Single molecule fluorescence approaches shed light on intracellular RNAs

S Pitchiaya, LA Heinicke, TC Custer… - Chemical reviews, 2014 - ACS Publications
The eukaryotic cell is highly complex. Ever since Robert Hooke discovered “cells” in 1665
when training his comparably primitive microscope on a sliver of cork, scientists have aimed …

Direct visualisation of drug-efflux in live Escherichia coli cells

A Reuter, C Virolle, K Goldlust… - FEMS Microbiology …, 2020 - academic.oup.com
Drug-efflux by pump proteins is one of the major mechanisms of antibiotic resistance in
bacteria. Here, we use quantitative fluorescence microscopy to investigate the real-time …

A Post-translational Metabolic Switch Enables Complete Decoupling of Bacterial Growth from Biopolymer Production in Engineered Escherichia coli

G Durante-Rodríguez, V De Lorenzo… - ACS synthetic …, 2018 - ACS Publications
Most of the current methods for controlling the formation rate of a key protein or enzyme in
cell factories rely on the manipulation of target genes within the pathway. In this article, we …

Application of an E. coli signal sequence as a versatile inclusion body tag

WSP Jong, D Vikström, D Houben… - Microbial cell …, 2017 - Springer
Background Heterologous protein production in Escherichia coli often suffers from
bottlenecks such as proteolytic degradation, complex purification procedures and toxicity …

Multiscale effects of heating and cooling on genes and gene networks

DA Charlebois, K Hauser, S Marshall… - Proceedings of the …, 2018 - pnas.org
Most organisms must cope with temperature changes. This involves genes and gene
networks both as subjects and agents of cellular protection, creating difficulties in …

Dynamical model of antibiotic responses linking expression of resistance genes to metabolism explains emergence of heterogeneity during drug exposures

M Stevanovic, JPT Carvalho, P Bittihn… - Physical Biology, 2024 - iopscience.iop.org
Antibiotic responses in bacteria are highly dynamic and heterogeneous, with sudden
exposure of bacterial colonies to high drug doses resulting in the coexistence of recovered …

Steady-state distributions of nascent RNA for general initiation mechanisms

J Szavits-Nossan, R Grima - Physical Review Research, 2023 - APS
Fluctuations in the number of nascent RNA accurately reflect transcriptional activity.
However, mathematical models predicting their distributions are difficult to solve analytically …

[HTML][HTML] Analysis of a detailed multi-stage model of stochastic gene expression using queueing theory and model reduction

M Ma, J Szavits-Nossan, A Singh, R Grima - Mathematical biosciences, 2024 - Elsevier
We introduce a biologically detailed, stochastic model of gene expression describing the
multiple rate-limiting steps of transcription, nuclear pre-mRNA processing, nuclear mRNA …

The minimal intrinsic stochasticity of constitutively expressed eukaryotic genes is sub-Poissonian

DE Weidemann, J Holehouse, A Singh, R Grima… - Science …, 2023 - science.org
Gene expression inherently gives rise to stochastic variation (“noise”) in the production of
gene products. Minimizing noise is crucial for ensuring reliable cellular functions. However …

Precision of Readout at the hunchback Gene: Analyzing Short Transcription Time Traces in Living Fly Embryos

J Desponds, H Tran, T Ferraro, T Lucas… - PLoS computational …, 2016 - journals.plos.org
The simultaneous expression of the hunchback gene in the numerous nuclei of the
develo** fly embryo gives us a unique opportunity to study how transcription is regulated …