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Bioconvection, a phenomenon arising from the collective motion of motile microorganisms, plays a crucial role in shaping microbial distributions, fluid dynamics, and bloom formation in aquatic environments. While extensive research has…

Biological Physics · Physics 2025-04-15 Samarendu Biswas , Sachidananda Mahato , Jayabrata Dhar

Bacterial biofilms are among the oldest and most prevalent multicellular life forms on Earth and are increasingly relevant in research areas related to industrial fouling, medicine and biotechnology. The main hurdles to obtaining definitive…

Quantitative Methods · Quantitative Biology 2021-10-20 Mohammad Pousti , MirPouyan Zarabadi , Mehran Abbaszadeh Amirdehi , François Paquet-Mercier , Jesse Greener

Bacterial colonies growing on surfaces are shaped by mechanical stresses transmitted through the community, governed by the balance between cell growth and steric and cell-substrate interactions. Using overdamped dynamics simulations of…

Soft Condensed Matter · Physics 2026-01-14 Samaneh Rahbar , Ludger Santen , Reza Shaebani

Biofilms exposed to flow experience shear stress, which leads to a competitive interaction between the growth and development of a biofilm and shearing. In this study, Pseudonomas fluorescene biofilm was grown in a microfluidic channel and…

Despite the importance that fluid flow plays in transporting and organizing populations, few laboratory systems exist to systematically investigate the impact of advection on their spatial evolutionary dynamics. To address this problem, we…

Soft Condensed Matter · Physics 2019-07-03 Severine Atis , Bryan T. Weinstein , Andrew W. Murray , David R. Nelson

Colonies of bacteria grown on thin agar plate exhibit fractal patterns as a result of adaptation to their environments. The bacterial colony pattern formation is regulated crucially by chemotaxis, the movement of cells along a chemical…

Biological Physics · Physics 2013-05-24 Waipot Ngamsaad , Kannika Khompurngson

When planktonic bacteria adhere together to a surface, they begin to form biofilms, or communities of bacteria. Biofilm formation in a host can be extremely problematic if left untreated, especially since antibiotics can be ineffective in…

Biofilms in porous media critically influence hydraulic properties in environmental and engineered systems. However, a mechanistic understanding of how microbial life controls permeability remains elusive. By combining microfluidics,…

Biological Physics · Physics 2026-05-29 Wenqiao Jiao , David Scheidweiler , Nolwenn Delouche , Alberto Guadagnini , Pietro de Anna

The transition from monolayers to multilayered structures in bacterial colonies is a fundamental step in biofilm development. Observed across different morphotypes and species, this transition is triggered within freely growing bacterial…

Soft Condensed Matter · Physics 2021-03-16 Zhihong You , Daniel J. G. Pearce , Anupam Sengupta , Luca Giomi

The locomotion of microorganisms and spermatozoa in complex viscoelastic fluids is of critical importance in many biological processes such as fertilization, infection, and biofilm formation. Depending on their propulsion mechanisms,…

Soft Condensed Matter · Physics 2021-09-14 Gaojin Li , Eric Lauga , Arezoo M. Ardekani

Thin film growth is investigated in two types of lattice gas models where substrate and film particles are different, expressed by unequal interaction energy parameters. The first is of solid-on-solid type, whereas the second type…

Soft Condensed Matter · Physics 2021-02-17 Eelco Empting , Miriam Klopotek , Alexander Hinderhofer , Frank Schreiber , Martin Oettel

A method combining video imaging in parallel microchannels with a semi-empirical mathematical model provides non-intrusive, high-throughput measurements of time-varying biofilm viscosity. The approach is demonstrated for early growth…

Quantitative Methods · Quantitative Biology 2016-06-16 Francois Paquet-Mercier , Mazeyar Parvinzadeh Gashti , Julien Bellavance , Seyed Mohammad Taghavi , Jesse Greener

The surface of biomaterials used as implants are highly susceptible to bacterial colonization and subsequent infection. The amount of protein adsorption on biomaterials, among other factors, can affect the nature and quality of biofilms…

Biological Physics · Physics 2014-11-20 S Dutta Sinha , Susmita Chatterjee , P. K. Maity , S. Tarafdar , S. P. Moulik

Bacteria in biofilms form complex structures and can collectively migrate within mobile aggregates, which is referred to as swarming. This behavior is influenced by a combination of various factors, including morphological characteristics…

Soft Condensed Matter · Physics 2024-01-19 Bohan Wu-Zhang , Dmitry A. Fedosov , Gerhard Gompper

The dynamics of biofilm lifecycle are deeply influenced by the surrounding environment and the interactions between sessile and planktonic phenotypes. Bacterial biofilms typically develop in three distinct stages: attachment of cells to a…

Analysis of PDEs · Mathematics 2021-07-07 B. D'Acunto , L. Frunzo , V. Luongo , M. R. Mattei , A. Tenore

We study colonies of non-motile, rod-shaped bacteria growing on solid substrates. In our model, bacteria interact purely mechanically, by pushing each other away as they grow, and consume a diffusing nutrient. We show that mechanical…

Biological Physics · Physics 2015-06-15 F. D. C. Farrell , O. Hallatschek , D. Marenduzzo , B. Waclaw

Bacteria are prolific at colonizing diverse surfaces under a widerange of environmental conditions, and exhibit fascinating examples of self-organization across scales. Though it has recently attracted considerable interest, the role of…

Soft Condensed Matter · Physics 2024-03-25 M. T. Khan , J. Cammann , A. Sengupta , E. Renzi , M. G. Mazza

Biological interactions with material surfaces span a wide range of length scales, yet conventional surface measurements often fail to account for scale, limiting the insights they provide for surface engineering. Here, we investigate how…

Microbial flagellates typically inhabit complex suspensions of polymeric material which can impact the swimming speed of motile microbes, filter-feeding of sessile cells, and the generation of biofilms. There is currently a need to better…

Soft Condensed Matter · Physics 2017-11-22 Andrew Kaan Balin , Andreas Zöttl , Julia M. Yeomans , Tyler Shendruk

Bacteria generally live in complicated structures called biofilms, consisting of communicating bacterial colonies and extracellular polymeric substance (EPS). Since biofilms are related to detrimental effects such as infection or antibiotic…

Quantitative Methods · Quantitative Biology 2023-11-07 Fatih Gulec , Andrew W. Eckford
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