Literature DB >> 21990429

Load-induced modulation of signal transduction networks.

Peng Jiang1, Alejandra C Ventura, Eduardo D Sontag, Sofia D Merajver, Alexander J Ninfa, Domitilla Del Vecchio.   

Abstract

Biological signal transduction networks are commonly viewed as circuits that pass along information--in the process amplifying signals, enhancing sensitivity, or performing other signal-processing tasks--to transcriptional and other components. Here, we report on a "reverse-causality" phenomenon, which we call load-induced modulation. Through a combination of analytical and experimental tools, we discovered that signaling was modulated, in a surprising way, by downstream targets that receive the signal and, in doing so, apply what in physics is called a load. Specifically, we found that non-intuitive changes in response dynamics occurred for a covalent modification cycle when load was present. Loading altered the response time of a system, depending on whether the activity of one of the enzymes was maximal and the other was operating at its minimal rate or whether both enzymes were operating at submaximal rates. These two conditions, which we call "limit regime" and "intermediate regime," were associated with increased or decreased response times, respectively. The bandwidth, the range of frequency in which the system can process information, decreased in the presence of load, suggesting that downstream targets participate in establishing a balance between noise-filtering capabilities and a circuit's ability to process high-frequency stimulation. Nodes in a signaling network are not independent relay devices, but rather are modulated by their downstream targets.

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Year:  2011        PMID: 21990429      PMCID: PMC8760836          DOI: 10.1126/scisignal.2002152

Source DB:  PubMed          Journal:  Sci Signal        ISSN: 1945-0877            Impact factor:   8.192


  32 in total

1.  Signaling properties of a covalent modification cycle are altered by a downstream target.

Authors:  Alejandra C Ventura; Peng Jiang; Lauren Van Wassenhove; Domitilla Del Vecchio; Sofia D Merajver; Alexander J Ninfa
Journal:  Proc Natl Acad Sci U S A       Date:  2010-05-17       Impact factor: 11.205

2.  MAPK substrate competition integrates patterning signals in the Drosophila embryo.

Authors:  Yoosik Kim; Mathieu Coppey; Rona Grossman; Leiore Ajuria; Gerardo Jiménez; Ze'ev Paroush; Stanislav Y Shvartsman
Journal:  Curr Biol       Date:  2010-02-18       Impact factor: 10.834

Review 3.  PII signal transduction proteins: sensors of alpha-ketoglutarate that regulate nitrogen metabolism.

Authors:  Alexander J Ninfa; Peng Jiang
Journal:  Curr Opin Microbiol       Date:  2005-04       Impact factor: 7.934

4.  Reconstitution of the signal-transduction bicyclic cascade responsible for the regulation of Ntr gene transcription in Escherichia coli.

Authors:  P Jiang; J A Peliska; A J Ninfa
Journal:  Biochemistry       Date:  1998-09-15       Impact factor: 3.162

Review 5.  Molecular bases for circadian clocks.

Authors:  J C Dunlap
Journal:  Cell       Date:  1999-01-22       Impact factor: 41.582

Review 6.  Signalling ballet in space and time.

Authors:  Boris N Kholodenko; John F Hancock; Walter Kolch
Journal:  Nat Rev Mol Cell Biol       Date:  2010-06       Impact factor: 94.444

7.  Signaling switches and bistability arising from multisite phosphorylation in protein kinase cascades.

Authors:  Nick I Markevich; Jan B Hoek; Boris N Kholodenko
Journal:  J Cell Biol       Date:  2004-01-26       Impact factor: 10.539

8.  Effects of sequestration on signal transduction cascades.

Authors:  Nils Blüthgen; Frank J Bruggeman; Stefan Legewie; Hanspeter Herzel; Hans V Westerhoff; Boris N Kholodenko
Journal:  FEBS J       Date:  2006-03       Impact factor: 5.542

9.  Modular cell biology: retroactivity and insulation.

Authors:  Domitilla Del Vecchio; Alexander J Ninfa; Eduardo D Sontag
Journal:  Mol Syst Biol       Date:  2008-02-12       Impact factor: 11.429

10.  A hidden feedback in signaling cascades is revealed.

Authors:  Alejandra C Ventura; Jacques-A Sepulchre; Sofía D Merajver
Journal:  PLoS Comput Biol       Date:  2008-03-21       Impact factor: 4.475

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  24 in total

1.  Sensitivity and robustness in covalent modification cycles with a bifunctional converter enzyme.

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Journal:  Biophys J       Date:  2013-10-15       Impact factor: 4.033

2.  The energy costs of insulators in biochemical networks.

Authors:  John P Barton; Eduardo D Sontag
Journal:  Biophys J       Date:  2013-03-19       Impact factor: 4.033

3.  Paradoxical results in perturbation-based signaling network reconstruction.

Authors:  Sudhakaran Prabakaran; Jeremy Gunawardena; Eduardo Sontag
Journal:  Biophys J       Date:  2014-06-17       Impact factor: 4.033

4.  A quantitative framework for the forward design of synthetic miRNA circuits.

Authors:  Ryan J Bloom; Sally M Winkler; Christina D Smolke
Journal:  Nat Methods       Date:  2014-09-14       Impact factor: 28.547

Review 5.  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

6.  A technique for determining the signs of sensitivities of steady states in chemical reaction networks.

Authors:  Eduardo D Sontag
Journal:  IET Syst Biol       Date:  2014-12       Impact factor: 1.615

Review 7.  How to train your microbe: methods for dynamically characterizing gene networks.

Authors:  Sebastian M Castillo-Hair; Oleg A Igoshin; Jeffrey J Tabor
Journal:  Curr Opin Microbiol       Date:  2015-02-10       Impact factor: 7.934

Review 8.  Logic-based models in systems biology: a predictive and parameter-free network analysis method.

Authors:  Michelle L Wynn; Nikita Consul; Sofia D Merajver; Santiago Schnell
Journal:  Integr Biol (Camb)       Date:  2012-11       Impact factor: 2.192

Review 9.  Design principles of regulatory networks: searching for the molecular algorithms of the cell.

Authors:  Wendell A Lim; Connie M Lee; Chao Tang
Journal:  Mol Cell       Date:  2013-01-24       Impact factor: 17.970

Review 10.  Nitrogen assimilation in Escherichia coli: putting molecular data into a systems perspective.

Authors:  Wally C van Heeswijk; Hans V Westerhoff; Fred C Boogerd
Journal:  Microbiol Mol Biol Rev       Date:  2013-12       Impact factor: 11.056

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