Rule-based modelling of conjugative plasmid transfer and incompatibility

BioSystems

Volumn 91, Issue 1, 2008, Pages 201-215

  Gregory, R ^a   Saunders, J R ^a   Saunders, V A ^b  

^a UNIVERSITY OF LIVERPOOL   (United Kingdom)

^b LIVERPOOL JOHN MOORES UNIVERSITY   (United Kingdom)

Author keywords

Antibiotic; Bacteria; Horizontal gene transfer; Incompatibility; Individual based model; Plasmid

Indexed keywords

ANTIBIOTIC AGENT;

ADAPTATION; ADAPTIVE RADIATION; ANTIBIOTIC RESISTANCE; BACTERIUM; BEHAVIOR; EVOLUTION; GENE TRANSFER; INCOMPATIBILITY; INDIVIDUAL-BASED MODEL; MICROBIAL COMMUNITY; PLASMID;

ANTIBIOTIC RESISTANCE; ANTIBIOTIC SENSITIVITY; ARTICLE; BACTERIAL CELL; BACTERIAL GENETICS; BACTERIAL SURVIVAL; CONJUGATION; GENE TRANSFER; GENETIC INCOMPATIBILITY; MICROBIAL POPULATION DYNAMICS; MODEL; NONHUMAN; R PLASMID; SIMULATION;

BACTERIA (MICROORGANISMS);

EID: 37349050613     PISSN: 03032647     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.biosystems.2007.09.003     Document Type: Article

References (27)

1. Actis L.A., Tolmasky M.E., and Crosa J.H. Bacterial plasmids: replication of extrachromosomal genetic elements encoding resistance to antimicrobial compounds. Front. Biosci. 3 (1998) d43-d62
2. Barkay T., and Smets B.F. Horizontal gene flow in microbial communities. Am. Soc. Microbiol. News 71 (2005) 412-419
3. Basta T., Keck A., Klein J., and Stolz A. Detection and characterization of conjugative degradative plasmids in xenobiotic-degrading Sphingomonas strains. J. Bacteriol. 186 (2004) 3862-3872
4. Berg H.C. Motile behavior of bacteria. Phys. Today 53 1 (2000) 24-29
5. Dahlberg C., and Chao L. Amelioration of the cost of conjugative plasmid carriage in Escherichia coli. Genetics 165 (2003) 1641-1649
6. Davey M.E., and O'Toole G.A. Microbial biofilms: from ecology to molecular genetics. Microbiol. Mol. Biol. Rev. 64 (2000) 847-867
7. DeNap J.C.B., Thomas J.R., Musk D.J., and Hergenrother P.J. Combating drug-resistant bacteria: small molecule mimics of plasmid incompatibility as antiplasmid compounds. J. Am. Chem. Soc. 126 (2004) 15402-15404
8. Freter R., Freter R.R., and Brickner H. Experimental and mathematical models of Escherichia coli plasmid transfer in vitro and in vivo. Infect. Immun. 39 (1983) 6084
9. Frost L., Leplae R., Summers A.O., and Toussaint A. Mobile genetic elements: the agents of open source evolution. Nat. Rev. Microbiol. 3 (2005) 722-732
10. Ghigo J.-M. Natural conjugative plasmids induce bacterial biofilm development. Nature 412 (2001) 442-445
11. Ginovart M., Lopez D., and Valls J. INDISIM, an individual based discrete simulation model to study bacterial cultures. J. Theor. Biol. 214 (2002) 305-319
12. Gregory R., Saunders J.R., and Saunders V.A. The Paton individual-based model legacy. Biosystems 85 (2006) 46-54
13. Gregory, R., Saunders, V.A., Saunders, J.R., 2007. Rule-based computing system of microbial interactions and communications: evolution in virtual bacterial populations. BioSystems., doi:10.1016/j.biosystems.2007.09.002, in press.
14. Hawkey P.M., and Munday C.J. Multiple resistance in Gram-negative bacteria. Rev. Med. Microbiol. 15 (2004) 51-61
15. Hayes F. Toxins-antitoxins: plasmid maintenance, programmed cell death, and cell cycle arrest. Science 301 (2003) 1496-1499
16. Kohiyama M., Hiraga S., Matic I., and Radman M. Bacterial sex: playing voyeurs 50 years later. Science 301 (2003) 802-803
17. Kreft J.U., Booth G., and Wimpenny J.W. BacSim, a simulator for individual-based modelling of bacterial colony growth. Microbiology 144 (1998) 3275-3287
18. Licht T.R., Christensen B.B., Krogfelt K.A., and Molin S. Plasmid transfer in the animal intestine and other dynamic bacterial populations: the role of community structure and environment. Microbiology 145 (1999) 2615-2622
19. Novick R.P. Plasmid incompatibility. Microbiol. Rev. 51 (1987) 381-395
20. Ochman H., Lawrence J.G., and Groisman E.A. Lateral gene transfer and the nature of bacterial innovation. Nature 405 (2000) 299-304
21. Osborn A.M., da Silva Tatley F.M., Steyn L.M., Pickup R.W., and Saunders J.R. Mosaic plasmids and mosaic replicons: evolutionary lessons from the analysis of genetic diversity in IncFII-related replicons. Microbiology 146 (2000) 2267-2275
22. O'Toole G.A., Kaplan H., and Kolter R. Biofilm formation as microbial development. Annu. Rev. Microbiol. 54 (2000) 4979
23. Prats C., Lopez D., Giro A., Ferrer J., and Valls J. Individual-based modelling of bacterial cultures to study the microscopic causes of the lag phase. J. Theor. Biol. 241 (2006) 939-953
24. Shaw D.R., and Cabelli V.J. R-plasmid transfer frequencies from environmental isolates of Escherichia coli to laboratory and fecal strains. Appl. Environ. Microbiol. 40 (1980) 756-764
25. Sørensen S.J., Bailey M., Hansen L.H., Kroer N., and Wuertz S. Studying plasmid horizontal transfer in situ: a critical review. Nat. Rev., Microbiol. 3 (2005) 700-710
26. Thomas C.M., and Nielsen K.M. Mechanisms of, and barriers to, horizontal gene transfer between bacteria. Nat. Rev., Microbiol. 3 (2005) 711-721
27. Waters V.L. Conjugative transfer in the dissemination of Beta-lactam and aminoglycoside resistance. Front. Biosci. 4 (1999) 433-456