Bacterial biofilms and quorum sensing

The slowdown of growth rate controls the single-cell distribution of biofilm matrix production via a SinI-SinR-SlrR network

This study uses mathematical modeling and experiments to show that growth rate fluctuations and bistability in a regulatory network explain single-cell heterogeneity in biofilm matrix production and sporulation in Bacillus subtilis.

Centimeter-scale quorum sensing dictates collective survival of differentiating embryonic stem cells

The paper discovers that differentiating murine ES cells communicate over millimeters to form a macroscopic entity that survives if its population density exceeds a threshold.

Developing cyanobacterial quorum sensing toolkits: towards interspecies coordination in mixed autotroph/heterotroph communities

The paper develops an inter-species quorum sensing communication system between cyanobacteria and heterotrophs to enable coordinated biological activities in mixed communities.

Virulence adaptation of Pseudomonas aeruginosa phospholipase mutant with altered membrane phospholipid composition

This study investigates how Pseudomonas aeruginosa phospholipase A (PlaF) affects biofilm formation and virulence by altering membrane phospholipid composition and regulating multiple pathways.

Probing Patterning in Microbial Consortia with picCASO: a Cellular Automaton for Spatial Organisation

The paper develops a computational model and software tool to study spatial organization in microbial consortia through quorum sensing and synthetic communication strategies.

An open-source computational tool for measuring bacterial biofilm morphology and growth kinetics upon one-sided exposure to an antimicrobial source.

The paper introduces an open-source tool to measure morphological changes and growth kinetics of Bacillus subtilis biofilms exposed to chlorhexidine.

Advanced transcriptomic analysis reveals the role of efflux pumps and media composition in antibiotic responses of Pseudomonas aeruginosa

This study uses transcriptomic data to construct a regulatory network of Pseudomonas aeruginosa, revealing roles of efflux pumps and media composition in antibiotic responses.

Compendium-wide analysis of P. aeruginosa core and accessory genes reveal more nuanced transcriptional patterns

The paper analyzes transcriptional patterns of core and accessory genes in P. aeruginosa strains using a transcriptome compendium, revealing stable core gene expression patterns across strains.

Global dynamics of microbial communities emerge from local interaction rules

The paper develops a mathematical framework to predict community-level properties from local cell-cell interactions in two-cell-type systems, showing how molecular parameters influence community dynamics.

Species-wide phylogenomics of the Staphylococcus aureus agr operon reveals convergent evolution of frameshift mutations

The paper analyzes the agr operon across S. aureus genomes to identify frameshift mutations and their evolutionary patterns, finding over 5% of strains have non-functional agr systems.

Massively parallel transposon mutagenesis identifies temporally essential genes for biofilm formation in Escherichia coli

The paper identifies temporally essential genes for biofilm formation in E. coli using transposon mutagenesis and validates their roles at different stages of biofilm development.

In vitro reconstituted quorum sensing pathways enable rapid evaluation of quorum sensing inhibitors

The paper develops an in vitro cell-free system to evaluate quorum sensing inhibitors by reconstituting Pseudomonas aeruginosa pathways in Escherichia coli.

RRNPP_detector: a tool to detect RRNPP quorum sensing systems in chromosomes, plasmids and phages of gram-positive bacteria

RRNPP_detector identifies RRNPP quorum sensing systems in gram-positive bacteria genomes, revealing expanded diversity and novel regulatory mechanisms.

Biofilm Associated Genotypes of Multidrug-Resistant Pseudomonas aeruginosa

This study uses genome-wide association methods to identify genetic factors associated with biofilm production in Pseudomonas aeruginosa isolates.

The acquisition of additional feedback loops may optimize and speed up the response of quorum sensing

The paper models how additional regulatory modules in bacterial quorum sensing improve response speed and control.

Engineering Gac/Rsm signaling cascade for optogenetic induction of pathogenicity switch in Pseudomonas aeruginosa

This paper introduces an optogenetic system to control bacterial pathogenicity in specific host tissues by engineering the Gac/Rsm signaling cascade in Pseudomonas aeruginosa.

