NDLI: A simulation of bacterial communities

Content Provider	IEEE Xplore Digital Library
Author	Ashlock, D. McEachern, A.
Copyright Year	2011
Description	Author affiliation: Department of Mathematics and Statistics at the University of Guelph in Guelph, Ontario, Canada, N1G2W1 (Ashlock, D.; McEachern, A.)
Abstract	This study constructs and tests an agent-based model of bacterial communities with the goal of modeling the observation that the majority of bacteria in nature cannot be cultured. The new field of metagenomics, the direct, mass sequencing of DNA recovered from the environment, is the source of this observation. The hypothesis tested is that bacteria form interdependent communities so that viable levels of energy production are rare in bacteria when they are grown in monoculture. A new game, the metabolism game is introduced. Agents produce energy by playing this game with one another. Studies are run with different number of bacterial species in the simulation. The energy level for viability is set by running simulations with a single bacterial species and then the hypothesis is tested in simulations with multiple bacterial species. Multiple bacterial species are evolved in a novel type of multi-population evolutionary algorithm called a multiple worlds algorithm. The fraction of culturable bacterial agents recovered from the simulation is larger than that found in nature but still quite low, supporting the hypothesis that bacteria may not be culturable because they require the presence of partner species.
Starting Page	1
Ending Page	8
File Size	1549512
Page Count	8
File Format	PDF
ISBN	9781424498963
e-ISBN	9781424498970
DOI	10.1109/CIBCB.2011.5948465
Language	English
Publisher	Institute of Electrical and Electronics Engineers, Inc. (IEEE)
Publisher Date	2011-04-11
Publisher Place	France
Access Restriction	Subscribed
Rights Holder	Institute of Electrical and Electronics Engineers, Inc. (IEEE)
Subject Keyword	Microorganisms Biochemistry Games Communities Biological system modeling Evolutionary computation Genomics
Content Type	Text
Resource Type	Article

Sl.	Authority	Responsibilities	Communication Details
1	Ministry of Education (GoI), Department of Higher Education	Sanctioning Authority	https://www.education.gov.in/ict-initiatives
2	Indian Institute of Technology Kharagpur	Host Institute of the Project: The host institute of the project is responsible for providing infrastructure support and hosting the project	https://www.iitkgp.ac.in
3	National Digital Library of India Office, Indian Institute of Technology Kharagpur	The administrative and infrastructural headquarters of the project	Dr. B. Sutradhar bsutra@ndl.gov.in
4	Project PI / Joint PI	Principal Investigator and Joint Principal Investigators of the project	Dr. B. Sutradhar bsutra@ndl.gov.in Prof. Saswat Chakrabarti will be added soon
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