The interplay between cooperativity and diversity in model threshold ensembles

Journal of the Royal Society Interface

Volumn 11, Issue 99, 2014, Pages

  Cervera, Javier ^a   Manzanares, José A ^a   Mafe, Salvador ^a  

^a UNIVERSITY OF VALENCIA   (Spain)

Author keywords

Biological diversity; Cooperativity phenomena; Threshold response

Indexed keywords

BIODIVERSITY; CELL ENGINEERING; CELL MEMBRANES; CYTOLOGY; MOLECULAR BIOLOGY;

BIOLOGICALLY INSPIRED; COOPERATIVITY; ELECTRICAL TRANSDUCTION; EXPERIMENTAL CHARACTERIZATION; INDIVIDUAL VARIABILITY; SINGLE MOLECULE EXPERIMENTS; STATISTICAL DISTRIBUTION; THRESHOLD RESPONSE;

BEHAVIORAL RESEARCH;

CARBON NANOTUBE; NANOWIRE; NANOMATERIAL;

ARTICLE; CELL MEMBRANE; COMPUTER INTERFACE; COMPUTER LANGUAGE; COOPERATIVITY AND DIVERSITY; ELECTRIC CONDUCTIVITY; FIELD EFFECT TRANSISTOR; INFORMATION PROCESSING; LIGAND BINDING; NANOENGINEERING; THEORETICAL MODEL; BIOENGINEERING; CHEMISTRY; COMPUTER SIMULATION; METABOLISM; PROCEDURES; SYSTEMS BIOLOGY;

BIOENGINEERING; CELL MEMBRANE; COMPUTER SIMULATION; ELECTRIC CONDUCTIVITY; MODELS, THEORETICAL; NANOSTRUCTURES; SYSTEMS BIOLOGY;

EID: 84964313675     PISSN: 17425689     EISSN: 17425662     Source Type: Journal    
DOI: 10.1098/rsif.2014.0099     Document Type: Article

References (38)

