Literature DB >> 20018658

Building biological memory by linking positive feedback loops.

Dong-Eun Chang1, Shelly Leung, Mariette R Atkinson, Aaron Reifler, Daniel Forger, Alexander J Ninfa.   

Abstract

A common topology found in many bistable genetic systems is two interacting positive feedback loops. Here we explore how this relatively simple topology can allow bistability over a large range of cellular conditions. On the basis of theoretical arguments, we predict that nonlinear interactions between two positive feedback loops can produce an ultrasensitive response that increases the range of cellular conditions at which bistability is observed. This prediction was experimentally tested by constructing a synthetic genetic circuit in Escherichia coli containing two well-characterized positive feedback loops, linked in a coherent fashion. The concerted action of both positive feedback loops resulted in bistable behavior over a broad range of inducer concentrations; when either of the feedback loops was removed, the range of inducer concentrations at which the system exhibited bistability was decreased by an order of magnitude. Furthermore, bistability of the system could be tuned by altering growth conditions that regulate the contribution of one of the feedback loops. Our theoretical and experimental work shows how linked positive feedback loops may produce the robust bistable responses required in cellular networks that regulate development, the cell cycle, and many other cellular responses.

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Year:  2009        PMID: 20018658      PMCID: PMC2806707          DOI: 10.1073/pnas.0908314107

Source DB:  PubMed          Journal:  Proc Natl Acad Sci U S A        ISSN: 0027-8424            Impact factor:   11.205


  30 in total

1.  Transcriptional control: rheostat converted to on/off switch.

Authors:  F M Rossi; A M Kringstein; A Spicher; O M Guicherit; H M Blau
Journal:  Mol Cell       Date:  2000-09       Impact factor: 17.970

2.  Building a cell cycle oscillator: hysteresis and bistability in the activation of Cdc2.

Authors:  Joseph R Pomerening; Eduardo D Sontag; James E Ferrell
Journal:  Nat Cell Biol       Date:  2003-04       Impact factor: 28.824

3.  A positive-feedback-based bistable 'memory module' that governs a cell fate decision.

Authors:  Wen Xiong; James E Ferrell
Journal:  Nature       Date:  2003-11-27       Impact factor: 49.962

4.  Bistability in cell signaling: How to make continuous processes discontinuous, and reversible processes irreversible.

Authors:  James E. Ferrell; Wen Xiong
Journal:  Chaos       Date:  2001-03       Impact factor: 3.642

5.  Influence of catabolite repression and inducer exclusion on the bistable behavior of the lac operon.

Authors:  Moisés Santillán; Michael C Mackey
Journal:  Biophys J       Date:  2004-03       Impact factor: 4.033

6.  Bistability, stochasticity, and oscillations in the mitogen-activated protein kinase cascade.

Authors:  Xiao Wang; Nan Hao; Henrik G Dohlman; Timothy C Elston
Journal:  Biophys J       Date:  2005-12-16       Impact factor: 4.033

7.  Interlinked fast and slow positive feedback loops drive reliable cell decisions.

Authors:  Onn Brandman; James E Ferrell; Rong Li; Tobias Meyer
Journal:  Science       Date:  2005-10-21       Impact factor: 47.728

8.  Inducer exclusion in Escherichia coli by non-PTS substrates: the role of the PEP to pyruvate ratio in determining the phosphorylation state of enzyme IIAGlc.

Authors:  B M Hogema; J C Arents; R Bader; K Eijkemans; H Yoshida; H Takahashi; H Aiba; P W Postma
Journal:  Mol Microbiol       Date:  1998-11       Impact factor: 3.501

9.  Bistability in the JNK cascade.

Authors:  C P Bagowski; J E Ferrell
Journal:  Curr Biol       Date:  2001-08-07       Impact factor: 10.834

10.  Activation of the glnA, glnK, and nac promoters as Escherichia coli undergoes the transition from nitrogen excess growth to nitrogen starvation.

Authors:  Mariette R Atkinson; Timothy A Blauwkamp; Vladamir Bondarenko; Vasily Studitsky; Alexander J Ninfa
Journal:  J Bacteriol       Date:  2002-10       Impact factor: 3.490

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  33 in total

1.  Modification of CusSR bacterial two-component systems by the introduction of an inducible positive feedback loop.

Authors:  Sambandam Ravikumar; Van Dung Pham; Seung Hwan Lee; Ik-Keun Yoo; Soon Ho Hong
Journal:  J Ind Microbiol Biotechnol       Date:  2012-02-12       Impact factor: 3.346

2.  Mechanism of transcriptional repression at a bacterial promoter by analysis of single molecules.

Authors:  Alvaro Sanchez; Melisa L Osborne; Larry J Friedman; Jane Kondev; Jeff Gelles
Journal:  EMBO J       Date:  2011-08-09       Impact factor: 11.598

Review 3.  Strategies for manipulation of oxygen utilization by the electron transfer chain in microbes for metabolic engineering purposes.

Authors:  George N Bennett; Ka-Yiu San
Journal:  J Ind Microbiol Biotechnol       Date:  2016-10-31       Impact factor: 3.346

4.  Memory and adaptive behavior in population dynamics: anti-predator behavior as a case study.

Authors:  Alexander Pimenov; Thomas C Kelly; Andrei Korobeinikov; Michael J O'Callaghan; Dmitrii Rachinskii
Journal:  J Math Biol       Date:  2016-10-04       Impact factor: 2.259

Review 5.  Biological robustness and the role of microRNAs: a network perspective.

Authors:  Nicolás Peláez; Richard W Carthew
Journal:  Curr Top Dev Biol       Date:  2012       Impact factor: 4.897

Review 6.  DNA looping in prokaryotes: experimental and theoretical approaches.

Authors:  Axel Cournac; Jacqueline Plumbridge
Journal:  J Bacteriol       Date:  2013-01-04       Impact factor: 3.490

Review 7.  Control theory meets synthetic biology.

Authors:  Domitilla Del Vecchio; Aaron J Dy; Yili Qian
Journal:  J R Soc Interface       Date:  2016-07-20       Impact factor: 4.118

8.  Counterbalancing Regulation in Response Memory of a Positively Autoregulated Two-Component System.

Authors:  Rong Gao; Katherine A Godfrey; Mahir A Sufian; Ann M Stock
Journal:  J Bacteriol       Date:  2017-08-22       Impact factor: 3.490

9.  Axon growth regulation by a bistable molecular switch.

Authors:  Pranesh Padmanabhan; Geoffrey J Goodhill
Journal:  Proc Biol Sci       Date:  2018-04-25       Impact factor: 5.349

10.  Robust, tunable genetic memory from protein sequestration combined with positive feedback.

Authors:  Tatenda Shopera; William R Henson; Andrew Ng; Young Je Lee; Kenneth Ng; Tae Seok Moon
Journal:  Nucleic Acids Res       Date:  2015-09-17       Impact factor: 16.971

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