Post-translational regulation enables robust p53 regulation

BMC Systems Biology

Volumn 7, Issue , 2013, Pages

  Shin, Yong Jun ^a   Chen, Kai Yuan ^a   Sayed, Ali H ^b   Hencey, Brandon ^a   Shen, Xiling ^a  

^a School of Operations Research and Industrial Engineering   (United States)

^b UNIVERSITY OF CALIFORNIA   (United States)

Author keywords

Disturbance rejection; Feedback control theory; p53 Mdm2 feedback loop; Robustness

Indexed keywords

PROTEIN MDM2; PROTEIN P53;

BIOLOGICAL MODEL; FEEDBACK SYSTEM; GENE EXPRESSION REGULATION; METABOLISM; NONLINEAR SYSTEM; PROTEIN PROCESSING; REPRODUCIBILITY; STATISTICS; SYSTEMS BIOLOGY; ARTICLE;

FEEDBACK, PHYSIOLOGICAL; GENE EXPRESSION REGULATION; MODELS, BIOLOGICAL; NONLINEAR DYNAMICS; PROTEIN PROCESSING, POST-TRANSLATIONAL; PROTO-ONCOGENE PROTEINS C-MDM2; REPRODUCIBILITY OF RESULTS; STOCHASTIC PROCESSES; SYSTEMS BIOLOGY; TUMOR SUPPRESSOR PROTEIN P53;

EID: 84883168982     PISSN: None     EISSN: 17520509     Source Type: Journal    
DOI: 10.1186/1752-0509-7-83     Document Type: Article

References (36)

