Acetate metabolism and the inhibition of bacterial growth by acetate

S Pinhal, D Ropers, J Geiselmann… - Journal of …, 2019 - Am Soc Microbiol
During aerobic growth on glucose, Escherichia coli excretes acetate, a mechanism called
“overflow metabolism.” At high concentrations, the secreted acetate inhibits growth. Several …

Shared control of gene expression in bacteria by transcription factors and global physiology of the cell

S Berthoumieux, H De Jong, G Baptist… - Molecular systems …, 2013 - embopress.org
Gene expression is controlled by the joint effect of (i) the global physiological state of the
cell, in particular the activity of the gene expression machinery, and (ii) DNA‐binding …

Characterization of flavin-based fluorescent proteins: an emerging class of fluorescent reporters

A Mukherjee, J Walker, KB Weyant, CM Schroeder - PloS one, 2013 - journals.plos.org
Fluorescent reporter proteins based on flavin-binding photosensors were recently
developed as a new class of genetically encoded probes characterized by small size and …

A versatile microfluidic device for automating synthetic biology

SCC Shih, G Goyal, PW Kim, N Koutsoubelis… - ACS synthetic …, 2015 - ACS Publications
New microbes are being engineered that contain the genetic circuitry, metabolic pathways,
and other cellular functions required for a wide range of applications such as producing …

A synthetic growth switch based on controlled expression of RNA polymerase

J Izard, CDC Gomez Balderas, D Ropers… - Molecular systems …, 2015 - embopress.org
The ability to control growth is essential for fundamental studies of bacterial physiology and
biotechnological applications. We have engineered an Escherichia coli strain in which the …

Repression of flagellar genes in exponential phase by CsgD and CpxR, two crucial modulators of Escherichia coli biofilm formation

O Dudin, J Geiselmann, H Ogasawara… - Journal of …, 2014 - Am Soc Microbiol
Escherichia coli adapts its lifestyle to the variations of environmental growth conditions,
swap** between swimming motility or biofilm formation. The stationary-phase sigma factor …

Glucose-dependent promoters for dynamic regulation of metabolic pathways

J Maury, S Kannan, NB Jensen, FK Öberg… - … in bioengineering and …, 2018 - frontiersin.org
For an industrial fermentation process, it can be advantageous to decouple cell growth from
product formation. This decoupling would allow for the rapid accumulation of biomass …

Bistable expression of a toxin-antitoxin system located in a cryptic prophage of Escherichia coli O157: H7

D Jurėnas, N Fraikin, F Goormaghtigh, P De Bruyn… - Mbio, 2021 - Am Soc Microbiol
Type II toxin-antitoxin (TA) systems are classically composed of two genes that encode a
toxic protein and a cognate antitoxin protein. Both genes are organized in an operon whose …

Characterization of intrinsic properties of promoters

TJ Rudge, JR Brown, F Federici, N Dalchau… - ACS synthetic …, 2016 - ACS Publications
Accurate characterization of promoter behavior is essential for the rational design of
functional synthetic transcription networks such as logic gates and oscillators. However …

Unmixing of fluorescence spectra to resolve quantitative time-series measurements of gene expression in plate readers

CA Lichten, R White, IBN Clark, PS Swain - BMC biotechnology, 2014 - Springer
Background To connect gene expression with cellular physiology, we need to follow levels
of proteins over time. Experiments typically use variants of Green Fluorescent Protein (GFP) …