Stochastic gene expression in fluctuating environments

Genetics

Volumn 167, Issue 1, 2004, Pages 523-530

  Thattai, Mukund ^a   Van Oudenaarden, Alexander ^a  

^a MASSACHUSETTS INSTITUTE OF TECHNOLOGY   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ARTICLE; BACTERIAL GENETICS; BACTERIUM PILUS; ENVIRONMENTAL FACTOR; FERMENTATION MODEL; FERMENTATION OPTIMIZATION; GENE EXPRESSION; GENETIC HETEROGENEITY; GROWTH RATE; KARYOTYPE EVOLUTION; MATHEMATICAL ANALYSIS; METABOLIC REGULATION; NONHUMAN; PHASE TRANSITION; PHENOTYPE; POPULATION GENETICS; PRIORITY JOURNAL; PROCESS OPTIMIZATION; STOCHASTIC MODEL;

BACTERIAL PHYSIOLOGY; EVOLUTION, MOLECULAR; FERMENTATION; GENE EXPRESSION; GENE EXPRESSION REGULATION; GENES, BACTERIAL; GENETICS, POPULATION; MODELS, GENETIC; MONTE CARLO METHOD; PHENOTYPE; POISSON DISTRIBUTION; SELECTION (GENETICS); STOCHASTIC PROCESSES; TIME FACTORS;

BACTERIA (MICROORGANISMS); PROKARYOTA;

EID: 2942555282     PISSN: 00166731     EISSN: None     Source Type: Journal    
DOI: 10.1534/genetics.167.1.523     Document Type: Article

References (30)

1. ARKIN, A., J. Ross and H. H. MCADAMS, 1998 Stochastic kinetic analysis of developmental pathway bifurcation in phage lambda-infected Escherichia coli cells. Genetics 149: 1633-1648.
2. BARKAI, N., and S. LEIBLER, 2000 Circadian clocks limited by noise. Nature 403: 267-268.
3. BIALEK, W., 2001 Stability and noise in biochemical switches, pp. 103-109 in Advances in Neural Information Processing Systems 13, edited by T. K. LEEN, T. G. DIETTERICH and V. TRESP. MIT Press, Cambridge, MA.
4. BIGGAR, S. R., and G. R. CRABTREE, 2001 Cell signaling can direct either binary or graded transcriptional responses. EMBO J. 20: 3167-3176.
5. BLAKE, W.J., M. KAERN, C. R. CANTOR and J. J. COLLINS, 2003 Noise in eukaryotic gene expression. Nature 422: 633-637.
6. BURGER, R., 1999 Evolution of genetic variability and the advantage of sex and recombination in changing environments. Genetics 153: 1055-1069.
7. CARRIER, T. A., and J. D. KEASLING, 1999 Investigating autocatalytic gene expression through mechanistic modeling. J. Theor. Biol. 201: 25-36.
8. COHEN, D., 1966 Optimizing reproduction in a randomly varying environment. J. Theor. Biol. 12: 119-129.
9. ELOWITZ, M. B., A. J. LEVINE, E. D. SIGGIA and P. S. SWAIN, 2002 Stochastic gene expression in a single cell. Science 297: 1183-1186.
10. FERRELL, J. E., JR., 2002 Self-perpetuating states in signal transduction: positive feedback, double-negative feedback and bistability. Curr. Opin. Cell. Biol. 14: 140-148.
11. HERNDAY, A., M. KRABBE, B. BRAATEN and D. LOW, 2002 Self-perpetuating epigenetic pili switches in bacteria. Proc. Natl. Acad. Sci. USA 99: 16470-16476.
12. ISAACS, F., J. HASTY, C. CANTOR and J. J. COLLINS, 2003 Prediction and measurement of an autoregulatory genetic module. Proc. Natl. Acad. Sci. USA 100: 7714-7719.
13. KEPLER, T. B., and T. C. ELSTON, 2001 Stochasticity in transcriptional regulation: origins, consequences, and mathematical representations. Biophys. J. 81: 3116-3136.
14. Low, D. A., N. J. WEYAND and M. J. MAHAN, 2001 Roles of DNA adenine methylation in regulating bacterial gene expression and virulence. Infect. Immun. 69: 7197-7204.
15. MENU, F., J. ROEBUCK and M. VIALA, 2000 Bet-hedging diapause strategies in stochastic environments. Am. Nat. 155: 724-734.
16. MONOD, J., 1966 From enzymatic adaptation to allosteric transitions. Science 154: 475-483.
17. NOVICK, A., and M. WEINER, 1957 Enzyme induction as an all-or-none phenomenon. Proc. Natl. Acad. Sci. USA 45: 553-566.
18. OZBUDAK, E. M., M. THATTAI, I. KURTSER, A. D. GROSSMAN and A. VAN OUDENAARDEN, 2002 Regulation of noise in the expression of a single gene. Nat. Genet. 31: 69-73.
19. PAULSSON, J., 2002 Multileveled selection on plasmid replication. Genetics 161: 1373-1384.
20. ROSENBERG, S. M., 2001 Evolving responsively: adaptive mutations. Nat. Rev. Genet. 2: 504-515.
21. SAVAGEAU, M. A., 1998 Demand theory of gene regulation. II. Quantitative application to the lactose and maltose operons of Escherichia coli. Genetics 149: 1677-1691.
22. SHAPIRO, J. A., 1998 Thinking about bacterial populations as multicellular organisms. Annu. Rev. Microbiol. 52: 81-104.
23. SIEGELE, D. A., and J. C. Hu, 1997 Gene expression from plasmids containing the araBAD promoter at subsaturating inducer concentrations represents mixed populations. Proc. Natl. Acad. Sci. USA 94: 8168-8172.
24. SMITH, H. L., and P. WALTMEN, 1995 The Theory of the Chemostat. Cambridge University Press, Cambridge, UK.
25. STROGATZ, S. H., 1994 Nonlinear Dynamics and Chaos. Perseus Books, Reading, MA.
26. STUMPF, M. P. H., Z. LAIDLAW and V. A. A. JANSEN, 2002 Herpes viruses hedge their bets. Proc. Natl. Acad. Sci. USA 99: 15234-15237.
27. TANAKA, M. M., C. T. BERGSTROM and B. R. LEVIN, 2003 The evolution of mutator genes in bacterial populations: the roles of environmental change and timing. Genetics 164: 843-854.
28. THATTAI, M., and B. SHRAIMAN, 2003 Metabolic switching in the sugar phosphotransferase system of Escherichia coli. Biophys. J. 85: 744-754.
29. WOLF, D. M., and A. P. ARKIN, 2002 Fifteen minutes of fim: control of type 1 pili expression in E. coli. Omics 6: 91-114.
30. WOLF, D. M., and A. P. ARKIN, 2003 Motifs, modules and games in bacteria. Curr. Opin. Microbiol. 6: 125-134.