1. Kaern M, Elston TC, Blake WJ, Collins JJ. Stochasticity in gene expression: From theories to phenotypes. Nat Rev Genet 2005, 6:451-464. 10.1038/nrg1615, 15883588.
2. Raj A, van Oudenaarden A. Nature, nurture, or chance: Stochastic gene expression and its consequences. Cell 2008, 135:216-226. 10.1016/j.cell.2008.09.050, 3118044, 18957198.
3. Rosenfeld N, Young JW, Alon U, Swain PS, Elowitz MB. Gene regulation at the single-cell level. Science 2005, 307:1962-1965. 10.1126/science.1106914, 15790856.
4. Dunlop MJ, Cox RS, Levine JH, Murray RM, Elowitz MB. Regulatory activity revealed by dynamic correlations in gene expression noise. Nat Genet 2008, 40:1493-1498. 10.1038/ng.281, 2829635, 19029898.
5. Jen E. Robust design : Repertoire of biological, ecological, and engineering case studies 2005, New York: Oxford University Press.
6. Cosentino C, Bates D. Feedback control in systems biology 2012, Boca Raton, Florida: CRC Press.
7. Åström KJ, Murray RM. Feedback systems: An introduction for scientists and engineers 2008, Princeton: Princeton University Press.
8. Becskei A, Serrano L. Engineering stability in gene networks by autoregulation. Nature 2000, 405:590-593. 10.1038/35014651, 10850721.
9. Simpson ML, Cox CD, Sayler GS. Frequency domain analysis of noise in autoregulated gene circuits. Proc Natl Acad Sci U S A 2003, 100:4551-4556. 10.1073/pnas.0736140100, 404696, 12671069.
10. Dublanche Y, Michalodimitrakis K, Kummerer N, Foglierini M, Serrano L. Noise in transcription negative feedback loops: Simulation and experimental analysis. Mol Syst Biol 2006, 2:41. 1681513, 16883354.
11. Piette J, Neel H, Marechal V. Mdm2: Keeping p53 under control. Oncogene 1997, 15:1001-1010. 10.1038/sj.onc.1201432, 9285554.
12. Vogelstein B, Lane D, Levine AJ. Surfing the p53 network. Nature 2000, 408:307-310. 10.1038/35042675, 11099028.
13. Levine AJ, Oren M. The first 30 years of p53: Growing ever more complex. Nat Rev Cancer 2009, 9:749-758. 2771725, 19776744.
14. Kaina B. DNA damage-triggered apoptosis: Critical role of DNA repair, double-strand breaks, cell proliferation and signaling. Biochem Pharmacol 2003, 66:1547-1554. 10.1016/S0006-2952(03)00510-0, 14555233.
15. Roos WP, Kaina B. DNA damage-induced cell death by apoptosis. Trends Mol Med 2006, 12:440-450. 10.1016/j.molmed.2006.07.007, 16899408.
16. Shin YJ, Hencey B, Lipkin SM, Shen X. Frequency domain analysis reveals external periodic fluctuations can generate sustained p53 oscillation. PLoS One 2011, 6:e22852. 10.1371/journal.pone.0022852, 3145758, 21829536.
17. Maltzman W, Czyzyk L. UV irradiation stimulates levels of p53 cellular tumor antigen in nontransformed mouse cells. Mol Cell Biol 1984, 4:1689-94. 368974, 6092932.
18. Price BD, Calderwood SK. Increased sequence-specific p53-DNA binding activity after DNA damage is attenuated by phorbol esters 1993, BASINGSTOKE: ONCOGENE, 8: 3055.
19. Kastan MB, Zhan Q, El-Deiry WS, Carrier F, Jacks T, et al. A mammalian cell cycle checkpoint pathway utilizing p53 and GADD45 is defective in ataxia-telangiectasia. Cell 1992, 71:587-597. 10.1016/0092-8674(92)90593-2, 1423616.
20. Gannon HS, Woda BA, Jones SN. ATM phosphorylation of Mdm2 Ser394 regulates the amplitude and duration of the DNA damage response in mice. Cancer Cell 2012, 21:668-679. 10.1016/j.ccr.2012.04.011, 3360886, 22624716.
21. Geva-Zatorsky N, Rosenfeld N, Itzkovitz S, Milo R, Sigal A, et al. Oscillations and variability in the p53 system. Mol Syst Biol 2006, 2:2006.0033. 1681500, 16773083.
22. Chandra FA, Buzi G, Doyle JC. Glycolytic oscillations and limits on robust efficiency. Science Science 2011, 333:187-192.
23. Geva-Zatorsky N, Dekel E, Batchelor E, Lahav G, Alon U. Fourier analysis and systems identification of the p53 feedback loop. Proc Natl Acad Sci U S A 2010, 107:13550-13555. 10.1073/pnas.1001107107, 2922141, 20622152.
24. Shin YJ, Bleris L. Linear control theory for gene network modeling. PLoS One 2010, 5:e12785. 10.1371/journal.pone.0012785, 2940894, 20862288.
25. Stommel JM, Wahl GM. Accelerated MDM2 auto-degradation induced by DNA-damage kinases is required for p53 activation. EMBO J 2004, 23:1547-56. 10.1038/sj.emboj.7600145, 391059, 15029243.
26. Ju J, Schmitz JC, Song B, Kudo K, Chu E. Regulation of p53 expression in response to 5-fluorouracil in human cancer RKO cells. Clin Cancer Res 2007, 13:4245-4251. 10.1158/1078-0432.CCR-06-2890, 17634554.
27. Shin YJ, Sayed AH, Shen X. Adaptive models for gene networks. PloS one 2012, 7:e31657. 10.1371/journal.pone.0031657, 3280989, 22359614.
28. Sayed AH. Adaptive Filters 2008, New Jersey: Willey.
29. Franklin GF, Powell JD. Digital control of dynamic systems 1980, Reading, Mass.: Addison-Wesley Pub. Co.
30. Cheng Q, Cross B, Li B, Chen L, Li Z, et al. Regulation of MDM2 E3 ligase activity by phosphorylation after DNA damage. Mol Cell Biol 2011, 31:4951-4963. 10.1128/MCB.05553-11, 3233024, 21986495.
31. Xu L, Qu Z. Roles of protein ubiquitination and degradation kinetics in biological oscillations. PloS one 2012, 7(4):e34616. 10.1371/journal.pone.0034616, 3323547, 22506034.
32. O'Keefe K, Li H, Zhang Y. Nucleocytoplasmic shuttling of p53 is essential for MDM2-mediated cytoplasmic degradation but not ubiquitination. Mol Cell Biol 2003, 23:6396-405. 10.1128/MCB.23.18.6396-6405.2003, 193719, 12944468.
33. Tao W, Levine AJ. Nucleocytoplasmic shuttling of oncoprotein Hdm2 is required for Hdm2-mediated degradation of p53. Proc Natl Acad Sci 1999, 96:3077-3080. 10.1073/pnas.96.6.3077, 15897, 10077639.
34. Ashcroft M, Kubbutat MH, Vousden KH. Regulation of p53 function and stability by phosphorylation. Mol Cell Biol 1999, 19:1751-8. 83968, 10022862.
35. Kazuyasu S, Herrera JE, Shin'ichi S, Toru M, Michael B, Alex V, Anderson CW, Anderson CW, Ettore A. DNA damage activates p53 through a phosphorylation-acetylation cascade. Genes Dev 1998, 12(18):2831-2841. 10.1101/gad.12.18.2831, 317174, 9744860.
36. Alenzi FQ, Ahmad SY, Alenazi BQ, Salem ML, Al-Jabri AA, et al. The haemopoietic stem cell: Between apoptosis and self renewal. Yale J Biol Med 2009, 82:7-18. 2660591, 19325941.