Eclipse-Synchrony Relationship in Escherichia coli Strains with Mutations Affecting Sequestration, Initiation of Replication and Superhelicity of the Bacterial Chromosome

Journal of Molecular Biology

Volumn 334, Issue 5, 2003, Pages 919-931

  Olsson, Jan A ^a   Nordström, Kurt ^a   Hjort, Karin ^b   Dasgupta, Santanu ^a  

^a UPPSALA UNIVERSITY   (Sweden)

^b UPPSALA UNIVERSITY   (Sweden)

Author keywords

DnaA; E. coli chromosome replication; Eclipse period; Sequestration; Synchrony

Indexed keywords

DNA;

ARTICLE; BACTERIAL CHROMOSOME; BACTERIAL GENE; BACTERIAL MUTATION; BACTERIAL STRAIN; CHROMOSOME REPLICATION; DENSITY GRADIENT CENTRIFUGATION; DNA SUPERCOILING; ESCHERICHIA COLI; FLOW CYTOMETRY; NONHUMAN; PRIORITY JOURNAL; PROTEIN FUNCTION; TRANSCRIPTION INITIATION SITE; WILD TYPE;

BACTERIA (MICROORGANISMS); ESCHERICHIA COLI;

EID: 0344441713     PISSN: 00222836     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.jmb.2003.10.029     Document Type: Article

References (60)

