Literature DB >> 25808342

Multicomponent model of deformation and detachment of a biofilm under fluid flow.

Giordano Tierra1, Juan P Pavissich2, Robert Nerenberg3, Zhiliang Xu4, Mark S Alber5.   

Abstract

A novel biofilm model is described which systemically couples bacteria, extracellular polymeric substances (EPS) and solvent phases in biofilm. This enables the study of contributions of rheology of individual phases to deformation of biofilm in response to fluid flow as well as interactions between different phases. The model, which is based on first and second laws of thermodynamics, is derived using an energetic variational approach and phase-field method. Phase-field coupling is used to model structural changes of a biofilm. A newly developed unconditionally energy-stable numerical splitting scheme is implemented for computing the numerical solution of the model efficiently. Model simulations predict biofilm cohesive failure for the flow velocity between [Formula: see text] and [Formula: see text] m s(-1) which is consistent with experiments. Simulations predict biofilm deformation resulting in the formation of streamers for EPS exhibiting a viscous-dominated mechanical response and the viscosity of EPS being less than [Formula: see text]. Higher EPS viscosity provides biofilm with greater resistance to deformation and to removal by the flow. Moreover, simulations show that higher EPS elasticity yields the formation of streamers with complex geometries that are more prone to detachment. These model predictions are shown to be in qualitative agreement with experimental observations.
© 2015 The Author(s) Published by the Royal Society. All rights reserved.

Entities:  

Keywords:  biofilm; continuum mechanics; detachment; energetic variation; phase-field model; viscoelasticity

Mesh:

Substances:

Year:  2015        PMID: 25808342      PMCID: PMC4424679          DOI: 10.1098/rsif.2015.0045

Source DB:  PubMed          Journal:  J R Soc Interface        ISSN: 1742-5662            Impact factor:   4.118


  34 in total

Review 1.  Biofilms as complex differentiated communities.

Authors:  P Stoodley; K Sauer; D G Davies; J W Costerton
Journal:  Annu Rev Microbiol       Date:  2002-01-30       Impact factor: 15.500

2.  Commonality of elastic relaxation times in biofilms.

Authors:  T Shaw; M Winston; C J Rupp; I Klapper; P Stoodley
Journal:  Phys Rev Lett       Date:  2004-08-24       Impact factor: 9.161

Review 3.  Recent advances in mechanical characterisation of biofilm and their significance for material modelling.

Authors:  Markus Böl; Alexander E Ehret; Antonio Bolea Albero; Jan Hellriegel; Rainer Krull
Journal:  Crit Rev Biotechnol       Date:  2012-05-29       Impact factor: 8.429

4.  Role of cohesion in the material description of biofilms.

Authors:  I Klapper; J Dockery
Journal:  Phys Rev E Stat Nonlin Soft Matter Phys       Date:  2006-09-05

5.  Multicomponent hydrodynamic model for heterogeneous biofilms: two-dimensional numerical simulations of growth and interaction with flows.

Authors:  Brandon Lindley; Qi Wang; Tianyu Zhang
Journal:  Phys Rev E Stat Nonlin Soft Matter Phys       Date:  2012-03-09

6.  Modelling mechanical characteristics of microbial biofilms by network theory.

Authors:  Alexander E Ehret; Markus Böl
Journal:  J R Soc Interface       Date:  2012-11-08       Impact factor: 4.118

7.  A methodology to assess the effects of biofilm roughness on substrate fluxes using image analysis, substrate profiling, and mathematical modelling.

Authors:  J P Pavissich; M Aybar; K J Martin; R Nerenberg
Journal:  Water Sci Technol       Date:  2014       Impact factor: 1.915

Review 8.  Mini-review: convection around biofilms.

