A Microfluidics and Agent-Based Modeling Framework for Investigating Spatial Organization in Bacterial Colonies: The Case of Pseudomonas Aeruginosa and H1-Type VI Secretion Interactions

Development of a simple static microwell array with uniform cell seeding and a chemical concentration gradient

(2017) S. I. Yeh et al.   Microfluidics and Nanofluidics

Killing by Type VI secretion drives genetic phase separation and correlates with increased cooperation

(2017) Luke McNally et al.   Nature Communications

T6SS: The bacterial "fight club" in the host gut

(2017) Thibault G. Sana et al.   PLoS Pathogens

Assembly and Tracking of Microbial Community Development within a Microwell Array Platform

(2017) Andrea C. Timm et al.   Jove-Journal of Visualized Experiments

Strain competition restricts colonization of an enteric pathogen and prevents colitis

(2016) Aaron L Hecht et al.   EMBO REPORTS

INDISIM-Paracoccus, an individual-based and thermodynamic model for a denitrifying bacterium

(2016) Pablo Araujo Granda et al.   JOURNAL OF THEORETICAL BIOLOGY

High-throughput superhydrophobic microwell arrays for investigating multifactorial stem cell niches

(2016) Pengfei Zhang et al.   LAB ON A CHIP

Stochastic Assembly of Bacteria in Microwell Arrays Reveals the Importance of Confinement in Community Development

(2016) Ryan H. Hansen et al.   PLoS One

Human symbionts inject and neutralize antibacterial toxins to persist in the gut

(2016) Aaron G. Wexler et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The T6SSs of Pseudomonas aeruginosa Strain PAO1 and Their Effectors: Beyond Bacterial-Cell Targeting

(2016) Thibault G. Sana et al.   Frontiers in Cellular and Infection Microbiology

Tools for the Microbiome: Nano and Beyond

(2015) Julie S. Biteen et al.   ACS Nano

Modeling the effect of soil meso- and macropores topology on the biodegradation of a soluble carbon substrate

(2015) Laure E. Vogel et al.   ADVANCES IN WATER RESOURCES

Soil microbial communities are shaped by plant-driven changes in resource availability during secondary succession

(2015) Lauren C. Cline et al.   ECOLOGY

Succession of microbial community and enhanced mechanism of a ZVI-based anaerobic granular sludge process treating chloronitrobenzenes wastewater

(2015) Liang Zhu et al.   JOURNAL OF HAZARDOUS MATERIALS

One-step fabrication of three-dimensional polydimethylsiloxane peel-off microwell array for cell trapping

(2015) Ning Xue et al.   Journal of Micro-Nanolithography MEMS and MOEMS

Self-seeding microwell chip for the isolation and characterization of single cells

(2015) Joost F. Swennenhuis et al.   LAB ON A CHIP

Evolution of the CRISPR-Cas adaptive immunity systems in prokaryotes: models and observations on virus–host coevolution

(2015) Eugene V. Koonin et al.   Molecular BioSystems

Disentangling mechanisms that mediate the balance between stochastic and deterministic processes in microbial succession

(2015) Francisco Dini-Andreote et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Established Microbial Colonies Can Survive Type VI Secretion Assault

(2015) David Bruce Borenstein et al.   PLoS Computational Biology

Toward Development of an Autonomous Network of Bacteria-Based Delivery Systems (BacteriaBots): Spatiotemporally High-Throughput Characterization of Bacterial Quorum-Sensing Response

(2014) Ali Sahari et al.   ANALYTICAL CHEMISTRY

A Type VI Secretion-Related Pathway in Bacteroidetes Mediates Interbacterial Antagonism

(2014) Alistair B. Russell et al.   Cell Host & Microbe

Micropatterned culture of HepG2 spheroids using microwell chip with honeycomb-patterned polymer film

(2014) Hidekazu Yamazaki et al.   JOURNAL OF BIOSCIENCE AND BIOENGINEERING

Small Molecules Modulating AHL-based Quorum Sensing to Attenuate Bacteria Virulence and Biofilms as Promising Antimicrobial Drugs

(2013) Y. Wang et al.   CURRENT MEDICINAL CHEMISTRY

Cell manipulation tool with combined microwell array and optical tweezers for cell isolation and deposition

(2013) Xiaolin Wang et al.   JOURNAL OF MICROMECHANICS AND MICROENGINEERING

Understanding the sequential activation of Type III and Type VI Secretion Systems in Salmonella typhimurium using Boolean modeling

(2013) Chandrani Das et al.   Gut Pathogens

Quantitative single-cell characterization of bacterial interactions reveals type VI secretion is a double-edged sword

(2012) M. LeRoux et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Structure of a Peptidoglycan Amidase Effector Targeted to Gram-Negative Bacteria by the Type VI Secretion System

(2012) Seemay Chou et al.   Cell Reports

Superresolution Imaging of Intact Microbial Communities Reveals Molecular Architecture of Biofilm Development and Bacterial Organization

(2011) Veysel Berk et al.   BIOPHYSICAL JOURNAL

The effect of biofilm permeability on bio-clogging of porous media

(2011) Thomas R.R. Pintelon et al.   BIOTECHNOLOGY AND BIOENGINEERING

Individual-based modelling of carbon and nitrogen dynamics in soils: Parameterization and sensitivity analysis of microbial components

(2011) Anna Gras et al.   ECOLOGICAL MODELLING

iDynoMiCS: next-generation individual-based modelling of biofilms

(2011) Laurent A. Lardon et al.   ENVIRONMENTAL MICROBIOLOGY

Pseudomonas entomophila and Pseudomonas mendocina: Potential models for studying the bacterial type VI secretion system

(2011) Panagiotis F. Sarris et al.   INFECTION GENETICS AND EVOLUTION

A Type VI Secretion System of Pseudomonas aeruginosa Targets a Toxin to Bacteria

(2010) Rachel D. Hood et al.   Cell Host & Microbe

The ODD protocol: A review and first update

(2010) Volker Grimm et al.   ECOLOGICAL MODELLING

Agent-based modeling of the complex life cycle of a cyanobacterium (Anabaena) in a shallow reservoir

(2010) Ferdi L. Hellweger et al.   LIMNOLOGY AND OCEANOGRAPHY

Individual-Based Modeling of Carbon and Nitrogen Dynamics in Soils

(2010) Anna Gras et al.   SOIL SCIENCE

Isolation, incubation, and parallel functional testing and identification by FISH of rare microbial single-copy cells from multi-species mixtures using the combination of chemistrode and stochastic confinement

(2009) Weishan Liu et al.   LAB ON A CHIP

Evaluation of a Yersinia pestis mutant impaired in a thermoregulated type VI-like secretion system in flea, macrophage and murine models

(2009) Jennilee B. Robinson et al.   MICROBIAL PATHOGENESIS