Computer simulation study of nutrient-driven bacterial biofilm stratification

• Published in: Journal of the Royal Society interface Vol. 21; no. 215; p. 20230618
• Main Authors: Lobo-Cabrera, Francisco Javier, Herrero, María Del Río, Govantes, Fernando, Cuetos, Alejandro
• Format: Journal Article
• Language: English
• Published: England The Royal Society 01-06-2024
• Subjects: Bacteria - growth & development; Bacteria - metabolism; Bacterial Physiological Phenomena; Biofilms - growth & development; Computer Simulation; Life Sciences–Physics interface; Models, Biological; Nutrients - metabolism; computer simulation; biofilm development; biofilm stratification; individual-based model
• ISSN: 1742-5662; 1742-5689; 1742-5662
• DOI: 10.1098/rsif.2023.0618

Here, employing computer simulation tools, we present a study on the development of a bacterial biofilm from a single starter cell on a flat inert surface overlaid by an aqueous solution containing nutrients. In our simulations, surface colonization involves an initial stage of two-dimensional cell proliferation to eventually transition to three-dimensional growth leading to the formation of biofilm colonies with characteristic three-dimensional semi-ellipsoids shapes. Thus, we have introduced the influence of the nutrient concentration on bacterial growth, and calculated the cell growth rate as a function of nutrient uptake, which in turn depends on local nutrient concentration in the vicinity of each bacterial cell. Our results show that the combination of cell growth and nutrient uptake and diffusion leads to the formation of stratified colonies containing an inner core in which nutrients are depleted and cells cannot grow or divide, surrounded by an outer, shallow crust in which cells have access to nutrients from the bulk medium and continue growing. This phenomenon is more apparent at high uptake rates that enable fast nutrient depletion. Our simulations also predict that the shape and internal structure of the biofilm are largely conditioned by the balance between nutrient diffusion and uptake.