BacSim, a simulator for individual-based modelling of bacterial colony growth

Microbiology

Volumn 144, Issue 12, 1998, Pages 3275-3287

  Kreft, Jan Ulrich ^a   Booth, Ginger ^b   Wimpenny, Julian W T ^a  

^a CARDIFF UNIVERSITY   (United Kingdom)

^b YALE UNIVERSITY   (United States)

Author keywords

Colony growth; Growth synchrony; Individual based modelling; Spatial heterogeneity

Indexed keywords

ARTICLE; BACTERIAL GROWTH; BACTERIAL METABOLISM; BACTERIUM COLONY; BIOFILM; CELL DEATH; CELL DIVISION; CELL SIZE; DIFFUSION; ESCHERICHIA COLI; GROWTH RATE; MICHAELIS MENTEN KINETICS; MODEL; NONHUMAN; PRIORITY JOURNAL; SIMULATOR;

ESCHERICHIA COLI;

EID: 0032436318     PISSN: 13500872     EISSN: None     Source Type: Journal    
DOI: 10.1099/00221287-144-12-3275     Document Type: Article

References (15)

1. Adam, G., Läuger, P. & Stark, G. (1977). Physikalische Chemie und Biophysik. Berlin: Springer.
2. Ben-Jacob, E., Schochet, O., Tenenbaum, A., Cohen, I., Czirok, A. & Vicsek, T. (1994). Generic modeling of cooperative growth-patterns in bacterial colonies. Nature 368, 46-49.
3. Blumenthal, L. K. & Zahler, S. A. (1962). Index for measurement of synchronization of cell populations. Science 135, 724.
4. Booth, G. (1997). Gecko: a continuous 2-D world for ecological modeling. Artif Life 3, 147-163.
5. Button, D. K. (1993). Nutrient-limited microbial growth kinetics: overview and recent advances. Antonie Leeuwenhoek 63, 225-235.
6. Cooper, S. (1991). Bacterial Growth and Division. San Diego: Academic Press.
7. Davey, H. M. & Kell, D. B. (1996). Flow cytometry and cell sorting of heterogeneous microbial populations : the importance of single-cell analyses. Microbiol Rev 60, 641-696.
8. DeAngelis, D. L. & Gross, L. J. (1992). Individual-based Models and Approaches in Ecology: Populations, Communities, and Ecosystems. New York: Chapman & Hall.
9. Domach, M. M., Leung, S. K., Cahn, R. E., Cocks, G. G. & Shuler, M. L. (1984). Computer model for glucose-limited growth of a single cell of Escherichia coli B/r-A. Biotechnol Bioeng 26, 203-216.
10. Donachie, W. D. (1968). Relationship between cell size and time of initiation of DNA replication. Nature 219, 1077-1079.
11. Donachie, W. D. & Robinson, A.C. (1996). Cell division: parameter values and the process. In Escherichia coli and Salmonella typhimurium: Cellular and Molecular Biology, 2nd edn, pp. 1578-1593. Edited by F. C. Neidhardt and others. Washington, DC: American Society for Microbiology.
12. Shuler, M. L., Leung, S. K. & Dick, C. C. (1979). A mathematical model for the growth of a single bacterial cell. Ann N Y Acad Sci 326, 35-55.
13. ATP and maintenance energy as biologically interpretable phenomena. Annu Rev Microbiol 38, 459-486.
14. Wimpenny, J. W. T. (1992). Microbial systems: patterns in time and space. Adv Microb Ecol 12, 469-522.
15. Wimpenny, J. W. T. & Colasanti, R. (1997). A unifying hypothesis for the structure of microbial biofilms based on cellular automaton models. FEMS Microbiol Ecol 22, 1-16.