A Two-Component System FleS/FleR Regulates Multiple Virulence-Related Traits in Pseudomonas aeruginosa

This study investigates the FleS/FleR two-component system in Pseudomonas aeruginosa, showing it regulates virulence traits and biofilm formation through transcriptional control of multiple genes.

Antisense inhibition of accA in E. coli suppressed luxS expression and increased antibiotic susceptibility

This study inhibits the accA gene in E. coli using antisense RNA, suppressing luxS expression and increasing antibiotic susceptibility.

An integrated model system to gain mechanistic insights into biofilm formation and antimicrobial resistance development in Pseudomonas aeruginosa MPAO1

The paper validates a model system to identify genes involved in biofilm formation and antibiotic resistance in Pseudomonas aeruginosa MPAO1 using genomics and experimental approaches.

The quorum sensing peptide EntF* promotes colorectal cancer metastasis in mice: a new factor in the microbiome-host interaction.

The paper demonstrates that the quorum sensing peptide EntF* from gut microbiota promotes colorectal cancer metastasis in mice, identifying it as a novel mediator of microbiome-host interaction.

A Genome-based Model to Predict the Virulence of Pseudomonas aeruginosa Isolates

This paper uses machine learning to predict the virulence of Pseudomonas aeruginosa isolates based on genomic data, achieving 75% accuracy using random forest models.

Characterisation of Quorum Sensing System and Its Role in Global Regulation in Hafnia alvei

This study characterizes the quorum sensing system in Hafnia alvei FB1, showing its role in cell division, nutrient uptake, and antibiotic resistance through genomic and transcriptomic analyses.

Computational investigation for modelling the protein-protein interaction of TasA(28-261)with TapA(33-253); a decisive process in biofilm formation by Bacillus subtilis

The paper models the protein-protein interaction between TasA(28-261) and TapA(33-253) in Bacillus subtilis using computational methods to identify critical residues for biofilm formation.

The influence of biofilm formation on carbapenem resistance in clinical Klebsiella pneumoniae infections: phenotype vs genome-wide analysis

This study investigates the association between biofilm formation and carbapenem resistance in Klebsiella pneumoniae isolates, finding a positive correlation and significant impact on patient outcomes.

Uncovering the dynamic mechanisms of the Pseudomonas aeruginosa quorum sensing and virulence networks using Boolean modelling

This study uses Boolean modelling to analyze the dynamic mechanisms of Pseudomonas aeruginosa quorum sensing and virulence networks, revealing the roles of stochasticity and node connectivity in network dynamics and robustness.

Differential equation based minimal model describing metabolic oscillations in Bacillus subtilis biofilms

The paper develops a minimal differential equation model to describe metabolic oscillations in Bacillus subtilis biofilms, using a known chemical oscillator and validating it against biological observations.

Theoretical Design of Paradoxical Signaling-Based Synthetic Population Control Circuit in E. coli

The paper develops a mathematical framework to analyze paradoxical signaling in synthetic circuits for population control in E. coli, showing non-monotonic growth rate relationships and stability benefits.

Spatial-temporal dynamics of a microbial cooperative behavior robust to cheating

The paper shows that Pseudomonas aeruginosa uses integrated diffusive cues to stabilize cooperative swarming behavior against cheating.

Identification of flavone and its derivatives as potential inhibitors of transcriptional regulator LasR of Pseudomonas aeruginosa using virtual screening

This paper identifies flavone derivatives, specifically benzamides, as potential inhibitors of LasR in Pseudomonas aeruginosa through virtual screening and docking analysis.

Searching for Simple Rules in Pseudomonas aeruginosa Biofilm Formation

The paper develops a cellular automata model to simulate Pseudomonas aeruginosa biofilm formation and shows that azithromycin delays but does not prevent biofilm formation by affecting single-cell motility.