A Two-Dimensional Model of Potassium Signaling and Oscillatory Growth in a Biofilm.

Biofilms are complex communities of bacteria that exhibit a variety of collective behaviors. These behaviors improve their ability to survive in many different environments. One of these collective behaviors seen in Bacillus subtilis is the ability for starving cells to stop the growth of other cells using potassium signaling and voltage changes.

A Dimensionally Reduced Model of Biofilm Growth Within a Flow Cell.

Biofilms are colonies of bacteria attached to surfaces. They play a critical role in many engineering and medical applications. Scientists study biofilm growth in flow cells but often have limited direct knowledge of the environmental conditions in the apparatus.

In Situ Biomineralization and Particle Deposition Distinctively Mediate Biofilm Susceptibility to Chlorine.

Microbial biofilms and mineral precipitation commonly co-occur in engineered water systems, such as cooling towers and water purification systems, and both decrease process performance. Microbial biofilms are extremely challenging to control and eradicate. We previously showed that in situ biomineralization and the precipitation and deposition of abiotic particles occur simultaneously in biofilms under oversaturated conditions.

Spatial patterns of carbonate biomineralization in biofilms.

Microbially catalyzed precipitation of carbonate minerals is an important process in diverse biological, geological, and engineered systems. However, the processes that regulate carbonate biomineralization and their impacts on biofilms are largely unexplored, mainly because of the inability of current methods to directly observe biomineralization within biofilms. Here, we present a method for in situ, real-time imaging of biomineralization in biofilms and use it to show that Pseudomonas aeruginosa biofilms produce morphologically distinct carbonate deposits that substantially modify biofilm structures.

Methods for characterizing the co-development of biofilm and habitat heterogeneity.

Biofilms are surface-attached microbial communities that have complex structures and produce significant spatial heterogeneities. Biofilm development is strongly regulated by the surrounding flow and nutritional environment. Biofilm growth also increases the heterogeneity of the local microenvironment by generating complex flow fields and solute transport patterns.

Modeling the impact of interspecies competition on performance of a microbial fuel cell.

Previous models of biofilms growing in a microbial fuel cell (MFC) have primarily focused on modeling a single growth mechanism: growth via a conductive biofilm matrix, or growth utilizing diffusible electron shuttles or mediators. In this work, we implement both flavors of models in order to explore the competition for space and nutrients in a MFC biofilm populated by both species types. We find that the optimal growth conditions are for bacteria that utilize conductive EPS provided a minimal energy used to create the EPS matrix.

The extracellular matrix protects Pseudomonas aeruginosa biofilms by limiting the penetration of tobramycin.

Biofilm cells are less susceptible to antimicrobials than their planktonic counterparts. While this phenomenon is multifactorial, the ability of the matrix to reduce antibiotic penetration into the biofilm is thought to be of limited importance studies suggest that antibiotics move fairly rapidly through biofilms. In this study, we monitored the transport of two clinically relevant antibiotics, tobramycin and ciprofloxacin, into non-mucoid Pseudomonas aeruginosa biofilms.

A novel prospective three-dimensional analysis of nasolabial fold augmentation.

Background: There are many products approved for aesthetic soft tissue augmentation. Despite this abundance, there is limited objective data regarding safety, longevity, and complication rates. Instead, most reports rely on subjective measures to report volume changes and outcomes, making product comparison difficult.

The performance of a microbial fuel cell depends strongly on anode geometry: a multidimensional modeling study.

A multidimensional biofilm model is developed to simulate biofilm growth on the anode of a Microbial Fuel Cell (MFC). The biofilm is treated as a conductive material, and electrons produced during microbial growth are assumed to be transferred to the anode through a conductive biofilm matrix. Growth of Geobacter sulfurreducens is simulated using the Nernst-Monod kinetic model that was previously developed and later validated in experiments.

The influence of fluid flow on modeling quorum sensing in bacterial biofilms.

In this paper, we study quorum sensing in Pseudomonas aeruginosa biofilms. Quorum sensing is a process where bacteria monitor their population density through the release of extra-cellular signalling molecules. The presence of these molecules affects gene modulation leading to changes in behaviour such as the release of virulence factors.

Modeling how soluble microbial products (SMP) support heterotrophic bacteria in autotroph-based biofilms.

Multi-species biofilm modeling has been used for many years to understand the interactions between species in different biofilm systems, but the complex symbiotic relationship between species is sometimes overlooked, because models do not always include all relevant species and components. In this paper, we develop and use a mathematical model to describe a model biofilm system that includes autotrophic and heterotrophic bacteria and the key products produced by the bacteria. The model combines the methods of earlier multi-species models with a multi-component biofilm model in order to explore the interaction between species via exchange of soluble microbial products (SMP).

A two-dimensional continuum model of biofilm growth incorporating fluid flow and shear stress based detachment.

We present a two-dimensional biofilm growth model in a continuum framework using an Eulerian description. A computational technique based on the eXtended Finite Element Method (XFEM) and the level set method is used to simulate the growth of the biofilm. The model considers fluid flow around the biofilm surface, the advection-diffusion and reaction of substrate, variable biomass volume fraction and erosion due to the interfacial shear stress at the biofilm-fluid interface.

Compartmental neural simulations with spatial adaptivity.

Since their inception, computational models have become increasingly complex and useful counterparts to laboratory experiments within the field of neuroscience. Today several software programs exist to solve the underlying mathematical system of equations, but such programs typically solve these equations in all parts of a cell (or network of cells) simultaneously, regardless of whether or not all of the cell is active. This approach can be inefficient if only part of the cell is active and many simulations must be performed.

Influence of the hydrodynamic environment on quorum sensing in Pseudomonas aeruginosa biofilms.

We provide experimental and modeling evidence that the hydrodynamic environment can impact quorum sensing (QS) in a Pseudomonas aeruginosa biofilm. The amount of biofilm biomass required for full QS induction of the population increased as the flow rate increased.

The impact of quorum sensing and swarming motility on Pseudomonas aeruginosa biofilm formation is nutritionally conditional.

The role of quorum sensing in Pseudomonas aeruginosa biofilm formation is unclear. Some researchers have shown that quorum sensing is important for biofilm development, while others have indicated it has little or no role. In this study, the contribution of quorum sensing to biofilm development was found to depend upon the nutritional environment.