Theoretical modeling of fluid flow in cellular biological media: An overview

Kapellos, George E.; Alexiou, Terpsichori S.; Payatakes, A. C.

doi:10.1016/j.mbs.2010.03.003

Cited by 42 publications

(22 citation statements)

References 116 publications

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“…Osteocyte sustenance, mineral repositing and resurgence, and most likely mechanosensation all depend on the dynamics the bone fluid in the vascular porosity and lacunar-canalicular porosities. Poroelasticity and electrokinetics can be used as an efficient tool in the experimental study of local bone fluid flow, which in turn deals with quite a few questions regarding bone mineralization and mechanosensory system (Kapellos et al 2010). …”

Section: Fluid In "Bone"mentioning

confidence: 99%

The Lattice Boltzmann method and computational analysis of bone dynamics-I

Javed

Sohail

Maqbool

et al. 2017

Complex Adapt Syst Model

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Bone is comprised of an enormously hierarchical construction that promotes transportation of necessary fluids and solids, guaranteeing accurate function and growth. Bone remodeling is a combined process of bone creation and destruction. A number of mathematical models have been developed for the balanced and imbalanced bone remodeling. A brief overview regarding mathematical modeling of bone remodeling is provided. The Lattice Boltzmann method (LBM) has widely been implemented in CFD simulations, and it is becoming more suitable in the application of image processing amongst several others. Mainly, the LBM simulates the communication between synthetic particles dispersed in a lattice. Canaliculi and tortuous channels that have more or less roughly circular structure link among oval bodies identified as lacunae, and are vital to the function of bone. As there is a lack of equipment to inspect flow in channels on the order of measure of canaliculi, so the use of computational methods are more advantageous to give perceptivities into the nature of the flows. In this article, the computational fluid dynamics analysis is descried, using the Lattice Boltzmann method, to examine the result of the microscopic surface roughness of the canalicular wall, which is formed by collagen fibrils, on the flow profiles in the pericellular space.

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Section: Fluid In "Bone"mentioning

confidence: 99%

The Lattice Boltzmann method and computational analysis of bone dynamics-I

Javed

Sohail

Maqbool

et al. 2017

Complex Adapt Syst Model

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“…Once water channels have been carved in the biofilm, we might couple our cellular automata description to the hydrodynamics of the flow as done for biofilms in porous media [33]. This assumes that the deformation of the biomass and the extracellular fluid flow can be computed in a sequential manner, which happens when the biomass behaves as an elastic material or the flow induced deformation of the biomass matrix is negligible [71]. Using order-of-magnitude analysis, Ref.…”

Section: B Water Absorption and Water Channelsmentioning

confidence: 99%

Differential growth of wrinkled biofilms

2015

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Biofilms are antibiotic-resistant bacterial aggregates that grow on moist surfaces and can trigger hospitalacquired infections. They provide a classical example in biology where the dynamics of cellular communities may be observed and studied. Gene expression regulates cell division and differentiation, which affect the biofilm architecture. Mechanical and chemical processes shape the resulting structure. We gain insight into the interplay between cellular and mechanical processes during biofilm development on air-agar interfaces by means of a hybrid model. Cellular behavior is governed by stochastic rules informed by a cascade of concentration fields for nutrients, waste, and autoinducers. Cellular differentiation and death alter the structure and the mechanical properties of the biofilm, which is deformed according to Föppl-Von Kármán equations informed by cellular processes and the interaction with the substratum. Stiffness gradients due to growth and swelling produce wrinkle branching. We are able to reproduce wrinkled structures often formed by biofilms on air-agar interfaces, as well as spatial distributions of differentiated cells commonly observed with B. subtilis.

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“…Finally, one could think to bridge these molecular-modeling techniques with computational studies on biofilm morphology at the mesoscale. These studies are aimed at simulating biofilm growth taking into account variables such as cell mass and volume, nutrients consumption, fluid flow, and events such as biomass decay and biofilm detachment (Kapellos et al, 2010). Such hierarchical multiscale approaches would in principle allow the researchers to investigate AMP diffusion in the biofilm, suggesting ways to circumvent peptide trapping and hence inactivation.…”

Section: Amp Design Assisted By Molecular Modelingmentioning

confidence: 99%

Treatment of microbial biofilms in the post-antibiotic era: prophylactic and therapeutic use of antimicrobial peptides and their design by bioinformatics tools

2014

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The treatment for biofilm infections is particularly challenging because bacteria in these conditions become refractory to antibiotic drugs. The reduced effectiveness of current therapies spurs research for the identification of novel molecules endowed with antimicrobial activities and new mechanisms of antibiofilm action. Antimicrobial peptides (AMPs) have been receiving increasing attention as potential therapeutic agents, because they represent a novel class of antibiotics with a wide spectrum of activity and a low rate in inducing bacterial resistance. Over the past decades, a large number of naturally occurring AMPs have been identified or predicted from various organisms as effector molecules of the innate immune system playing a crucial role in the first line of defense. Recent studies have shown the ability of some AMPs to act against microbial biofilms, in particular during early phases of biofilm development. Here, we provide a review of the antimicrobial peptides tested on biofilms, highlighting their advantages and disadvantages for prophylactic and therapeutic applications. In addition, we describe the strategies and methods for de novo design of potentially active AMPs and discuss how informatics and computational tools may be exploited to improve antibiofilm effectiveness.

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Theoretical modeling of fluid flow in cellular biological media: An overview

Cited by 42 publications

References 116 publications

The Lattice Boltzmann method and computational analysis of bone dynamics-I

The Lattice Boltzmann method and computational analysis of bone dynamics-I

Differential growth of wrinkled biofilms

Treatment of microbial biofilms in the post-antibiotic era: prophylactic and therapeutic use of antimicrobial peptides and their design by bioinformatics tools

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