Authors:  Philip S Stewart
Journal:  Biofouling       Date:  2012       Impact factor: 3.209

9.  The role of the biofilm matrix in structural development.

Authors:  N G Cogan; James P Keener
Journal:  Math Med Biol       Date:  2004-06       Impact factor: 1.854

10.  Synthesis and patterning of tunable multiscale materials with engineered cells.

Authors:  Allen Y Chen; Zhengtao Deng; Amanda N Billings; Urartu O S Seker; Michelle Y Lu; Robert J Citorik; Bijan Zakeri; Timothy K Lu
Journal:  Nat Mater       Date:  2014-03-23       Impact factor: 43.841

View more
  15 in total

Review 1.  Continuum and discrete approach in modeling biofilm development and structure: a review.

Authors:  M R Mattei; L Frunzo; B D'Acunto; Y Pechaud; F Pirozzi; G Esposito
Journal:  J Math Biol       Date:  2017-07-24       Impact factor: 2.259

2.  Response of Simulated Drinking Water Biofilm Mechanical and Structural Properties to Long-Term Disinfectant Exposure.

Authors:  Yun Shen; Conghui Huang; Guillermo L Monroy; Dao Janjaroen; Nicolas Derlon; Jie Lin; Rosa Espinosa-Marzal; Eberhard Morgenroth; Stephen A Boppart; Nicholas J Ashbolt; Wen-Tso Liu; Thanh H Nguyen
Journal:  Environ Sci Technol       Date:  2016-01-26       Impact factor: 9.028

3.  Model predictions of deformation, embolization and permeability of partially obstructive blood clots under variable shear flow.

Authors:  Shixin Xu; Zhiliang Xu; Oleg V Kim; Rustem I Litvinov; John W Weisel; Mark Alber
Journal:  J R Soc Interface       Date:  2017-11       Impact factor: 4.118

4.  Spatiotemporal establishment of dense bacterial colonies growing on hard agar.

Authors:  Mya R Warren; Hui Sun; Yue Yan; Jonas Cremer; Bo Li; Terence Hwa
Journal:  Elife       Date:  2019-03-11       Impact factor: 8.140

5.  Three-phase Model of Visco-elastic Incompressible Fluid Flow and its Computational Implementation.

Authors:  Shixin Xu; Mark Alber; Zhiliang Xu
Journal:  Commun Comput Phys       Date:  2018-10-01       Impact factor: 3.246

6.  Combined electromechanically driven pulsating flow of nonlinear viscoelastic fluids in narrow confinements.

Authors:  Vishal Kumar; Joydeb Mukherjee; Sudipta Kumar Sinha; Uddipta Ghosh
Journal:  J R Soc Interface       Date:  2022-04-06       Impact factor: 4.118

7.  Extracellular Polymeric Matrix Production and Relaxation under Fluid Shear and Mechanical Pressure in Staphylococcus aureus Biofilms.

Authors:  Jiapeng Hou; Deepak H Veeregowda; Betsy van de Belt-Gritter; Henk J Busscher; Henny C van der Mei
Journal:  Appl Environ Microbiol       Date:  2017-12-15       Impact factor: 4.792

8.  Non-invasive Inference of Thrombus Material Properties with Physics-Informed Neural Networks.

Authors:  Minglang Yin; Xiaoning Zheng; Jay D Humphrey; George Em Karniadakis
Journal:  Comput Methods Appl Mech Eng       Date:  2020-12-22       Impact factor: 6.756

9.  Effects of water flow on submerged macrophyte-biofilm systems in constructed wetlands.

Authors:  Bing Han; Songhe Zhang; Peifang Wang; Chao Wang
Journal:  Sci Rep       Date:  2018-02-08       Impact factor: 4.379

10.  A three-dimensional phase-field model for multiscale modeling of thrombus biomechanics in blood vessels.

Authors:  Xiaoning Zheng; Alireza Yazdani; He Li; Jay D Humphrey; George E Karniadakis
Journal:  PLoS Comput Biol       Date:  2020-04-28       Impact factor: 4.475

View more

北京卡尤迪生物科技股份有限公司 © 2022-2023.