pcbi.1011303.g003.tif (1.38 MB)
iDynoMiCS 2.0 was capable of simulating large 3D biofilms.
figure
posted on 2024-02-29, 18:54 authored by Bastiaan J. R. Cockx, Tim Foster, Robert J. Clegg, Kieran Alden, Sankalp Arya, Dov J. Stekel, Barth F. Smets, Jan-Ulrich KreftA nitrifying biofilm was initiated with 1,000 Ammonium Oxidizing Organisms (red) and 1,000 Nitrite Oxidizing Organisms (blue) in a 500x500x500 μm domain. Growth kinetics were adopted from Hubaux et al. [49]. Both species produced EPS particles (gray semi-transparent). Agents that dropped below 20% of their division mass as a result of endogenous respiration (maintenance metabolism) became inactive (black). The 175-day biofilm contained 1.02×107 agents (bacteria and EPS particles).
History
Usage metrics
Categories
Keywords
undergone intensive testingsubstantially enhanced easescalability enabling simulationsgraphical user interface10 million agentsspherical agent morphologiessecond test casedifferent models withoutkey new featuresdiv >< pmi dyn c modular idynomics 2new idynomics 20 idynomics 2case studyagent propertiesbased modelsunit testsunit conversionsstronger competitionspecific advantagesshoving algorithmpositive feedbackparticularly suitedorthogonal modulesoften occurmorphology usingmodel specificationmix flexibilitymicrobial communitiesmathematical modelinglocal interactionsincreased performancehighly sensitivehabitable environmentsgrowth strategygrowing numbergiving usersenables researchersdata analysiscooperative individualscompetition outcomescombining experimentsarithmetic functionadding morphologyadaptive behavior0 joins
Licence
Exports
RefWorks
BibTeX
Ref. manager
Endnote
DataCite
NLM
DC