Literature DB >> 27074690

Cooperative Clustering Digitizes Biochemical Signaling and Enhances its Fidelity.

Edward Roob1, Nicola Trendel2, Pieter Rein Ten Wolde3, Andrew Mugler4.   

Abstract

Many membrane-bound molecules in cells form small clusters. It has been hypothesized that these clusters convert an analog extracellular signal into a digital intracellular signal and that this conversion increases signaling fidelity. However, the mechanism by which clusters digitize a signal and the subsequent effects on fidelity remain poorly understood. Here we demonstrate using a stochastic model of cooperative cluster formation that sufficient cooperation leads to digital signaling. We show that despite reducing the number of output states, which decreases fidelity, digitization also reduces noise in the system, which increases fidelity. The tradeoff between these effects leads to an optimal cluster size that agrees with experimental measurements.
Copyright © 2016 Biophysical Society. Published by Elsevier Inc. All rights reserved.

Mesh:

Year:  2016        PMID: 27074690      PMCID: PMC4833775          DOI: 10.1016/j.bpj.2016.02.031

Source DB:  PubMed          Journal:  Biophys J        ISSN: 0006-3495            Impact factor:   4.033


  32 in total

1.  Stochastic self-assembly of incommensurate clusters.

Authors:  M R D'Orsogna; G Lakatos; T Chou
Journal:  J Chem Phys       Date:  2012-02-28       Impact factor: 3.488

2.  Membrane clustering and the role of rebinding in biochemical signaling.

Authors:  Andrew Mugler; Aimee Gotway Bailey; Koichi Takahashi; Pieter Rein ten Wolde
Journal:  Biophys J       Date:  2012-03-06       Impact factor: 4.033

3.  Negative feedback self-regulation contributes to robust and high-fidelity transmembrane signal transduction.

Authors:  M Ángeles Serrano; Manuel Jurado; Ramon Reigada
Journal:  J R Soc Interface       Date:  2013-08-21       Impact factor: 4.118

4.  Raft protein clustering alters N-Ras membrane interactions and activation pattern.

Authors:  Sharon Eisenberg; Alison J Beckett; Ian A Prior; Frank J Dekker; Christian Hedberg; Herbert Waldmann; Marcelo Ehrlich; Yoav I Henis
Journal:  Mol Cell Biol       Date:  2011-08-01       Impact factor: 4.272

5.  N-Ras forms dimers at POPC membranes.

Authors:  Jörn Güldenhaupt; Till Rudack; Peter Bachler; Daniel Mann; Gemma Triola; Herbert Waldmann; Carsten Kötting; Klaus Gerwert
Journal:  Biophys J       Date:  2012-10-02       Impact factor: 4.033

6.  Spatial partitioning improves the reliability of biochemical signaling.

Authors:  Andrew Mugler; Filipe Tostevin; Pieter Rein ten Wolde
Journal:  Proc Natl Acad Sci U S A       Date:  2013-03-25       Impact factor: 11.205

7.  Chemical sensing by nonequilibrium cooperative receptors.

Authors:  Monica Skoge; Sahin Naqvi; Yigal Meir; Ned S Wingreen
Journal:  Phys Rev Lett       Date:  2013-06-11       Impact factor: 9.161

8.  H-Ras forms dimers on membrane surfaces via a protein-protein interface.

Authors:  Wan-Chen Lin; Lars Iversen; Hsiung-Lin Tu; Christopher Rhodes; Sune M Christensen; Jeffrey S Iwig; Scott D Hansen; William Y C Huang; Jay T Groves
Journal:  Proc Natl Acad Sci U S A       Date:  2014-02-10       Impact factor: 11.205

9.  Organization, dynamics, and segregation of Ras nanoclusters in membrane domains.

Authors:  Lorant Janosi; Zhenlong Li; John F Hancock; Alemayehu A Gorfe
Journal:  Proc Natl Acad Sci U S A       Date:  2012-05-04       Impact factor: 11.205

10.  Dynamics of cooperativity in chemical sensing among cell-surface receptors.

Authors:  Monica Skoge; Yigal Meir; Ned S Wingreen
Journal:  Phys Rev Lett       Date:  2011-10-18       Impact factor: 9.185

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  8 in total

1.  A Bayesian cluster analysis method for single-molecule localization microscopy data.

Authors:  Juliette Griffié; Michael Shannon; Claire L Bromley; Lies Boelen; Garth L Burn; David J Williamson; Nicholas A Heard; Andrew P Cope; Dylan M Owen; Patrick Rubin-Delanchy
Journal:  Nat Protoc       Date:  2016-11-17       Impact factor: 13.491

2.  Single-Molecule Imaging of Nav1.6 on the Surface of Hippocampal Neurons Reveals Somatic Nanoclusters.

Authors:  Elizabeth J Akin; Laura Solé; Ben Johnson; Mohamed El Beheiry; Jean-Baptiste Masson; Diego Krapf; Michael M Tamkun
Journal:  Biophys J       Date:  2016-09-20       Impact factor: 4.033

3.  The Interplay of Structural and Cellular Biophysics Controls Clustering of Multivalent Molecules.

Authors:  Aniruddha Chattaraj; Madeleine Youngstrom; Leslie M Loew
Journal:  Biophys J       Date:  2019-01-07       Impact factor: 4.033

4.  C2-domain mediated nano-cluster formation increases calcium signaling efficiency.

Authors:  Mike Bonny; Xin Hui; Julia Schweizer; Lars Kaestner; André Zeug; Karsten Kruse; Peter Lipp
Journal:  Sci Rep       Date:  2016-11-03       Impact factor: 4.379

5.  3D Bayesian cluster analysis of super-resolution data reveals LAT recruitment to the T cell synapse.

Authors:  Juliette Griffié; Leigh Shlomovich; David J Williamson; Michael Shannon; Jesse Aaron; Satya Khuon; Garth L Burn; Lies Boelen; Ruby Peters; Andrew P Cope; Edward A K Cohen; Patrick Rubin-Delanchy; Dylan M Owen
Journal:  Sci Rep       Date:  2017-06-22       Impact factor: 4.379

6.  An agent-based model of molecular aggregation at the cell membrane.

Authors:  Juliette Griffié; Ruby Peters; Dylan M Owen
Journal:  PLoS One       Date:  2020-02-07       Impact factor: 3.240

Review 7.  The Role of Protein and Lipid Clustering in Lymphocyte Activation.

Authors:  Rachel E Lamerton; Abbey Lightfoot; Daniel J Nieves; Dylan M Owen
Journal:  Front Immunol       Date:  2021-03-09       Impact factor: 7.561

8.  Inferring a nonlinear biochemical network model from a heterogeneous single-cell time course data.

Authors:  Yuki Shindo; Yohei Kondo; Yasushi Sako
Journal:  Sci Rep       Date:  2018-05-01       Impact factor: 4.379

  8 in total

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