Simulation of bacterial swimming dynamics

Description:

Summary[edit] Description: English: Simulation configuration of Serratia marcescens in BNSim and single particle tracking of S. marcescens during experiments. (a) In case 1 for simulation in BNSim, a cubic environment with dimensions 5000 × 5000 × 5000 µm3 has been considered. The whole environment subdivided into 106 smaller cubes, each with a size of 50 × 50 × 50 µm3. We consider a linear gradient (10−4 mM µm−1) of chemoattractant (l-aspartate) only in the y-direction and no gradient in other directions. (b) In case 2 for simulation in BNSim, we consider the same configuration as in case 1 for bacteria and the environment. We only changed the gradient of chemoattractant in the environment. In this case, we consider a linear gradient of chemoattractant (l-aspartate) from the injection location to the targets, meaning that there is a linear gradient in 3 different dimensions. (c) Single particle tracking of S. marcescens in an in vitro environment with dimensions of 10000 × 500 × 150 µm3 with linear gradient (10−4 mM µm−1) of chemoattractant (l-aspartate) in the second direction (y-direction). Date: 12 July 2017. Source: [1] doi:10.6084/m9.figshare.c.3811489. Author: Hana Koorehdavoudi, Paul Bogdan, Guopeng Wei, Radu Marculescu, Jiang Zhuang, Rika Wright Carlsen and Metin Sitti.