Russian version English version
Volume 8   Issue 1   Year 2013
Likhoshvai V.A., Khlebodarova T.M.

Coordination of Cell Growth and DNA Replication: A Mathematical Model

Mathematical Biology & Bioinformatics. 2013;8(1):66-92.

doi: 10.17537/2013.8.66.


  1. Pritchard RH, Barth PT, Collins J. Control of DNA synthesis in bacteria. In: Microbial Growth, Symposium of Society of General Microbiology. 1969;19:263-297.
  2. Mackiewicz P, Zakrzewska-Czerwinska J, Zawilak A, Dudek MR, Cebrat S. Where does bacterial replication start? Rules for predicting the oriC region. Nucleic Acids Res. 2004;32:3781-3791. doi: 10.1093/nar/gkh699
  3. Kaguni JM. DnaA: controlling the initiation of bacterial DNA replication and more. Annu. Rev. Microbiol. 2006;60:351-375. doi: 10.1146/annurev.micro.60.080805.142111
  4. Cooper S, Helmstetter CE. Chromosome Replication and the Division Cycle of Escherichia coli B/r. J. Mol. Biol. 1968;31:619-644. doi: 10.1016/0022-2836(68)90425-7
  5. Donachie WD. Relationship between cell size and time of initiation of DNA replication. Nature. 1968;219:1077-1079. doi: 10.1038/2191077a0
  6. Zaritsky A, Vischer N, Rabinovitch A. Changes of initiation mass and cell dimensions by the 'eclipse'. Mol Microbiol. 2007;63:15-21. doi: 10.1111/j.1365-2958.2006.05501.x
  7. Zaritsky A, Wang P, Vischer NO. Instructive simulation of the bacterial cell division cycle. Microbiology. 2011;157:1876-1885. doi: 10.1099/mic.0.049403-0
  8. Sompayrac L, Maaloe O. Autorepressor model for control of DNA replication. Nat. New Biol. 1973;241(109):133-135. doi: 10.1038/newbio241133a0
  9. Margalit H, Grover NB. Initiation of chromosome replication in bacteria: analysis of an inhibitor control model. J. Bacteriol. 1987;169:5231-5240.
  10. Mahaffy JM, Zyskind JW. A model for the initiation of replication in Escherichia coli. J. Theor. Biol. 1989;140(4):453-477. doi: 10.1016/S0022-5193(89)80109-2
  11. Hansen FG, Christensen BB, Atlung T. The initiator titration model: computer simulation of chromosome and minichromosome control. Res. Microbiol. 1991;142:161-677. doi: 10.1016/0923-2508(91)90025-6
  12. Donachie WD, Blakely GW. Coupling the initiation of chromosome replication to cell size in Escherichia coli. Curr. Opin. Microbiol. 2003;6(2):146-150. doi: 10.1016/S1369-5274(03)00026-2
  13. Grant MA, Saggioro C, Ferrari U, Bassetti B, Sclavi B, Cosentino Lagomarsino M. DnaA and the timing of chromosome replication in Escherichia coli as a function of growth rate. BMC Syst. Biol. 2011;5:201. doi: 10.1186/1752-0509-5-201
  14. Zhang Q, Shi H. Coupling chromosomal replication to cell growth by the initiator protein DnaA in Escherichia coli. J. Theor. Biol. 2012;314:164-172. doi: 10.1016/j.jtbi.2012.08.045
  15. Schaechter M, Maaloe O, Kjeldgaard NO. Dependency on medium and temperature of cell size and chemical composition during balanced grown of Salmonella typhimurium. J. Gen. Microbiol. 1958;19:592-606. doi: 10.1099/00221287-19-3-592
  16. Schaechter M, Williamson JP, Hood JR Jr, Koch AL. Growth, cell and nuclear divisions in some bacteria. J. Gen. Microbiol. 1962;29:421-434. doi: 10.1099/00221287-29-3-421
  17. Mitchison JM. Single cell studies of the cell cycle and some models. Theor. Biol. Med. Model. 2005;2:4. doi: 10.1186/1742-4682-2-4
  18. Cooper S. Distinguishing between linear and exponential cell growth during the division cycle: Single-cell studies, cell-culture studies, and the object of cell-cycle research. Theor. Biol. Med. Model. 2006;3:10. doi: 10.1186/1742-4682-3-10
  19. Cullum J, Vicente M. Cell growth and length distribution in Escherichia coli. J. Bacteriol. 1978;134:330-337.
  20. Kubitschek HE. Increase in cell mass during the division cycle of Escherichia coli B/rA. J. Bacteriol. 1986;168(2):613-618.
