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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)
  • Satyaki Roy
  • Mohammad Aminul Islam
  • Dipak Barua, Missouri University of Science and Technology
  • Sajal K. Das, Missouri University of Science and Technology
Abstract

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.

Meeting Name
11th International Conference on Bio-Inspired Information and Communications Technologies, BICT (2019: Mar. 13-14, Pittsburgh, PA)
Department(s)
Chemical and Biochemical Engineering
Second Department
Computer Science
Research Center/Lab(s)
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)
978-303024201-5
Document Type
Article - Conference proceedings
Document Version
Citation
File Type
text
Language(s)
English
Rights
© 2019 ICST Institute for Computer Sciences, Social Informatics and Telecommunications Engineering, All rights reserved.
Publication Date
3-14-2019
Publication Date
14 Mar 2019
Citation Information
Satyaki Roy, Mohammad Aminul Islam, Dipak Barua and Sajal K. Das. "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 (2019) p. 181 - 194 ISSN: 1867-8211; 1867-822X
Available at: http://works.bepress.com/sajal-das/159/