1. Cooper S., Helmstetter C.E. Chromosome replication and the division cycle of Escherichia coli B/r. J. Mol. Biol. 14:1968;519-540.
2. Helmstetter C.E. Timing of synthetic activities in the cell cycle. Neidhardt F.C. Escherichia coli and Salmonella:Cellular and Molecular Biology. vol. 2:1996;1627-1639 ASM Press, Washington, DC.
3. Donachie W.D., Begg K., Sullivan N.F. Morphogenes of Escherichia coli. Losick R., Shapiro L. Microbial Development. 1984;27-62 Cold Spring Harbor Laboratory Press, Cold Spring Harbor, NY.
4. Jaffé A., D'Ari R., Norris V. SOS-dependent coupling between DNA replication and cell division in Escherichia coli. J. Bacteriol. 165:1986;66-71.
5. Donachie W.D., Robinson A.C. Cell division: parameter values and the process. Neidhardt F., et al. Escherichia coli and Salmonella typhimurium: Cellular and Molecular Biology. Escherichia coli and Salmonella typhimurium: Cellular and Molecular Biology. vol. 2:1987;1578-1593 ASM press, Washington, DC.
6. Helmstetter C.E. Timing of synthetic activities in the cell cycle. Neidhardt F., et al. Escherichia coli and Salmonella typhimurium: Cellular and Molecular Biology. Escherichia coli and Salmonella typhimurium: Cellular and Molecular Biology. vol. 2:1987;1594-1605 ASM Press, Washington, DC.
7. Nordström K., Bernander R., Dasgupta S. The Escherichia coli cell cycle: one cycle or multiple independent processes that are coordinated? Mol. Microbiol. 5:1991;769-774.
8. Gullbrand B., Nordström K. FtsZ ring formation without subsequent cell division after replication runout in Escherichia coli. Mol. Microbiol. 36:2000;1349-1359.
9. Donachie W.D. Relationship between cell size and time of initiation of DNA replication. Nature. 219:1968;1077-1079.
10. Boye E., Stokke T., Kleckner N., Skarstad K. Coordinating DNA replication initiation with cell growth: differential roles for DnaA and SeqA proteins. Proc. Natl Acad. Sci. USA. 93:1996;12206-12211.
11. Boye E., Løbner-Olesen A., Skarstad K. Limiting DNA replication to once and only once. EMBO Rep. 1:2000;479-483.
12. Skarstad K., Boye E., Steen H.B. Timing of initiation of chromosome replication in individual Escherichia coli cells. EMBO J. 5:1986;1711-1717.
13. Leonard A.C., Helmstetter C.E. Cell cycle-specific replication at Escherichia coli minichromosomes. Proc. Natl Acad. Sci. USA. 83:1986;5101-5105.
14. Olsson J.A., Dasgupta S., Berg O.G., Nordström K. Eclipse period without sequestration in Escherichia coli. Mol. Microbiol. 44:2002;1429-1440.
15. Messer W., Weigel C. Initiation of chromosome replication. Neidhardt F.C., Curtiss R. III, Ingraham J.L., Lin C.C., Brooks Low K., Magasanik B., et al. Escherichia coli and Salmonella: Cellular and Molecular Biology. 1996;1579-1601 ASM Press, Washington, DC.
16. Løbner-Olesen A., Skarstad K., Hansen F.G., von Meyenburg K., Boye E. The DnaA protein determines the initiation mass of Escherichia coli K-12. Cell. 57:1989;881-889.
17. Atlung T., Løbner-Olesen A., Hansen F.G. Autoregulation of the dnaA gene in Escherichia coli K12. Mol. Gen. Genet. 200:1985;442-450.
18. Atlung T., Løbner-Olesen A., Hansen F.G. Overproduction of DnaA protein stimulates initiation of chromosome and minichromosome replication in Escherichia coli. Mol. Gen. Genet. 206:1987;51-59.
19. Hansen F.G., Christensen B.B., Atlung T. The initiator titration model: computer simulation of chromosome and minichromosome control. Res. Microbiol. 142:1991;161-167.
20. Bogan J.A., Helmstetter C.E. DNA sequestration and transcription in the oriC region of Escherichia coli. Mol. Microbiol. 26:1997;889-896.
21. Crooke E. Regulation of chromosomal replication in E. coli: sequestration and beyond. Cell. 82:1995;877-880.
22. Kitagawa R., Mitsuki H., Okazaki T., Ogawa T. A novel DnaA protein-binding site at 94.7 min on the Escherichia coli chromosome. Mol. Microbiol. 19:1996;1137-1147.
23. Kitagawa R., Ozaki T., Moriya S., Ogawa T. Negative control of replication initiation by a novel chromosomal locus exhibiting exceptional affinity for Escherichia coli DnaA protein. Genes Dev. 12:1998;3032-3043.
24. Katayama T., Kubota T., Kurokawa K., Crooke E., Sekimizu K. The initiator function of DnaA protein is negatively regulated by the sliding clamp of the E. coli chromosomal replicase. Cell. 94:1998;61-71.
25. Katayama T. Feedback controls restrain the initiation of Escherichia coli chromosomal replication. Mol. Microbiol. 41:2001;9-17.
26. Russell D.W., Zinder N.D. Hemimethylation prevents DNA replication in E. coli. Cell. 50:1987;1071-1079.
27. Campbell J.L., Kleckner N. E. coli oriC and dnaA gene promoter are sequestered from dam methyl transferase following the passage of the chromosome replication fork. Cell. 62:1990;967-979.
28. Lu M., Campbell J.L., Boye E., Kleckner N. SeqA: a negative modulator of replication initiation in E. coli. Cell. 77:1994;413-426.
29. Slater S., Wold S., Lu M., Boye E., Kleckner N. E. coli SeqA binds oriC in two different methyl-modulated reactions appropriate to its roles in DNA replication initiation and origin sequestration. Cell. 82:1995;927-936.
