Abstract
The intricate architecture of neuronal cells suggests that morphology plays a key role in cellular function. Yet descriptions and analyses of neuronal signaling systems often focus solely on biochemical reaction pathways. Models developed from these data implicitly assume that reactions occur in well mixed homogenous environments with instantaneous diffusion. However, if we have any hope of building truly predictive quantitative models, the intricate geometries and large length scales of neurons compel us to explicitly account for molecular diffusion and spatial organization.
The intricate architecture of neuronal cells suggests that morphology plays a key role in cellular function. Yet descriptions and analyses of neuronal signaling systems often focus solely on biochemical reaction pathways. Models developed from these data implicitly assume that reactions occur in well mixed homogenous environments with instantaneous diffusion. However, if we have any hope of building truly predictive quantitative models, the intricate geometries and large length scales of neurons compel us to explicitly account for molecular diffusion and spatial organization.
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Courtesy of Maryanne Martone, Mark Ellisman and Masako Terada of the National Center for Microscopy and Imaging Research in San Diego, CA.
Bibliography
Aiba A, Kano M, Chen C, Stanton M, Fox G, Herrup K, Zwingman T, Tonegawa S (1994) Deficient cerebellar long-term depression and impaired motor learning in mGluR1 mutant mice. Cell 79:377–388
Alonso I, Costa C, Gomes A, Ferro A, Seixas A, Silva S, Cruz V, Coutinho P, Sequeiros J, Silveira I (2005) A novel H101Q mutation causes PKCgamma loss in spinocerebellar ataxia type 14. J Hum Genet 50:523–529
Andrews SS, Addy NJ, Brent R, Arkin AP (2010) Detailed simulations of cell biology with Smoldyn 2.1. PLoS Comput Biol 6:e1000705
Araya R, Jiang J, Eisenthal K, Yuste R (2006a) The spine neck filters membrane potentials. Proc Natl Acad Sci U S A 103:17961–17966
Araya R, Eisenthal K, Yuste R (2006b) Dendritic spines linearize the summation of excitatory potentials. Proc Natl Acad Sci U S A 103:18799–18804
Araya R, Nikolenko V, Eisenthal K, Yuste R (2007) Sodium channels amplify spine potentials. Proc Natl Acad Sci U S A 104:12347–12352
Bezprozvanny I, Watras J, Ehrlich B (1991) Bell-shaped calcium-response curves of Ins(1,4,5)P3- and calcium-gated channels from endoplasmic reticulum of cerebellum. Nature 351:751–754
Brown S-A, Loew LM (2009) Toward a computational model of IP3R1-associated ataxia. Biophys J 96((3:S1)):96a
Brown S-A, Loew LM (2012) Computational analysis of calcium signaling and membrane electrophysiology in cerebellar Purkinje neurons associated with ataxia. BMC Systems Biology (In Press)
Brown S, Morgan F, Watras J, Loew L (2008) Analysis of phosphatidylinositol-4,5-bisphosphate signaling in cerebellar Purkinje spines. Biophys J 95:1795–1812
Brown SA, Moraru II, Schaff J, Loew LM (2011) Virtual NEURON: a strategy for merged biochemical and electrophysiological modeling. J Comput Neurosci 31(2):385–400
Cheron G, Sausbier M, Sausbier U, Neuhuber W, Ruth P, Dan B, Servais L (2009) BK channels control cerebellar Purkinje and Golgi cell rhythmicity in vivo. PLoS One 4:e7991
Chung H, Xia J, Scannevin R, Zhang X, Huganir R (2000) Phosphorylation of the AMPA receptor subunit GluR2 differentially regulates its interaction with PDZ domain-containing proteins. J Neurosci 20:7258–7267
Chung H, Steinberg J, Huganir R, Linden D (2003) Requirement of AMPA receptor GluR2 phosphorylation for cerebellar long-term depression. Science 300:1751–1755
De Schutter E (2008) Why are computational neuroscience and systems biology so separate? PLoS Comput Biol 4:e1000078
De Smedt H, Missiaen L, Parys J, Henning R, Sienaert I, Vanlingen S, Gijsens A, Himpens B, Casteels R (1997) Isoform diversity of the inositol trisphosphate receptor in cell types of mouse origin. Biochem J 322(Pt 2):575–583
