Epigenetic memory emerging from integrated transcription bursts

Biophysical Journal

Volumn 105, Issue 6, 2013, Pages 1526-1532

  Kurz, Volker ^a   Nelson, Edward M ^a   Perry, Nicolas ^a   Timp, Winston ^b   Timp, Gregory ^a  

^a UNIVERSITY OF NOTRE DAME   (United States)

^b JOHNS HOPKINS UNIVERSITY   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

GAMMA BUTYROLACTONE DERIVATIVE;

ARTICLE; BIOLOGICAL MODEL; CYTOLOGY; ESCHERICHIA COLI; GENETIC EPIGENESIS; GENETIC TRANSCRIPTION; GENETICS; METABOLISM; PHENOTYPE; STATISTICS;

ACYL-BUTYROLACTONES; EPIGENESIS, GENETIC; ESCHERICHIA COLI; MODELS, GENETIC; PHENOTYPE; STOCHASTIC PROCESSES; TRANSCRIPTION, GENETIC;

EID: 84884321761     PISSN: 00063495     EISSN: 15420086     Source Type: Journal    
DOI: 10.1016/j.bpj.2013.08.010     Document Type: Article

References (36)

1. W. Xiong, and J.E. Ferrell Jr. A positive-feedback-based bistable 'memory module' that governs a cell fate decision Nature 426 2003 460 465
2. J.W. Cotari, and G. Voisinne G.A. Bonnet Cell-to-cell variability analysis dissects the plasticity of signaling of common G chain cytokines in T cells Sci. Signal. 6 2013 266
3. J.L. Spudich, and D.E. Koshland Jr. Non-genetic individuality: chance in the single cell Nature 262 1976 467 471
4. H.C. Berg, and E.M. Purcell Physics of chemoreception Biophys. J. 20 1977 193 219
5. M.B. Elowitz, and A.J. Levine P.S. Swain Stochastic gene expression in a single cell Science 297 2002 1183 1186
6. F.J. Isaacs, and J. Hasty J.J. Collins Prediction and measurement of an autoregulatory genetic module Proc. Natl. Acad. Sci. USA 100 2003 7714 7719
7. R. Cheong, and A. Rhee A. Levchenko Information transduction capacity of noisy biochemical signaling networks Science 334 2011 354 358
8. B. Munsky, G. Neuert, and A. van Oudenaarden Using gene expression noise to understand gene regulation Science 336 2012 183 187
9. M. Thattai, and A. van Oudenaarden Stochastic gene expression in fluctuating environments Genetics 167 2004 523 530
10. W.J. Blake, and G. Balázsi J.J. Collins Phenotypic consequences of promoter-mediated transcriptional noise Mol. Cell 24 2006 853 865
11. J.M. Raser, and E.K. O'Shea Noise in gene expression: origins, consequences, and control Science 309 2005 2010 2013
12. C.V. Rao, D.M. Wolf, and A.P. Arkin Control, exploitation and tolerance of intracellular noise Nature 420 2002 231 237
13. M.B. Miller, and B.L. Bassler Quorum sensing in bacteria Annu. Rev. Microbiol. 55 2001 165 199
14. J.W. Williams, and X. Cui A.M. Stevens Robust and sensitive control of a quorum-sensing circuit by two interlocked feedback loops Mol. Syst. Biol. 4 2008 234
15. A.B. Goryachev, D.J. Toh, and T. Lee Systems analysis of a quorum sensing network: design constraints imposed by the functional requirements, network topology and kinetic constants Biosystems 83 2006 178 187
16. U. Mirsaidov, and J. Scrimgeour G. Timp Live cell lithography: using optical tweezers to create synthetic tissue Lab Chip 8 2008 2174 2181
17. E. Jablonka, and G. Raz Transgenerational epigenetic inheritance: prevalence, mechanisms, and implications for the study of heredity and evolution Q. Rev. Biol. 84 2009 131 176
18. A. Novick, and M. Weiner Enzyme induction as an all-or-none phenomenon Proc. Natl. Acad. Sci. USA 43 1957 553 566
19. M. Adam, and B. Murali S.S. Potter Epigenetic inheritance based evolution of antibiotic resistance in bacteria BMC Evol. Biol. 8 2008 52
20. H.M. Bierne, M. Hamon, and P. Cossart Epigenetics and bacterial infections Cold Spring Harb. Perspect. Med 2 2012 a010272
21. O.J. Rando, and K.J. Verstrepen Timescales of genetic and epigenetic inheritance Cell 128 2007 655 668
22. A.P. Feinberg, and R.A. Irizarry Evolution in health and medicine Sackler colloquium: stochastic epigenetic variation as a driving force of development, evolutionary adaptation, and disease Proc. Natl. Acad. Sci. USA 107 Suppl 1 2010 1757 1764
23. D.T. Gillespie Exact stochastic simulation of coupled chemical reactions J. Phys. Chem. 81 1977 2340 2361
24. J.B. Andersen, and C. Sternberg S. Molin New unstable variants of green fluorescent protein for studies of transient gene expression in bacteria Appl. Environ. Microbiol. 64 1998 2240 2246
25. L. Cai, N. Friedman, and X.S. Xie Stochastic protein expression in individual cells at the single molecule level Nature 440 2006 358 362
26. T.M.H. Creemers, and A.J. Lock S. Völker Photophysics and optical switching in green fluorescent protein mutants Proc. Natl. Acad. Sci. USA 97 2000 2974 2978
27. R.M. Dickson, and A.B. Cubitt W.E. Moerner On/off blinking and switching behavior of single molecules of green fluorescent protein Nature 388 1997 355 358
28. U. Kubitscheck, and O. Kückmann R. Peters Imaging and tracking of single GFP molecules in solution Biophys. J. 78 2000 2170 2179
29. E.J.G. Peterman, S. Brasselet, and W.E. Moerner The fluorescence dynamics of single molecules of green fluorescent protein J. Phys. Chem. A 103 1999 10553 10560
30. S. Basu, and Y. Gerchman R. Weiss A synthetic multicellular system for programmed pattern formation Nature 434 2005 1130 1134
31. S.R. Biggar, and G.R. Crabtree Cell signaling can direct either binary or graded transcriptional responses EMBO J. 20 2001 3167 3176
32. G. Akselrod, and W. Timp G. Timp Laser-guided assembly of living cell microarrays Biophys. J. 91 2006 3465 3473
33. W. Reik, W. Dean, and J. Walter Epigenetic reprogramming in mammalian development Science 293 2001 1089 1093
34. J. Demongeot, M. Kaufman, and R. Thomas Positive feedback circuits and memory C. R. Acad. Sci. III 323 2000 69 79
35. D. Bray Protein molecules as computational elements in living cells Nature 376 1995 307 312
36. R. Daniel, and J.R. Rubens T.K. Lu Synthetic analog computation in living cells Nature 2013 Published online:1476-4687