Predictive biology: modelling, understanding and harnessing microbial complexity

AJ Lopatkin, JJ Collins - Nature Reviews Microbiology, 2020 - nature.com
Predictive biology is the next great chapter in synthetic and systems biology, particularly for
microorganisms. Tasks that once seemed infeasible are increasingly being realized such as …

Killing in the name of: T6SS structure and effector diversity

LP Allsopp, P Bernal - Microbiology, 2023 - microbiologyresearch.org
The life of bacteria is challenging, to endure bacteria employ a range of mechanisms to
optimize their environment, including deploying the type VI secretion system (T6SS). Acting …

A secreted effector with a dual role as a toxin and as a transcriptional factor

D Wang, L Zhu, X Zhen, D Yang, C Li, Y Chen… - Nature …, 2022 - nature.com
Bacteria have evolved multiple secretion systems for delivering effector proteins into the
cytosol of neighboring cells, but the roles of many of these effectors remain unknown. Here …

[HTML][HTML] Trade-offs between gene expression, growth and phenotypic diversity in microbial populations

J Kim, A Darlington, M Salvador, J Utrilla… - Current opinion in …, 2020 - Elsevier
Highlights•Limitations in molecular resources for gene expression influence bacterial
physiology.•Bacteria optimise trade-offs between resource allocation and growth.•Resource …

[HTML][HTML] Bacterial toxin-antitoxin systems: Novel insights on toxin activation across populations and experimental shortcomings

LR Pizzolato-Cezar, B Spira, MT Machini - Current Research in Microbial …, 2023 - Elsevier
The alarming rise in hard-to-treat bacterial infections is of great concern to human health.
Thus, the identification of molecular mechanisms that enable the survival and growth of …

Integrative biology of persister cell formation: molecular circuitry, phenotypic diversification and fitness effects

A Berkvens, P Chauhan… - Journal of the Royal …, 2022 - royalsocietypublishing.org
Microbial populations often contain persister cells, which reduce the extinction risk upon
sudden stresses. Persister cell formation is deeply intertwined with physiology. Due to this …

Bacterial growth physiology and RNA metabolism

AG Planson, V Sauveplane, E Dervyn… - Biochimica et Biophysica …, 2020 - Elsevier
Bacteria are sophisticated systems with high capacity and flexibility to adapt to various
environmental conditions. Each prokaryote however possesses a defined metabolic …

Fragmentation of Escherichia coli mRNA by MazF and MqsR

T Mets, S Kasvandik, M Saarma, Ü Maiväli, T Tenson… - Biochimie, 2019 - Elsevier
MazEF and MqsRA are toxin-antitoxin systems, where the toxins MazF and MqsR sequence-
specifically cleave single-stranded RNA, thereby shutting down protein synthesis and cell …

Autoregulation of bacterial gene expression: lessons from the MazEF toxin–antitoxin system

N Nikolic - Current Genetics, 2019 - Springer
Autoregulation is the direct modulation of gene expression by the product of the
corresponding gene. Autoregulation of bacterial gene expression has been mostly studied …

Engineering of tnaC-Based Tryptophan Biosensors for Dynamic Control of Violacein Production

M Wang, L Lv, R Liu, Y Han, M Luan… - Journal of Agricultural …, 2024 - ACS Publications
Tryptophan not only serves as a fundamental building block for protein synthesis but also
acts as a metabolic precursor for a diverse array of high-value chemicals. Although a few …