  21. Grover NB, Woldringh CL. Dimensional regulation of cell-cycle events in Escherichia coli during steady-state growth. Microbiology. 2001;147:171-181.
  22. Reshes G, Vanounou S, Fishov I, Feingold M. Cell shape dynamics in Escherichia coli. Biophys. J. 2008;94:251-264. doi: 10.1529/biophysj.107.104398
  23. Godin M, Delgado FF, Son S, Grover WH, Bryan AK, Tzur A, Jorgensen P, Payer K, Grossman AD, Kirschner MW, Manalis SR. Using buoyant mass to measure the growth of single cells. Nat. Methods. 2010;7(5):387-390. doi: 10.1038/nmeth.1452
  24. Hill NS, Kadoya R, Chattoraj DK, Levin PA. Cell size and the initiation of DNA replication in bacteria. PLoS Genet. 2012;8(3):e1002549. doi: 10.1371/journal.pgen.1002549
  25. Katayama T, Ozaki S, Keyamura K, Fujimitsu K. Regulation of the replication cycle: conserved and diverse regulatory systems for DnaA and ORI. Nat. Rev. Microbiol. 2010;8(3):163-170. doi: 10.1038/nrmicro2314
  26. Yanenko NN. The method of fractional steps. The solution of problems of mathematical physics in several variables. Ed. M. Holt. New York: Springer-Verlag; 1971. 156 p.
  27. Kang S, Lee H, Han JS, Hwang DS. Interaction of SeqA and Dam methylase on the hemimethylated origin of Escherichia coli chromosomal DNA replication. J. Biol. Chem. 1999;274:11463-11458. doi: 10.1074/jbc.274.17.11463
  28. Campbell JL, Kleckner N. E. coli oriC and the dnaA gene promoter are sequestered from dam methyltransferase following the passage of the chromosomal replication fork. Cell. 1990;62(5):967-979. doi: 10.1016/0092-8674(90)90271-F
  29. Bogan JA, Helmstetter CE. DNA sequestration and transcription in the OriC region of Escherichia coli. Mol. Microbiol. 1997;26(5):889-896. doi: 10.1046/j.1365-2958.1997.6221989.x
  30. 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. 1998;94:61-71. doi: 10.1016/S0092-8674(00)81222-2
  31. Kawakami H, Su'etsugu M, Katayama T. An isolated Hda-clamp complex is functional in the regulatory inactivation of DnaA and DNA replication. J. Struct. Biol. 2006;156:220-229. doi: 10.1016/j.jsb.2006.02.007
  32. Su'etsugu M, Nakamura K, Keyamura K, Kudo Y, Katayama T. Hda monomerization by ADP binding promotes replicase clamp-mediated DnaA-ATP hydrolysis. J. Biol. Chem. 2008;283(52):36118-36131. doi: 10.1074/jbc.M803158200
  33. Helmstetter CE. Cooper S. DNA synthesis during the division cycle of rapidly growing Escherichia coli B/r. J. Mol. Biol. 1968;31(3):507-518. doi: 10.1016/0022-2836(68)90424-5
  34. Olsen GJ, Woese CR, Overbeek R. The winds of (evolutionary) change: breathing new life into microbiology. J. Bacteriol. 1994;176:1-6.
  35. Hayashi M, Ogura Y, Harry EJ, Ogasawara N, Moriya S. Bacillus subtilis YabA is involved in determining the timing and synchrony of replication initiation. FEMS Microbiol. Lett. 2005;247(1):73-79. doi: 10.1016/j.femsle.2005.04.028
  36. Noirot-Gros MF, Velten M, Yoshimura M, McGovern S, Morimoto T, Ehrlich SD, Ogasawara N, Polard P, Noirot P. Functional dissection of YabA, a negative regulator of DNA replication initiation in Bacillus subtilis. Proc. Natl. Acad. Sci. USA. 2006;103:2368-2373. doi: 10.1073/pnas.0506914103
  37. Cho E, Ogasawara N, Ishikawa S. The functional analysis of YabA, which interacts with DnaA and regulates initiation of chromosome replication in Bacillus subtilis. Genes Genet. Syst. 2008;83:111-125. doi: 10.1266/ggs.83.111
  38. Scholefield G, Whiting R, Errington J, Murray H. Spo0J regulates the oligomeric state of Soj to trigger its switch from an activator to an inhibitor of DNA replication initiation. Mol Microbiol. 2011;79:1089-1100. doi: 10.1111/j.1365-2958.2010.07507.x
Table of Contents Original Article
Math. Biol. Bioinf.
doi: 10.17537/2013.8.66
published in Russian

Abstract (rus.)
Abstract (eng.)
Full text (rus., pdf)


  Copyright IMPB RAS © 2005-2022