Transcription factor-based biosensors in biotechnology: current state and future prospects

R Mahr, J Frunzke - Applied microbiology and biotechnology, 2016 - Springer
Living organisms have evolved a plethora of sensing systems for the intra-and extracellular
detection of small molecules, ions or physical parameters. Several recent studies have …

Transcription factor-based biosensors enlightened by the analyte

R Fernandez-López, R Ruiz, F de la Cruz… - Frontiers in …, 2015 - frontiersin.org
Whole cell biosensors (WCBs) have multiple applications for environmental monitoring,
detecting a wide range of pollutants. WCBs depend critically on the sensitivity and specificity …

The private life of environmental bacteria: pollutant biodegradation at the single cell level

PI Nikel, R Silva‐Rocha, I Benedetti… - Environmental …, 2014 - Wiley Online Library
Bacteria display considerable cell‐to‐cell heterogeneity in a number of genetic and
physiological traits. Stochastic differences in regulatory patterns (eg at the transcriptional …

Deconvolution of gene expression noise into spatial dynamics of transcription factor–promoter interplay

Á Goñi-Moreno, I Benedetti, J Kim… - ACS synthetic …, 2017 - ACS Publications
Gene expression noise is not only the mere consequence of stochasticity, but also a signal
that reflects the upstream physical dynamics of the cognate molecular machinery. Soil …

Use of substrate-induced gene expression in metagenomic analysis of an aromatic hydrocarbon-contaminated soil

MJ Meier, ES Paterson, IB Lambert - Applied and environmental …, 2016 - Am Soc Microbiol
Metagenomics allows the study of genes related to xenobiotic degradation in a culture-
independent manner, but many of these studies are limited by the lack of genomic context …

Biodegradation of p-xylene—a comparison of three psychrophilic Pseudomonas strains through the lens of gene expression

S Miri, A Rasooli, SK Brar, T Rouissi… - Environmental Science and …, 2022 - Springer
Abstract p-Xylene is considered a recalcitrant compound despite showing a similar aromatic
structure to other BTEXs (benzene, toluene, ethylbenzene, xylene isomers). This study …

Molecular mechanisms of xylose utilization by Pseudomonas fluorescens: overlapping genetic responses to xylose, xylulose, ribose and mannitol

Y Liu, PB Rainey, XX Zhang - Molecular microbiology, 2015 - Wiley Online Library
Bacterial degradation of xylose is sequentially mediated by two enzymes–an isomerase
(XutA) and a xylulokinase (XutB)–with xylulose as an intermediate. P seudomonas …

Development of fluorescent protein-based biosensing strains: A new tool for the detection of aromatic hydrocarbon pollutants in the environment

R Patel, P Zaveri, A Mukherjee, PK Agarwal… - Ecotoxicology and …, 2019 - Elsevier
The major sources for release of hydrocarbons into the environment include the effluents
generated from chemical processing industries and ports. The introduction of such …

Mining environmental plasmids for synthetic biology parts and devices

E Martínez-García, I Benedetti, A Hueso… - Microbiology …, 2015 - Am Soc Microbiol
The scientific and technical ambition of contemporary synthetic biology is the engineering of
biological objects with a degree of predictability comparable to those made through electric …

A model for the spatiotemporal design of gene regulatory circuits

R Stoof, A Wood, A Goni-Moreno - ACS synthetic biology, 2019 - ACS Publications
Mathematical modeling assists the design of synthetic regulatory networks by providing a
detailed mechanistic understanding of biological systems. Models that can predict the …