DeSouza N, Reiken S, Ondrias K, Yang Y, Matkovich S, Marks A (2002) Protein kinase a and two phosphatases are components of the inositol 1,4,5-trisphosphate receptor macromolecular signaling complex. J Biol Chem 277:39397–39400
Ferris C, Huganir R, Bredt D, Cameron A, Snyder S (1991) Inositol trisphosphate receptor: phosphorylation by protein kinase C and calcium calmodulin-dependent protein kinases in reconstituted lipid vesicles. Proc Natl Acad Sci U S A 88:2232–2235
Fiala J, Grossberg S, Bullock D (1996) Metabotropic glutamate receptor activation in cerebellar Purkinje cells as substrate for adaptive timing of the classically conditioned eye-blink response. J Neurosci 16:3760–3774
Finch E, Augustine G (1998) Local calcium signalling by inositol-1,4,5-trisphosphate in Purkinje cell dendrites. Nature 396:753–756
Fink C, Slepchenko B, Moraru I, Watras J, Schaff J, Loew L (2000) An image-based model of calcium waves in differentiated neuroblastoma cells. Biophys J 79:163–183
Fujiwara A, Hirose K, Yamazawa T, Iino M (2001) Reduced IP3 sensitivity of IP3 receptor in Purkinje neurons. Neuroreport 12:2647–2651
Goetz CG (2003) Textbook of clinical neurology. WB Saunders, St. Louis
Guida S, Trettel F, Pagnutti S, Mantuano E, Tottene A, Veneziano L, Fellin T, Spadaro M, Stauderman K, Williams M, Volsen S, Ophoff R, Frants R, Jodice C, Frontali M, Pietrobon D (2001) Complete loss of P/Q calcium channel activity caused by a CACNA1A missense mutation carried by patients with episodic ataxia type 2. Am J Hum Genet 68:759–764
Hall S, Armstrong D (2000) Conditional and unconditional inhibition of calcium-activated potassium channels by reversible protein phosphorylation. J Biol Chem 275:3749–3754
Harris K, Stevens J (1988) Dendritic spines of rat cerebellar Purkinje cells: serial electron microscopy with reference to their biophysical characteristics. J Neurosci 8:4455–4469
Harris K, Stevens J (2006) Anomalous diffusion in Purkinje cell dendrites caused by spines. Neuron 8:635–648
Hernjak N, Slepchenko B, Fernald K, Fink C, Fortin D, Moraru I, Watras J, Loew L (2005) Modeling and analysis of calcium signaling events leading to long-term depression in cerebellar Purkinje cells. Biophys J 89:3790–3806
Inoue T, Kato K, Kohda K, Mikoshiba K (1998) Type 1 inositol 1,4,5-trisphosphate receptor is required for induction of long-term depression in cerebellar Purkinje neurons. J Neurosci 18:5366–5373
Ito M (2001) Cerebellar long-term depression: characterization, signal transduction, and functional roles. Physiol Rev 81:1143–1195
Ito M, Kano M (1982) Long-lasting depression of parallel fiber-Purkinje cell transmission induced by conjunctive stimulation of parallel fibers and climbing fibers in the cerebellar cortex. Neurosci Lett 33:253–258
Ito M, Sakurai M, Tongroach P (1982) Climbing fibre induced depression of both mossy fibre responsiveness and glutamate sensitivity of cerebellar Purkinje cells. J Physiol 324:113–134
Iwaki A, Kawano Y, Miura S, Shibata H, Matsuse D, Li W, Furuya H, Ohyagi Y, Taniwaki T, Kira J, Fukumaki Y (2008) Heterozygous deletion of ITPR1, but not SUMF1, in spinocerebellar ataxia type 16. J Med Genet 45:32–35
Khodakhah K, Ogden D (1993) Functional heterogeneity of calcium release by inositol trisphosphate in single Purkinje neurones, cultured cerebellar astrocytes, and peripheral tissues. Proc Natl Acad Sci U S A 90:4976–4980
Kim D, Jun K, Lee S, Kang N, Min D, Kim Y, Ryu S, Suh P, Shin H (1997) Phospholipase C isozymes selectively couple to specific neurotransmitter receptors. Nature 389:290–293
Le Novère N (2007) The long journey to a Systems Biology of neuronal function. BMC Syst Biol 1:28
Matsumoto M, Nakagawa T, Inoue T, Nagata E, Tanaka K, Takano H, Minowa O, Kuno J, Sakakibara S, Yamada M, Yoneshima H, Miyawaki A, Fukuuchi Y, Furuichi T, Okano H, Mikoshiba K, Noda T (1996) Ataxia and epileptic seizures in mice lacking type 1 inositol 1,4,5-trisphosphate receptor. Nature 379:168–171