1. Kussell E, Leibler S. 2005 Phenotypic diversity, population growth, and information in fluctuating environments. Science 309, 2075-2078. (doi:10. 1126/science.1114383)
2. MacArthur BD, Lemischka IR. 2013 Statistical mechanics of pluripotency. Cell 154, 484-489. (doi:10.1016/j.cell.2013.07.024)
3. Hille B. 1991 Ionic channels of excitable membranes, 2nd edn. Sunderland, MA: Sinauer Associates Inc.
4. Meilhac N, Destainville N. 2011 Clusters of proteins in biomembranes: insights into the roles of interaction potential shapes and of protein diversity. J. Phys. Chem. B 115, 7190-7199. (doi:10.1021/jp1099865)
5. Padmanabhan K, Urban NN. 2010 Efficient coding in heterogeneous neuronal populations. Nat. Neurosci. 13, 1276-1282. (doi:10.1038/nn.2630)
6. Tripathy SJ, Padmanabhan K, Gerkin RC, Urban NN. 2013 Intermediate intrinsic diversity enhances neural population coding. Proc. Natl Acad. Sci. USA 110, 8248-8253. (doi:10.1073/pnas.1221214110)
7. Chelaru MI, Dragoi V. 2008 Efficient coding in heterogeneous neuronal populations. Proc. Natl Acad. Sci. USA 105, 16 344-16 349. (doi:10.1073/pnas.0807744105)
8. Hammes GG, Benkovic SJ, Hammes-Schiffer S. 2011 Flexibility, diversity, and cooperativity: pillars of enzyme catalysis. Biochemistry 50, 10 422-10 430. (doi:10.1021/bi201486f )
9. Solomatin SV, Greenfeld M, Herschlag D. 2011 Implications of molecular heterogeneity for the cooperativity of biological macromolecules. Nat. Struct. Mol. Biol. 18, 732-734. (doi:10.1038/nsmb.2052)
10. Waltermann C, Klipp E. 2011 Information theory based approaches to cellular signaling. Biochim. Biophys. Acta Gen. Subj. 1810, 924-932. (doi:10.1016/j.bbagen.2011.07.009)
11. Germain RN. 2001 The art of the probable: system control in the adaptive immune system. Science 293, 240-245. (doi:10.1126/science.1062946)
12. Huang M, Volgushev M, Wolf F. 2012 A small fraction of strongly cooperative sodium channels boosts neuronal encoding of high frequencies. PLoS ONE 7, e37629. (doi:10.1371/journal.pone.0037629)
13. Cervera J, Mafe S. 2013 Threshold diversity effects on the electric currents of voltage-gated ion channels. Europhys. Lett. 102, 68002. (doi:10.1209/0295-5075/102/68002)
14. Hill TL. 1985 Cooperativity theory in biochemistry, steady state and equilibrium systems. New York, NY: Springer.
15. Ben-Naim A. 2001 Cooperativity and regulation in biochemical processes. New York, NY: Kluwer.
16. Erdem R, Aydiner E. 2009 Monte Carlo simulation for statistical mechanics model of ion-channel cooperativity in cell membranes. Phys. Rev. E 79, 031919. (doi:10.1103/PhysRevE.79.031919)
17. Cervera J, Claver J, Mafe S. 2013 Individual variability and average reliability in parallel networks of heterogeneous biological and artificial nanostructures. IEEE Trans. Nanotechnol. 12, 1198-1205. (doi:10.1109/TNANO.2013.2283871)
18. Platkiewicz J, Brette RA. 2010 A threshold equation for action potential initiation. PLoS Comput. Biol. 6, e1000850. (doi:10.1371/journal.pcbi.1000850)
19. Cervera J, Manzanares JA, Mafe S. 2013 Biologically inspired information processing and synchronization in ensembles of non-identical threshold-potential nanostructures. PLoS ONE 8, e53821. (doi:10.1371/journal.pone.0053821)
20. Barber MJ, Ristig ML. 2006 Multiple thresholds in a model system of noisy ion channels. Phys. Rev. E 74, 041913. (doi:10.1103/PhysRevE.74.041913)
21. Kullman L, Gurnev PA, Winterhalter M, Bezrukov SM. 2006 Functional subconformations in protein folding: evidence from single-channel experiments. Phys. Rev. Lett. 96, 038101. (doi:10.1103/PhysRevLett.96.038101)
22. Levin M. 2012 Molecular bioelectricity in developmental biology: new tools and recent discoveries. Bioessays 34, 205-217. (doi:10.1002/bies.201100136)
23. Stein RB, Gossen ER, Jones KE. 2005 Neuronal variability: noise or part of the signal? Nat. Rev. Neurosci. 6, 389-397. (doi:10.1038/nrn1668)
24. Kasai S, Miura K, Shiratori Y. 2010 Thresholdvariation-enhanced adaptability of response in a nanowire field-effect transistor network. Appl. Phys. Lett. 96, 194102. (doi:10.1063/1.3428784)
25. Lin A, Patil N, Ryu K, Badmaev A, Gomez De Arco L, Zhou C, Mitra S, Wong H-SP. 2009 Threshold voltage and on-off ratio tuning for multiple-tube carbon nanotube FETs. IEEE Trans. Nanotechnol. 8, 4-9. (doi:10.1109/TNANO.2008.2004706)
26. Manzanares JA, Cervera J, Mafé S. 2011 Processing weak electrical signals with threshold-potential nanostructures showing a high variability. Appl. Phys. Lett. 99, 153703. (doi:10.1063/1.3650712)
27. Chacron MJ, Lindner B, Longtin A. 2007 Threshold fatigue and information transfer. J. Comput. Neurosci. 23, 301-313. (doi:10.1007/s10827-007-0033-y)
28. Häusser M, Sprutson N, Stuart GJ. 2000 Diversity and dynamics of dendritic signaling. Science 290, 739-744. (doi:10.1126/science.290.5492.739)
29. Manzanares JA, Cervera J, Mafé S. 2011 Cooperative effects enhance electric-field-induced conductance switching in molecular monolayers. J. Phys. Chem. C 115, 6980-6985. (doi:10.1021/jp202228n)
30. Queralt-Martín M, García-Giménez E, Aguilella VM, Ramirez P, Mafe S, Alcaraz A. 2013 Electrical pumping of potassium ions against an external concentration gradient in a biological ion channel. Appl. Phys. Lett. 103, 043707. (doi:10.1063/1.4816748)
31. Ramirez P, Gomez V, Ali M, Ensinger W, Mafe S. 2013 Net currents obtained from zero-average potentials in single amphoteric nanopores. Electrochem. Commun. 31, 137-140. (doi:10.1016/j.elecom.2013.03.026)
32. Guseva K, Thiel M, Booth I, Miller S, Grebogi C, de Moura A. 2011 Collective response of self-organized clusters of mechanosensitive channels. Phys. Rev. E 83, 020901. (doi:10.1103/PhysRevE.83.020901)
33. Ursell T, Huang KC, Peterson E, Phillips R. 2007 Cooperative gating and spatial organization of membrane proteins through elastic interactions. PLoS Comput. Biol. 3, e81. (doi:10.1371/journal.pcbi.0030081)
34. Hudspeth AJ, Choe Y, Mehta AD, Martin P. 2000 Putting ion channels to work: mechanoelectrical transduction, adaptation, and amplification by hair cells. Proc. Natl Acad. Sci. USA 97, 11 765-11 772. (doi:10.1073/pnas.97.22.11765)
35. Simpson ML, Cummings PT. 2011 Fluctuations and correlations in physical and biological nanosystems: the tale is in the tails. ACS Nano 5, 2425-2432. (doi:10.1021/nn201011m)
36. Rubin H. 2006 What keeps cells in tissues behaving normally in the face of myriad mutations? Bioessays 28, 515-524. (doi:10.1002/bies.20403).
37. Alkasab TK, White J, Kauer JS. 2002 A computational system for simulating and analyzing arrays of biological and artificial chemical sensors. Chem. Senses 27, 261-275. (doi:10.1093/chemse/27.3.261)
38. Fonollosa J, Gutierrez-Galvez A, Marco S. 2012 Quality coding by neural populations in the early olfactory pathway: analysis using information theory and lessons for artificial olfactory systems. PLoS ONE 7, e37809. (doi:10.1371/journal.pone.0037809)