Requirements for rapid plasmid ColE1 copy number adjustments: A mathematical model of inhibition modes and RNA turnover rates

Plasmid

Volumn 39, Issue 3, 1998, Pages 215-234

  Paulsson, Johan ^a   Nordström, Kurt ^a   Ehrenberg, Måns ^a  

^a UPPSALA UNIVERSITY   (Sweden)

Author keywords

ColE1; Plasmid; Regulation; Replication; RNA

Indexed keywords

RNA;

ARTICLE; CELL DIVISION; MATHEMATICAL MODEL; PLASMID; REPLICON; RNA METABOLISM;

EID: 0031968308     PISSN: 0147619X     EISSN: None     Source Type: Journal    
DOI: 10.1006/plas.1998.1338     Document Type: Article

References (51)

1. Ataai M. M., Shuler M. L. Mathematical model for the control of ColE1 type plasmid replication. Plasmid. 16:1986;204-212.
2. Bachmair A., Finley D., Varshavsky A. In vivo half-life of a protein is a function of its amino-terminal residue. Science. 234:1986;179-186.
3. Bremer H., Lin-Chao S. Analysis of the physiological control of replication of ColE1-type plasmids. J. Theor. Biol. 123:1986;453-470.
4. Brendel V., Perelson A. S. Quantitative model of ColE1 plasmid copy number control. J. Mol. Biol. 229:1993;860-872.
5. Brenner M., Tomizawa J. Rom transcript of plasmid ColE1. Nucleic Acids Res. 17:1989;4309-4326.
6. Brenner M., Tomizawa J. Quantitation of ColE1-encoded replication elements. Proc. Natl. Acad. Sci. USA. 88:1991;405-409.
7. Cesareni G., Cornelissen M., Castagnoli L. Control of pMB1 replication: Inhibition of primer formation by Rop requires RNA I. EMBO J. 3:1984;1365-1369.
8. Cesareni G., Muesing M. A., Polisky B. Control of ColE1 DNA replication: Therop. Proc. Natl. Acad. Sci. USA. 79:1982;6313-6317.
9. Chiang C.-S., Bremer H. Stability of pBR322-derived plasmids. Plasmid. 20:1988;207-220.
10. Chiang C.-S., Bremer H. Maintenance of pBR322-derived plasmids without functional RNA I. Plasmid. 26:1991;186-200.
11. Davison J. Mechanism of control of DNA replication and incompatibility in ColE1-type plasmids: A review. Gene. 28:1984;1-15.
12. Ehrenberg M. Hypothesis: Hypersensitive plasmid copy number control for ColE1. Biophys. J. 70:1996;135-145.
13. Ehrenberg M., Kurland C. G. Costs of accuracy determined by a maximal growth rate constraint. Q. Rev. Biophys. 17:1984;45-82.
14. Ehrenberg M., Sverredal A. A model for copy number control of the plasmid R1. J. Mol. Biol. 246:1995;472-485.
15. Foucault M. Madness and Civilization: A History of Insanity in the Age of Reason. 1965;Lowe & Brydone, London. p. 166-172.
16. Itoh T., Tomizawa J. Formation of an RNA primer for initiation of replication of ColE1 DNA by ribonuclease H. Proc. Natl. Acad. Sci. USA. 77:1980;2450-2454.
17. Keasling J. D., Palsson B. O. ColE1 plasmid regulation: A simple kinetic description from a structured model. J. Theor. Biol. 141:1989a;447-461.
18. Keasling J. D., Palsson B. O. On the kinetics of plasmid replication. J. Theor. Biol. 136:1989b;487-492.
19. Lacatena R. M., Banner D. W., Castagnoli L., Cesareni G. Control of initiation of pMB1 replication: Purified Rop protein and RNA I affect primer formation in vitro. Cell. 37:1984;1009-1014.
20. Lacatena R. M., Cesareni G. Base pairing of RNA I with its complementary sequence in the primer precursor inhibits ColE1 replication. Nature. 294:1981;623-626.
21. Lin-Chao S., Bremer H. Effect of the bacterial growth rate on replication control of plasmid pBR322 inEscherichia coli. Mol. Gen. Genet. 203:1986;143-149.
22. Lin-Chao S., Bremer H. Activities of the RNA I and RNA II promoters of plasmid pBR322. J. Bacteriol. 169:1987;1217-1222.
23. Lin-Chao S., Cohen S. N. The rate of processing and degradation of antisense RNA I regulates the replication of ColE1-type plasmids in vivo. Cell. 65:1991;1233-1242.
24. Masukata H., Tomizawa J. Control of primer formation of ColE1 plasmid replication: Conformational change of the primer transcript. Cell. 44:1986;125-136.
25. Merlin S., Polisky B. Analysis of establishment phase replication of the plasmid ColE1. J. Mol. Biol. 230:1992;137-150.