Moraru II, Schaff JC, Slepchenko BM, Blinov ML, Morgan F, Lakshminarayana A, Gao F, Li Y, Loew LM (2008) Virtual cell modelling and simulation software environment. IET Syst Biol 2:352–362
Neuroscience. Sinauer Associates, Inc
Nishizuka Y (1984) The role of protein kinase C in cell surface signal transduction and tumour promotion. Nature 308:693–698
Nishizuka Y (1988) The role of protein kinase C in cell surface signal transduction and tumour promotion. Nature 8:693–698
Palmer L, Stuart G (2009) Membrane potential changes in dendritic spines during action potentials and synaptic input. J Neurosci 29:6897–6903
Santamaria F, Wils S, De Schutter E, Augustine G (2006) Anomalous diffusion in Purkinje cell dendrites caused by spines. Neuron 52:635–648
Santamaria F, Watras J, Loew L (2008) Anomalous diffusion in Purkinje spines. Neuron 95: 635–648
Sarkisov D, Wang S (2008) Order-dependent coincidence detection in cerebellar Purkinje neurons at the inositol trisphosphate receptor. J Neurosci 28:133–142
Sausbier M, Hu H, Arntz C, Feil S, Kamm S, Adelsberger H, Sausbier U, Sailer C, Feil R, Hofmann F, Korth M, Shipston M, Knaus H, Wolfer D, Pedroarena C, Storm J, Ruth P (2004) Cerebellar ataxia and Purkinje cell dysfunction caused by Ca2+ −activated K + channel deficiency. Proc Natl Acad Sci U S A 101:9474–9478
Schaff J, Fink CC, Slepchenko B, Carson JH, Loew LM (1997) A general computational framework for modeling cellular structure and function. Biophys J 73:1135–1146
Schorge S, van de Leemput J, Singleton A, Houlden H, Hardy J (2010) Human ataxias: a genetic dissection of inositol triphosphate receptor (ITPR1)-dependent signaling. Trends Neurosci 33(5):211–219
Schwaller B, Meyer M, Schiffmann S (2002) ‘New’ functions for ‘'old’ proteins: the role of the calcium-binding proteins calbindin D-28 k, calretinin and parvalbumin, in cerebellar physiology. Studies with knockout mice. Cerebellum 1:241–258
Segev I, Friedman A, White E, Gutnick M (1995) Electrical consequences of spine dimensions in a model of a cortical spiny stellate cell completely reconstructed from serial thin sections. J Comput Neurosci 2:117–130
Slepchenko BM, Loew LM (2010) Use of virtual cell in studies of cellular dynamics. Int Rev Cell Mol Biol 283:1–56
Takechi H, Eilers J, Konnerth A (1998) A new class of synaptic response involving calcium release in dendritic spines. Nature 396:757–760
Turner D, Schwartzkroin P (1983) Electrical characteristics of dendrites and dendritic spines in intracellularly stained CA3 and dentate hippocampal neurons. J Neurosci 3:2381–2394
Walter J, Alviña K, Womack M, Chevez C, Khodakhah K (2006) Decreases in the precision of Purkinje cell pacemaking cause cerebellar dysfunction and ataxia. Nat Neurosci 9:389–397
Wang S, Denk W, Häusser M (2000) Coincidence detection in single dendritic spines mediated by calcium release. Nat Neurosci 3:1266–1273
Widmer H, Rowe I, Shipston M (2003) Conditional protein phosphorylation regulates BK channel activity in rat cerebellar Purkinje neurons. J Physiol 552:379–391
Xu C, Watras J, Loew L (2003) Kinetic analysis of receptor-activated phosphoinositide turnover. J Cell Biol 161:779–791
Yue Q, Jen J, Nelson S, Baloh R (1997) Progressive ataxia due to a missense mutation in a calcium-channel gene. Am J Hum Genet 61:1078–1087
Zhou W, Yan P, Wuskell J, Loew L, Antic S (2008) Dynamics of action potential backpropagation in basal dendrites of prefrontal cortical pyramidal neurons. Eur J Neurosci 27:923–936
Zhuchenko O, Bailey J, Bonnen P, Ashizawa T, Stockton D, Amos C, Dobyns W, Subramony S, Zoghbi H, Lee C (1997) Autosomal dominant cerebellar ataxia (SCA6) associated with small polyglutamine expansions in the alpha 1A-voltage-dependent calcium channel. Nat Genet 15:62–69
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Brown, SA., Holmes, R.M., Loew, L.M. (2012). Spatial Organization and Diffusion in Neuronal Signaling. In: Le Novère, N. (eds) Computational Systems Neurobiology. Springer, Dordrecht. https://doi.org/10.1007/978-94-007-3858-4_5
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