ArticlePLoS computational biology2008
Dependence of bacterial chemotaxis on gradient shape and adaptation rate.
Article in PLoS computational biology, 2008. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 50 papers.
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Who cites it
50 citing papers in PubMed.
- Article
- Navigating bacterial motility through chemotaxis: from molecular mechanisms to physiological perspectives.Folia microbiologica · 2025Review
- Bacterial network for precise plant stress detection and enhanced crop resilience.BMC bioinformatics · 2025Article
- Disentangling the feedback loops driving spatial patterning in microbial communities.NPJ biofilms and microbiomes · 2025Review
- A Novel Device and Method for Assay of Bacterial Chemotaxis Towards Chemoattractants.Indian journal of microbiology · 2024Article
- Flagellar dynamics reveal fluctuations and kinetic limit in the Escherichia coli chemotaxis network.Scientific reports · 2023Article
- Strong chemotaxis by marine bacteria towards polysaccharides is enhanced by the abundant organosulfur compound DMSP.Nature communications · 2023Article
- Individual-Based Modeling of Spatial Dynamics of Chemotactic Microbial Populations.ACS synthetic biology · 2022Article
- Multiple functions of flagellar motility and chemotaxis in bacterial physiology.FEMS microbiology reviews · 2021Review
- Direct Mapping from Intracellular Chemotaxis Signaling to Single-Cell Swimming Behavior.Biophysical journal · 2020Article
- Multi-bit Boolean model for chemotactic drift ofIET systems biology · 2020Article
- A Multi-Scale Approach to ModelingEntropy (Basel, Switzerland) · 2020Article
- Chemotactic behaviour of Escherichia coli at high cell density.Nature communications · 2019Article
- Effective Exploration Behavior for Chemical-Sensing Robots.Biomimetics (Basel, Switzerland) · 2019Article
- Blue Light Is a Universal Signal forJournal of bacteriology · 2019Article
- Effects of Advective-Diffusive Transport of Multiple Chemoattractants on Motility of Engineered Chemosensory Particles in Fluidic Environments.Entropy (Basel, Switzerland) · 2019Article
- A hydrodynamic-stochastic model of chemotactic ciliated microorganisms.The European physical journal. E, Soft matter · 2019Article
- Behavioral Variability and Phenotypic Diversity in Bacterial Chemotaxis.Annual review of biophysics · 2018Review
- Article
- Drift and Behavior of E. coli Cells.Biophysical journal · 2017Article
Corrections and comments
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Authors and funding
4 authors.
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No grant is acknowledged in the PubMed record.
Abstract
Simulation of cellular behavior on multiple scales requires models that are sufficiently detailed to capture central intracellular processes but at the same time enable the simulation of entire cell populations in a computationally cheap way. In this paper we present RapidCell, a hybrid model of chemotactic Escherichia coli that combines the Monod-Wyman-Changeux signal processing by mixed chemoreceptor clusters, the adaptation dynamics described by ordinary differential equations, and a detailed model of cell tumbling. Our model dramatically reduces computational costs and allows the highly efficient simulation of E. coli chemotaxis. We use the model to investigate chemotaxis in different gradients, and suggest a new, constant-activity type of gradient to systematically study chemotactic behavior of virtual bacteria. Using the unique properties of this gradient, we show that optimal chemotaxis is observed in a narrow range of CheA kinase activity, where concentration of the response regulator CheY-P falls into the operating range of flagellar motors. Our simulations also confirm that the CheB phosphorylation feedback improves chemotactic efficiency by shifting the average CheY-P concentration to fit the motor operating range. Our results suggest that in liquid media the variability in adaptation times among cells may be evolutionary favorable to ensure coexistence of subpopulations that will be optimally tactic in different gradients. However, in a porous medium (agar) such variability appears to be less important, because agar structure poses mainly negative selection against subpopulations with low levels of adaptation enzymes. RapidCell is available from the authors upon request.
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