Two-component genetic switch as a synthetic module with tunable stability.

Despite stochastic fluctuations, some genetic switches are able to retain their expression states through multiple cell divisions, providing epigenetic memory. We propose a novel rationale for tuning the functional stability of a simple synthetic gene switch through protein dimerization. Introducing an approximation scheme to access long-time stochastic dynamics of multiple-component gene circuits, we find that the spontaneous switching rate may exhibit greater than 8 orders of magnitude variation. The manipulation of the circuit's biochemical properties offers a practical strategy for designing robust epigenetic memory with synthetic circuits.

[1]  Jayajit Das,et al.  Purely stochastic binary decisions in cell signaling models without underlying deterministic bistabilities , 2007, Proceedings of the National Academy of Sciences.

[2]  A. Barabasi,et al.  Network biology: understanding the cell's functional organization , 2004, Nature Reviews Genetics.

[3]  M. A. Shea,et al.  The OR control system of bacteriophage lambda. A physical-chemical model for gene regulation. , 1985, Journal of molecular biology.

[4]  S. P. Sineoky,et al.  RecA-Independent Pathways of Lambdoid Prophage Induction in Escherichia coli , 1998 .

[5]  P. R. ten Wolde,et al.  Sampling rare switching events in biochemical networks. , 2004, Physical review letters.

[6]  J. Collins,et al.  Combinatorial promoter design for engineering noisy gene expression , 2007, Proceedings of the National Academy of Sciences.

[7]  Alexander D. Johnson,et al.  Functional and physical characterization of transcription initiation complexes in the bacteriophage lambda OR region. , 1985, The Journal of biological chemistry.

[8]  Anirvan M. Sengupta,et al.  Optimal path to epigenetic switching. , 2004, Physical review. E, Statistical, nonlinear, and soft matter physics.

[9]  P. V. von Hippel,et al.  Facilitated Target Location in Biological Systems* , 2022 .

[10]  Jeff Hasty,et al.  A synthetic gene network for tuning protein degradation in Saccharomyces cerevisiae , 2007, Molecular systems biology.

[11]  D. Tranchina,et al.  Stochastic mRNA Synthesis in Mammalian Cells , 2006, PLoS biology.

[12]  D. Endy Foundations for engineering biology , 2005, Nature.

[13]  Wilson W Wong,et al.  Single-cell zeroth-order protein degradation enhances the robustness of synthetic oscillator , 2007, Molecular systems biology.

[14]  J. W. Little,et al.  Robustness of a gene regulatory circuit , 1999, The EMBO journal.

[15]  J. Lisman A mechanism for memory storage insensitive to molecular turnover: a bistable autophosphorylating kinase. , 1985, Proceedings of the National Academy of Sciences of the United States of America.

[16]  A. Arkin,et al.  Stochastic kinetic analysis of developmental pathway bifurcation in phage lambda-infected Escherichia coli cells. , 1998, Genetics.

[17]  Ofer Biham,et al.  Genetic toggle switch without cooperative binding. , 2006, Physical review letters.

[18]  Jerome T. Mettetal,et al.  Stochastic switching as a survival strategy in fluctuating environments , 2008, Nature Genetics.

[19]  J. Hopfield,et al.  From molecular to modular cell biology , 1999, Nature.

[20]  J. Collins,et al.  Construction of a genetic toggle switch in Escherichia coli , 2000, Nature.

[21]  M. Thattai,et al.  Intrinsic noise in gene regulatory networks , 2001, Proceedings of the National Academy of Sciences of the United States of America.

[22]  Michael A. Gibson,et al.  Efficient Exact Stochastic Simulation of Chemical Systems with Many Species and Many Channels , 2000 .

[23]  J. Ferrell,et al.  A positive-feedback-based bistable ‘memory module’ that governs a cell fate decision , 2003, Nature.