26. Merlin S., Polisky B. Assessment of quantitative models for plasmid ColE1 copy number control. J. Mol. Biol. 248:1995;211-219.
27. Morita M., Oka A. The structure of a transcriptional unit on colicin E1 plasmid. Eur. J. Biochem. 97:1979;435-443.
28. Nordström K. Control of plasmid replication: Theoretical considerations and practical solutions. Helinski D. R., Cohen S. N., Clewell D. B., Jackson D. A., Hollaender A. Plasmids in Bacteria. 1985;189-214 Plenum, New York.
29. Nordström K., Aagaard-Hansen H. Maintenance of bacterial plasmids: Comparison of theoretical results with plasmid R1 inEscherichia coli. Mol. Gen. Genet. 197:1984;1-7.
30. Nordström K., Molin S., Light J. Control of replication of bacterial plasmids: Genetics, molecular biology, and physiology of the plasmid R1 system. Plasmid. 12:1984;71-90.
31. Nordström K., Uhlin B. E. Runaway-replication plasmids as tools to produce large quantities of proteins from cloned genes in bacteria. Biotechnology. 10:1992;661-666.
32. Nordström K., Wagner E. G. H. Kinetic aspects of control of plasmid replication by antisense RNA. Trends Biochem. Sci. 19:1994;294-300.
33. Paulsson J., Ehrenberg M. Trade-off between segregational stability and metabolic burden - A mathematical model of plasmid ColE1 replication control. J. Mol. Biol. 1998.
34. Perelson A. S., Brendel V. Kinetics of complementary RNA-RNA interaction involved in plasmid ColE1 copy number control. J. Mol. Biol. 208:1989;245-255.
35. Pritchard R. H., Barth P. T., Collins J. Control of DNA synthesis in bacteria. Symp. Soc. Gen. Microbiol. 19:1969;263-297.
36. Proctor G. N. Mathematics of microbial plasmid instability and subsequent differential growth of plasmid-free and plasmid-containing cells, relevant to the analysis of experimental colony number data. Plasmid. 32:1994;101-130.
37. Rosenfeld R., Grover N. B. Control of mini-R1 plasmid replication: A computer simulation. Plasmid. 29:1993;94-116.
38. Som T., Tomizawa J. Regulatory regions of ColE1 that are involved in determination of plasmid copy number. Proc. Natl. Acad. Sci. USA. 80:1983;3232-3236.
39. Summers D. K. Plasmid replication and its control. The Biology of Plasmids. 1996;Blackwell Science, Oxford. p. 31-64.
40. Summers D. K., Beton C. W., Withers H. L. Multicopy plasmid instability: The dimer catastrophe hypothesis. Mol. Microbiol. 36:1993;1031-1038.
41. Summers D. K., Sherratt D. J. Multimerization of high copy number mutants causes instability: ColE1 encodes a determinant essential for plasmid monomerization and stability. Cell. 36:1984;1097-1103.
42. Tamm J., Polisky B. Characterization of the ColE1 primer-RNA1 complex: Analysis of a domain of ColE1 RNA1 necessary for its interaction with primer RNA. Proc. Natl. Acad. Sci. USA. 82:1985;2257-2261.
43. Tomizawa J. Control of ColE1 plasmid replication: The process of binding RNA I to the primer transcript. Cell. 38:1984;861-870.
44. Tomizawa J. Control of ColE1 replication: Initial interaction of RNA I and the primer transcript is reversible. Cell. 40:1985;527-535.
45. Tomizawa J. Control of ColE1 replication: Binding of RNA I to RNA II and inhibition of primer formation. Cell. 47:1986;89-97.
46. Tomizawa J. Control of ColE1 plasmid replication: Intermediates in the binding of RNA I and RNA II. J. Mol. Biol. 212:1990a;683-694.
47. Tomizawa J. Control of ColE1 plasmid replication: Interaction of Rom protein with an unstable complex formed by RNA I and RNA II. J. Mol. Biol. 212:1990b;695-708.
48. Tomizawa J., Itoh T. Plasmid ColE1 incompatibility determined by interaction of RNA I with primer transcript. Proc. Natl. Acad. Sci. USA. 78:1981;6096-6100.
49. Tomizawa J., Itoh T., Selzer G., Som T. Inhibition of ColE1 RNA primer formation by a plasmid-specified small RNA. Proc. Natl. Acad. Sci. USA. 78:1981;1421-1425.
50. Tomizawa J., Som T. Control of ColE1 plasmid replication: Enhancement of binding of RNA I to the primer transcript by the Rom protein. Cell. 38:1984;871-878.
51. Twigg A. J., Sherratt D. Trans. Nature. 283:1980;216-218.