Jove
Visualize
Contact Us
JoVE
x logofacebook logolinkedin logoyoutube logo
ABOUT JoVE
OverviewLeadershipBlogJoVE Help Center
AUTHORS
Publishing ProcessEditorial BoardScope & PoliciesPeer ReviewFAQSubmit
LIBRARIANS
TestimonialsSubscriptionsAccessResourcesLibrary Advisory BoardFAQ
RESEARCH
JoVE JournalMethods CollectionsJoVE Encyclopedia of ExperimentsArchive
EDUCATION
JoVE CoreJoVE BusinessJoVE Science EducationJoVE Lab ManualFaculty Resource CenterFaculty Site
Terms & Conditions of Use
Privacy Policy
Policies

Related Concept Videos

Gene Regulation in Microbial Communities: Quorum Sensing01:28

Gene Regulation in Microbial Communities: Quorum Sensing

Quorum sensing is a mechanism of bacterial communication that enables coordinated gene expression in response to changes in population density. This facilitates collective behaviors that enhance survival, resource acquisition, and ecological adaptation. This process relies on small signaling molecules called autoinducers that accumulate as bacterial populations grow. When a critical threshold concentration of autoinducers is reached, bacterial cells collectively modify gene expression,...
Bacterial Signaling01:30

Bacterial Signaling

Bacterial signaling can occur within bacteria (intracellular) or between bacteria (intercellular). At times, a group of bacteria behaves like a community. To achieve this, they engage in quorum sensing, the perception of higher cell density that causes changes in gene expression. Quorum sensing involves both extracellular and intracellular signaling. The signaling cascade starts with a molecule called an autoinducer (AI). Individual bacteria produce AIs that move out of the bacterial cell...
Biofilms01:29

Biofilms

Biofilms are complex communities of microorganisms encased in a self-produced extracellular polysaccharide matrix attached to surfaces. These microbial consortia can include single or multiple species, providing enhanced survival benefits by forming organized, multilayered structures.The formation of biofilms occurs through four key stages: attachment, colonization, development, and dispersal.During attachment, free-swimming planktonic cells adhere to a surface, often facilitated by...
Operon Model01:23

Operon Model

The operon model represents a fundamental mechanism of gene regulation in prokaryotes, enabling coordinated expression of genes involved in related metabolic or functional pathways. Operons consist of structural genes, a promoter, and an operator, with transcription regulated by repressors, activators, and small effector molecules.Structure and Function of OperonsAn operon is a cluster of structural genes transcribed together under the control of a single promoter. The promoter region...

You might also read

Related Articles

Articles linked to this work by shared authors, journal, and citation graph.

Sort by
Same author

Biokinetic modelling of the exhalation of <sup>219</sup>Rn gas and its airborne progeny from patients undergoing treatment with <sup>223</sup>Ra-dichloride and effective dose estimation for caregivers.

Radiation and environmental biophysics·2026
Same author

Modeling bacterial growth and Allee effect via Allen-Cahn theoretical framework.

Scientific reports·2025
Same author

β-Carotene alleviates substrate inhibition caused by asymmetric cooperativity.

Nature communications·2025
Same author

Predicting resistance and pseudoprogression: are minimalistic immunoediting mathematical models capable of forecasting checkpoint inhibitor treatment outcomes in lung cancer?

Mathematical biosciences·2024
Same author

A phase-field model for non-small cell lung cancer under the effects of immunotherapy.

Mathematical biosciences and engineering : MBE·2023
Same author

Data suggested hospitalization as critical indicator of the severity of the COVID-19 pandemic, even at its early stages.

Mathematical biosciences and engineering : MBE·2023

Related Experiment Video

Updated: Jul 12, 2026

Concurrent Quantification of Cellular and Extracellular Components of Biofilms
10:18

Concurrent Quantification of Cellular and Extracellular Components of Biofilms

Published on: December 10, 2013

Hybrid cellular automaton-based model for quorum sensing-controlled biofilm evolution.

Samvel Sarukhanian1, Christina Kuttler2, Anna Maslovskaya1

  • 1Research Center of the Artificial Intelligence Institute, Innopolis University, 1, Universitetskaya Str., Innopolis, 420500, Russia.

Computers in Biology and Medicine
|July 10, 2026
PubMed
Summary

This study introduces a hybrid computational model for simulating bacterial biofilms, revealing how nutrient availability and quorum sensing influence their structure and growth. The model provides a mechanistic tool for understanding biofilm dynamics and antimicrobial tolerance.

Keywords:
Bacterial biofilmCellular automatonDiscrete reaction-diffusion modelIn silico studyQuorum sensingSimulation of bacterial growth

More Related Videos

A Semi-quantitative Approach to Assess Biofilm Formation Using Wrinkled Colony Development
11:17

A Semi-quantitative Approach to Assess Biofilm Formation Using Wrinkled Colony Development

Published on: June 7, 2012

Anti-virulent Disruption of Pathogenic Biofilms using Engineered Quorum-quenching Lactonases
07:47

Anti-virulent Disruption of Pathogenic Biofilms using Engineered Quorum-quenching Lactonases

Published on: January 1, 2016

Related Experiment Videos

Last Updated: Jul 12, 2026

Concurrent Quantification of Cellular and Extracellular Components of Biofilms
10:18

Concurrent Quantification of Cellular and Extracellular Components of Biofilms

Published on: December 10, 2013

A Semi-quantitative Approach to Assess Biofilm Formation Using Wrinkled Colony Development
11:17

A Semi-quantitative Approach to Assess Biofilm Formation Using Wrinkled Colony Development

Published on: June 7, 2012

Anti-virulent Disruption of Pathogenic Biofilms using Engineered Quorum-quenching Lactonases
07:47

Anti-virulent Disruption of Pathogenic Biofilms using Engineered Quorum-quenching Lactonases

Published on: January 1, 2016

Area of Science:

  • Microbiology
  • Computational Biology
  • Biophysics

Background:

  • Biofilm spatial organization impacts antimicrobial tolerance and persistence.
  • Understanding these dynamics requires advanced computational modeling.
  • Quorum sensing plays a crucial role in biofilm development and behavior.

Purpose of the Study:

  • To develop a novel hybrid computational framework for discrete-in-space dynamical modeling of bacterial biofilms.
  • To investigate the interplay between quorum sensing, nutrient availability, and biofilm morphology.
  • To provide a mechanistic simulation tool for future AI-assisted studies.

Main Methods:

  • A hybrid approach combining a cellular automaton for biofilm morphology and discrete reaction-diffusion equations for nutrient and signaling molecule distribution.
  • Incorporation of a quorum sensing feedback mechanism linking signaling molecule concentration to biofilm spreading.
  • Development in C# on the Unity platform with source code and executable release on Zenodo.

Main Results:

  • The model reproduces distinct biofilm growth regimes, from sparse colonies to compact biofilms.
  • A two-parameter analysis shows nutrient availability modulates the effective quorum sensing activation threshold.
  • Simulated AHL (acyl-homoserine lactone) profiles and population dynamics show biological plausibility compared to experimental data.

Conclusions:

  • The hybrid computational framework is a viable mechanistic tool for studying biofilm morphology.
  • Quorum sensing and nutrient limitation jointly shape biofilm structure.
  • The model provides a foundation for AI-assisted workflows in biofilm research, including parameter calibration and solver acceleration.