It's a noisy business! Genetic regulation at the nanomolar scale

Trends in Genetics

Volumn 15, Issue 2, 1999, Pages 65-69

  McAdams, Harley H ^a   Arkin, Adam ^b  

^a STANFORD UNIVERSITY SCHOOL OF MEDICINE   (United States)

^b LAWRENCE BERKELEY NATIONAL LABORATORY   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

DNA;

CELL DIVISION; ESCHERICHIA COLI; FEEDBACK SYSTEM; GENE EXPRESSION REGULATION; MORAXELLA BOVIS; NONHUMAN; PRIORITY JOURNAL; REVIEW; SALMONELLA TYPHIMURIUM;

BACTERIAL PHYSIOLOGY; CELL PHYSIOLOGY; EUKARYOTIC CELLS; FUNGI; GENE EXPRESSION REGULATION; KINETICS; MACROMOLECULAR SUBSTANCES; MICROCHEMISTRY; MODELS, BIOLOGICAL; OSMOLAR CONCENTRATION; PHENOTYPE; RANDOM ALLOCATION; STOCHASTIC PROCESSES;

ESCHERICHIA COLI; MORAXELLA BOVIS; SALMONELLA TYPHIMURIUM; TYPHIMURIUM;

EID: 0033083733     PISSN: 01689525     EISSN: None     Source Type: Journal    
DOI: 10.1016/S0168-9525(98)01659-X     Document Type: Review

References (41)

1. Sternberg P.W., Felix M.A. Evolution of cell lineage. Curr. Opin. Genet. Dev. 7:1997;543-550.
2. Guptasarma P. Does replication-induced transcription regulate synthesis of the myriad low copy number proteins of Escherichia coli? BioEssays. 17:1995;987-997.
3. McAdams H., Arkin A. Stochastic mechanisms in gene expression. Proc. Natl. Acad. Sci. U. S. A. 94:1997;814-819.
4. Ross I.L.et al. Transcription of individual genes in eukaryotic cells occurs randomly and infrequently. Immun. Cell Biol. 72:1994;177-185.
5. Ko M.S.H. Induction mechanism of a single gene molecule: stochastic or deterministic. BioEssays. 14:1992;341-346.
6. Elliott J.I.et al. Random activation of a transgene under the control of a hybrid hCD2 locus control region/lg enhancer regulatory element. EMBO J. 14:1995;575-584.
7. Zlokarnik G.et al. Quantitation of transcription and clonal selection of single living cells with beta-lactamase as reporter. Science. 279:1998;84-88.
8. Chelly J.et al. Illegitimate transcription: transcription of any gene in any cell type. Proc. Natl. Acad. Sci. U. S. A. 86:1989;2617-2621.
9. Arkin A.et al. Stochastic kinetic analysis of developmental pathway bifurcation in phage λ-infected E. coli cells. Genetics. 149:1998;1633-1648.
10. Grossman A.D. Genetic networks controlling the initiation of sporulation and the development of genetic competence in Bacillus subtilis. Annu. Rev. Genet. 29:1995;477-508.
11. Dorman C.J. DNA topology and the global control of bacterial gene expression: implications for the regulation of virulence gene expression. Microbiology. 141:1995;1271-1280.
12. McQuarrie D.A.et al. Kinetics of small systems II. J. Chem. Phys. 40:1964;2914-2921.
13. Zheng Q., Ross J. Comparison of deterministic and stochastic kinetics for nonlinear systems. J. Chem. Phys. 94:1991;3644-3648.
14. Gillespie D.T. Exact stochastic simulation of coupled chemical reactions. J. Phys. Chem. 81:1977;2340-2361.
15. Van Kampen N.G. Stochastic Processes in Physics and Chemistry. 1992;North-Holland.
16. Baras F.et al. Microscopic simulation of chemical bistability in homogeneous systems. J. Chem. Phys. 105:1996;8257-8261.
17. Hartwell L.H., Weinert T.A. Checkpoints: controls that ensure the order of cell cycle events. Science. 246:1989;629-634.
18. Kaufmann W.K., Paules R.S. DNA damage and cell cycle checkpoints. FASEB J. 10:1996;238-247.
19. Wells W.A.E. The spindle-assembly checkpoint: aiming for a perfect mitosis every time. Trends Cell Biol. 6:1996;228-234.
20. Bird A.P. Gene number, noise reduction and biological complexity. Trends Genet. 11:1995;94-100.
21. Thomas J.H. Thinking about genetic redundancy. Trends Genet. 9:1993;395-399.
22. Nowak M.A.et al. Evolution of genetic redundancy. Nature. 388:1997;167-171.
23. Weintraub H. The MyoD family and myogenesis: redundancy, networks, and thresholds. Cell. 75:1993;1241-1244.
24. Kerszberg M. Accurate reading of morphogen concentrations by nuclear receptors: a formal model of complex transduction pathways. J. Theor. Biol. 183:1996;95-104.
25. Plank L.D., Harvey J.D. Generation time statistics of Escherichia coli B measured by synchronous culture techniques. J. Gen. Microbiol. 115:1979;69-77.
26. Bremer H. A stochastic process determines the time at which cell division begins in Escherichia coli. J. Theor. Biol. 118:1986;351-365.
27. Kerszberg M., Changeux J.P. A model for reading morphogenetic gradients: autocatalysis and competition at the gene level. Proc. Natl. Acad. Sci. U. S. A. 91:1994;5823-5827.
28. Calkhoven C.F., Ab G. Multiple steps in the regulation of transcription-factor level and activity. Biochem. J. 317:1996;329-342.
29. Wilkins A.S. Canalization: a molecular genetic perspective. BioEssays. 19:1997;257-262.
30. Cooke J.et al. Evolutionary origins and maintenance of redundant gene expression during metazoan development. Trends Genet. 13:1997;360-364.
31. Lerner I.M. Genetic Homeostasis. 1954;Oliver and Boyd.
32. Holland P.W.et al. Gene duplications and the origins of vertebrate development. Dev. Suppl. 1994;125-133.
33. Elsayed, E.A. (1996) Reliability Engineering. (Chapter 2) Addison Wesley Longman
34. McAdams H.H., Arkin A. Simulation of prokaryotic genetic circuits. Annu. Rev. Biophys. Biomol. Struct. 27:1998;199-224.
35. Wilkinson H.A.et al. Reciprocal changes in expression of the receptor lin-12 and its ligand lag-2 prior to commitment in a C. elegans cell fate decision. Cell. 79:1994;1187-1198.
36. Woude M.V.D.et al. Epigenetic phase variation of the pap operon in Escherichia coli. Trends Microbiol. 4:1996;5-9.
37. Robertson B.D. Genetic variation in pathogenic bacteria. Trends Genet. 8:1992;422-427.
38. Putte V.d.P., Goosen N. DNA inversions in phages and bacteria. Trends Genet. 8:1992;457-462.
39. Marrs C.F.et al. Pilin-gene phase variation of Moraxella bovis is caused by an inversion of the pilin genes. J. Bacteriol. 170:1988;3032-3039.
40. Ptashne M. A Genetic Switch: Phage λ and Higher Organisms. 1992;Cell Press and Blackwell Scientific Publications.
41. Shea M.A., Ackers G.K. The OR control system of bacteriophage lambda: A physical-chemical model for gene regulation. J. Mol. Biol. 181:1985;211-230.