A Scalable Parallel Framework for Multicellular Communication in Bacterial Quorum Sensing
Certain species of bacteria are capable of communicating through a mechanism called Quorum Sensing (QS) wherein they release and sense signaling molecules, called autoinducers, to and from the environment. Despite stochastic fluctuations, bacteria gradually achieve coordinated gene expression through QS, which in turn, help them better adapt to environmental adversities. Existing sequential approaches for modeling information exchange via QS for large cell populations are time and computational resource intensive, because the advancement in simulation time becomes significantly slower with the increase in molecular concentration. This paper presents a scalable parallel framework for modeling multicellular communication. Simulations show that our framework accurately models the molecular concentration dynamics of QS system, yielding better speed-up and CPU utilization than the existing sequential model that uses the exact Gillespie algorithm. We also discuss how our framework accommodates evolving population due to cell birth, death and heterogeneity due to noise. Furthermore, we analyze the performance of our framework vis-á-vis the effects of its data sampling interval and Gillespie computation time. Finally, we validate the scalability of the proposed framework by modeling population size up to 2000 bacterial cells.
S. Roy et al., "A Scalable Parallel Framework for Multicellular Communication in Bacterial Quorum Sensing," Proceedings of the 11th International Conference on Bio-Inspired Information and Communications Technologies (2019, Pittsburgh, PA), vol. 289, pp. 181 - 194, Springer, Mar 2019.
The definitive version is available at https://doi.org/10.1007/978-3-030-24202-2_14
11th International Conference on Bio-Inspired Information and Communications Technologies, BICT (2019: Mar. 13-14, Pittsburgh, PA)
Chemical and Biochemical Engineering
Intelligent Systems Center
Second Research Center/Lab
Center for High Performance Computing Research
Keywords and Phrases
Autoinducer; Gillespie; Multicellular system; Noise analysis; Population evolution; Quorum Sensing; Scalability
International Standard Book Number (ISBN)
International Standard Serial Number (ISSN)
Article - Conference proceedings
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14 Mar 2019