30. Løbner-Olesen A., Hansen F.G., Rasmussen K.V., Martin B., Kuempel P.L. The initiation cascade for chromosome replication in wild-type and Dam methyl-transferase deficient Escherichia coli cells. EMBO J. 13:1994;1856-1862.
31. von Freiesleben U., Krekling M.A., Hansen F.G., Løbner-Olesen A. The eclipse period of Escherichia coli. EMBO J. 19:2000;6240-6248.
32. Weitao W., Nordström K., Dasgupta S. Escherichia coli cell cycle control genes affect chromosome superhelicity. EMBO Rep. 1:2000;494-499.
33. Sternglanz R., DiNardo S., Voelkel K.A., Nishimura Y., Hirota Y., Becherer K., Zumstein L., Wang J.C. Mutations in the gene coding for Escherichia coli topoisomerase I affect transcription and transposition. Proc. Natl Acad. Sci. USA. 78:1981;2747-2752.
34. Drlica K. Control of bacterial DNA supercoiling. Mol. Microbiol. 6:1992;425-433.
35. von Freiesleben U., Rasmussen K.V. The level of supercoiling affects the regulation of DNA replication in Escherichia coli. Res. Microbiol. 143:1992;655-663.
36. Meselson M., Stahl F.W. The replication of DNA in Escherichia coli. Proc. Natl Acad. Sci. USA. 44:1958;671-682.
37. Boye E., Løbner-Olesen A. The role of dam methyltransferase in the control of DNA replication in E. coli. Cell. 62:1990;981-989.
38. Eliasson Å., Bernander R., Nordström K. Random initiation of replication of plasmids P1 and F (oriS) when integrated into the Escherichia coli chromosome. Mol. Microbiol. 20:1996;1025-1032.
39. Weitao T., Nordström K., Dasgupta S. Mutual suppression of mukB and seqA phenotypes might arise from their opposing influences on the Escherichia coli nucleoid structure. Mol. Microbiol. 34:1999;157-168.
40. Menzel R., Gellert M. Regulation of genes for E. coli DNA gyrase: homeostatic control of DNA supercoiling. Cell. 34:1983;105-113.
41. DiNardo S., Voelkel K., Sternglanz R., Reynolds A., Wright A. Escherichia coli DNA Topoisomerase I mutants have compensatory mutations in DNA gyrase genes. Cell. 31:1982;43-51.
42. Donachie W.D., Blakely G.W. Coupling initiation of replication to cell size in Escherichia coli. Curr. Opin. Microbiol. 6:2003;146-150.
43. Olsson J.A., Berg O.G., Dasgupta S., Nordström K. Eclipse period during replication of plasmid R1: contributions from structural events and from the copy number control system. Mol. Microbiol. 50:2003;291-301.
44. Gustafsson P., Nordström K., Perram J.M. Selection and timing of replication of plasmids R1drd-19 and F'lac in Escherichia coli. Plasmid. 1:1978;187-203.
45. Nordström K. Meselson-Stahl density-shift experiments revisited. Plasmid. 9:1984;218-221.
46. Skarstad K., Løbner-Olesen A. Stable coexistence of separate replicons in Escherichia coli is dependent on once per-cell-cycle initiation. EMBO J. 22:2003;140-150.
47. Hwang ., Kaguni D.S. Interaction of dnaA46 protein with a stimulatory protein in replication from the Escherichia coli chromosomal origin. J. Biol. Chem. 262:1988;10633-10640.
48. Løbner-Olesen A., Marinus M.G., Hansen F.G. Role of SeqA and Dam in Escherichia coli gene expression: a global/microarray analysis. Proc. Natl Acad. Sci. USA. 100:2003;4672-4677.
49. Torheim N., Skarstad K. Escherichia coli SeqA protein affects DNA topology and inhibits open complex formation at oriC. EMBO J. 18:2001;4882-4889.
50. Hiraga S., Ichinose C., Niki H., Yamazoe M. Cell cycle-dependent duplication and bidirectional migration of SeqA-associated DNA-protein complexes in E. coli. Mol. Cell. 1:1998;381-387.
51. Hiraga ., Ichinose S., Onogi C., Niki T., Yamazoe H. Bidirectional migration of seqA-bound hemimethylated DNA clusters and pairing of oriC copies in Escherichia coli. Genes Cells. 5:2000;327-341.
52. Brendler T., Sawitzke J., Sergueev K., Austin S. A case for sliding SeqA tracts at anchored replication forks during Escherichia coli chromosome replication and segregation. EMBO J. 19:2000;6249-6258.
53. Bach T., Krekling M.A., Skarstad K. Excess SeqA prolongs sequestration of oriC and delays nucleoid segregation and cell division. EMBO J. 22:2003;315-323.
54. Boye E., Lyngstadas A., Løbner-Olesen A., Skarstad K., Wold S. DNA replication in Escherichia coli. Fanning E., Knippers R., Winnacker E.-L. DNA Replication and Cell Cycle. 1993;15-26 Springer, Berlin.
55. Filutowicz M., Ross W., Wild J., Gourse R. Involvement of Fis protein in replication of Escherichia coli chromosome. J. Bacteriol. 174:1991;398-407.
56. von Freiesleben U., Rasmussen K., Atlung T., Hansen F. Rifampicin-resistant initiation of chromosome from oriC in ihf mutants. Mol. Microbiol. 37:2000;1087-1093.
57. Sambrook J., Fritsch E.F., Maniatis T. Molecular Cloning: A Laboratory Manual. 2nd edit. 1989;Cold Spring Harbor Laboratory Press, Cold Spring Harbor, NY.
58. Botello E., Nordström K. Effects of chromosome underreplication on cell division in Escherichia coli. J. Bacteriol. 180:1998;6364-6374.
59. Guyer M.S., Reed R., Steitz J., Low B. Identification of a sex-factor-affinity site in E. coli as Gd. Cold Spring Harbor Symp. Quant. Biol. 45:1981;135-140.
60. Kogoma T., von Meyenburg K. The origin of replication, oriC, and the dnaA protein are dispensible in stable DNA replication (sdrA) mutants of Escherichia coli K-12. EMBO J. 2:1982;463-468.