Related papers: Reaction-diffusion model for pattern formation in …

In this paper we study a nonlinear reaction-diffusion system which models an infectious disease caused by bacteria such as those for cholera. One of the significant features in this model is that a certain portion of the recovered human…

Bacteria such as Escherichia coli (E. coli) exhibit biased motion if kept in a spatially non-uniform chemical environment. Here, we bring out unique time-dependent characteristics of bacterial chemotaxis, in response to a diffusing spatial…

For non-motile microorganisms, spatial expansion in quiescent fluids is presumed to be limited by diffusion. We report that microbial colonies can explosively circumvent this constraint through a self-amplifying physical process. As…

This is supplementary information for arXiv:1204.4896, which also appeared in Physical Biology 9, 026008 (2012). Main text abstract: Evolutionary experiments with microbes are a powerful tool to study mutations and natural selection. These…

The solution space of genome-scale models of cellular metabolism provides a map between physically viable flux configurations and cellular metabolic phenotypes described, at the most basic level, by the corresponding growth rates. By…

Through a combination of experiments and modeling, we have demonstrated a novel pattern formation phenomenon in an isothermal miscible fluid system involving simple protein and sugar solutions. We introduced dye-tagged protein solution into…

Evolutionary experiments with microbes are a powerful tool to study mutations and natural selection. These experiments, however, are often limited to the well-mixed environments of a test tube or a chemostat. Since spatial organization can…

Reaction-diffusion models have been used over decades to study biological systems. In this context, evolution equations for probability distribution functions and the associated stochastic differential equations have nowadays become…

Flagellated bacteria on nutrient-rich substrates can differentiate into a swarming state and move in dense swarms across surfaces. A recent experiment measured the flow in the fluid around an Escherichia coli swarm (Wu, Hosu and Berg, 2011…

We study a minimal model of a crawling eukaryotic cell with a chemical polarity controlled by a reaction-diffusion mechanism describing Rho GTPase dynamics. The size, shape, and speed of the cell emerge from the combination of the chemical…

Immotile microbes inhabit nearly every environment on Earth, from soils and sediments to food matrices -- yet how they disperse through these physically confining environments is poorly understood. Here, we show that immotile microbial…

While bacterial swimming has been well characterized in uniform liquid environments, only little is known about how bacteria propagate through complex environments, such as gel-like matrices or porous media that are typically encountered in…

The diffusion of particles in complex media has gained significant interest due to its dual relevance: probing the viscoelastic properties of materials via microrheology and assessing the extent of particle displacement over time. In this…

We introduce a three-dimensional stochastic reaction-diffusion model to describe MinD/MinE dynamical structures in Escherichia coli. This model spontaneously generates pole-to-pole oscillations of the membrane-associated MinD proteins, MinE…

We present a mathematical model of glucose-lactose diauxic growth in Escherichia coli including both the postive and negative regulation mechanisms of the lactose operon as well as the inducer exclusion. To validate this model, we first…

The enteric bacterium Proteus mirabilis, which is a pathogen that forms biofilms in vivo, can swarm over hard surfaces and form concentric ring patterns in colonies. Colony formation involves two distinct cell types: swarmer cells that…

Experiments were performed to test the effect of an electric field on growing E-coli cultures. Cell growing dishes were fitted with platinum wires to create a potential drop across the dish. Water diluted E-coli cultures were brushed across…

To explore the coupling between a growing population of microorganisms such as E. coli and a nonuniform nutrient distribution, we formulate a minimalistic model. It consists of active Brownian particles that divide and grow at a…

The bacterium Escherichia coli (E. coli) moves in its natural environment in a series of straight runs, interrupted by tumbles which cause change of direction. It performs chemotaxis towards chemo-attractants by extending the duration of…

Cells in tissues can organize into a broad spectrum of structures according to their function. Drastic changes of organization, such as epithelial-mesenchymal transitions or the formation of spheroidal aggregates, are often associated…