring delays in partially observed gene regulation processes
Motivation Cell function is regulated by gene regulatory networks (GRNs) defined by protein-
mediated interaction between constituent genes. Despite advances in experimental …
mediated interaction between constituent genes. Despite advances in experimental …
Distinct timescales of RNA regulators enable the construction of a genetic pulse generator
A Westbrook, X Tang, R Marshall… - Biotechnology and …, 2019 - Wiley Online Library
To build complex genetic networks with predictable behaviors, synthetic biologists use
libraries of modular parts that can be characterized in isolation and assembled together to …
libraries of modular parts that can be characterized in isolation and assembled together to …
Cell-free prototyping of AND-logic gates based on heterogeneous RNA activators
FX Lehr, M Hanst, M Vogel, J Kremer… - ACS synthetic …, 2019 - ACS Publications
RNA-based devices controlling gene expression bear great promise for synthetic biology, as
they offer many advantages such as short response times and light metabolic burden …
they offer many advantages such as short response times and light metabolic burden …
Bayesian inference of distributed time delay in transcriptional and translational regulation
Motivation Advances in experimental and imaging techniques have allowed for
unprecedented insights into the dynamical processes within individual cells. However, many …
unprecedented insights into the dynamical processes within individual cells. However, many …
Design and evaluation of synthetic RNA-based incoherent feed-forward loop circuits
RNA-based regulators are promising tools for building synthetic biological systems that
provide a powerful platform for achieving a complex regulation of transcription and …
provide a powerful platform for achieving a complex regulation of transcription and …