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      Biological complexity facilitates tuning of the neuronal parameter space

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          Abstract

          The electrical and computational properties of neurons in our brains are determined by a rich repertoire of membrane-spanning ion channels and elaborate dendritic trees. However, the precise reason for this inherent complexity remains unknown, given that simpler models with fewer ion channels are also able to functionally reproduce the behaviour of some neurons. Here, we stochastically varied the ion channel densities of a biophysically detailed dentate gyrus granule cell model to produce a large population of putative granule cells, comparing those with all 15 original ion channels to their reduced but functional counterparts containing only 5 ion channels. Strikingly, valid parameter combinations in the full models were dramatically more frequent at ~6% vs. ~1% in the simpler model. The full models were also more stable in the face of perturbations to channel expression levels. Scaling up the numbers of ion channels artificially in the reduced models recovered these advantages confirming the key contribution of the actual number of ion channel types. We conclude that the diversity of ion channels gives a neuron greater flexibility and robustness to achieve a target excitability.

          Author summary

          Over the course of billions of years, evolution has led to a wide variety of biological systems. The emergence of the more complex among these seems surprising in the light of the high demands of searching for viable solutions in a correspondingly high-dimensional parameter space. In realistic neuron models with their inherently complex ion channel composition, we find a surprisingly large number of viable solutions when selecting parameters randomly. This effect is strongly reduced in models with fewer ion channel types but is recovered when inserting additional artificial ion channels. Because concepts from probability theory provide a plausible explanation for this improved distribution of valid model parameters, we propose that this effect may generalise to evolutionary selection in other complex biological systems.

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          Most cited references76

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          Optimization by simulated annealing.

          There is a deep and useful connection between statistical mechanics (the behavior of systems with many degrees of freedom in thermal equilibrium at a finite temperature) and multivariate or combinatorial optimization (finding the minimum of a given function depending on many parameters). A detailed analogy with annealing in solids provides a framework for optimization of the properties of very large and complex systems. This connection to statistical mechanics exposes new information and provides an unfamiliar perspective on traditional optimization problems and methods.
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            Nature, nurture, or chance: stochastic gene expression and its consequences.

            Gene expression is a fundamentally stochastic process, with randomness in transcription and translation leading to cell-to-cell variations in mRNA and protein levels. This variation appears in organisms ranging from microbes to metazoans, and its characteristics depend both on the biophysical parameters governing gene expression and on gene network structure. Stochastic gene expression has important consequences for cellular function, being beneficial in some contexts and harmful in others. These situations include the stress response, metabolism, development, the cell cycle, circadian rhythms, and aging.
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              Variability, compensation and homeostasis in neuron and network function.

              Neurons in most animals live a very long time relative to the half-lives of all of the proteins that govern excitability and synaptic transmission. Consequently, homeostatic mechanisms are necessary to ensure stable neuronal and network function over an animal's lifetime. To understand how these homeostatic mechanisms might function, it is crucial to understand how tightly regulated synaptic and intrinsic properties must be for adequate network performance, and the extent to which compensatory mechanisms allow for multiple solutions to the production of similar behaviour. Here, we use examples from theoretical and experimental studies of invertebrates and vertebrates to explore several issues relevant to understanding the precision of tuning of synaptic and intrinsic currents for the operation of functional neuronal circuits.
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                Author and article information

                Contributors
                Role: ConceptualizationRole: Data curationRole: Formal analysisRole: InvestigationRole: MethodologyRole: SoftwareRole: ValidationRole: VisualizationRole: Writing – original draftRole: Writing – review & editing
                Role: ConceptualizationRole: Data curationRole: Formal analysisRole: InvestigationRole: MethodologyRole: SoftwareRole: ValidationRole: VisualizationRole: Writing – original draftRole: Writing – review & editing
                Role: ConceptualizationRole: Writing – review & editing
                Role: ConceptualizationRole: SupervisionRole: Writing – original draftRole: Writing – review & editing
                Role: ConceptualizationRole: Funding acquisitionRole: Project administrationRole: ResourcesRole: SupervisionRole: Writing – original draftRole: Writing – review & editing
                Role: ConceptualizationRole: Funding acquisitionRole: Project administrationRole: ResourcesRole: SupervisionRole: Writing – original draftRole: Writing – review & editing
                Role: Editor
                Journal
                PLoS Comput Biol
                PLoS Comput Biol
                plos
                PLOS Computational Biology
                Public Library of Science (San Francisco, CA USA )
                1553-734X
                1553-7358
                July 2023
                3 July 2023
                : 19
                : 7
                : e1011212
                Affiliations
                [1 ] Frankfurt Institute for Advanced Studies, Frankfurt am Main, Germany
                [2 ] Ernst Strüngmann Institute (ESI) for Neuroscience in cooperation with the Max Planck Society, Frankfurt am Main, Germany
                [3 ] ICAR3R—Interdisciplinary Centre for 3Rs in Animal Research, Justus Liebig University Giessen, Giessen, Germany
                [4 ] Faculty of Physics, Goethe University, Frankfurt/Main, Frankfurt am Main, Germany
                [5 ] Institute for Biology, Humboldt-Universität zu Berlin, Berlin, Germany
                [6 ] Faculty of Computer Science and Mathematics, Goethe University, Frankfurt am Main, Germany
                [7 ] Institute of Clinical Neuroanatomy, Neuroscience Center, Goethe University, Frankfurt am Main, Germany
                Instytut Biologii Doswiadczalnej im M Nenckiego Polskiej Akademii Nauk, POLAND
                Author notes

                The authors have declared that no competing interests exist.

                Author information
                https://orcid.org/0000-0002-8405-4131
                https://orcid.org/0000-0003-1610-0201
                https://orcid.org/0000-0001-5445-0507
                Article
                PCOMPBIOL-D-23-00254
                10.1371/journal.pcbi.1011212
                10353791
                37399220
                3cd105a3-11ca-4492-ba66-e1bc776fa505
                © 2023 Schneider et al

                This is an open access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.

                History
                : 16 February 2023
                : 24 May 2023
                Page count
                Figures: 4, Tables: 0, Pages: 24
                Funding
                Funded by: BMBF
                Award ID: 01GQ1406
                Award Recipient :
                Funded by: BMBF
                Award ID: No. 031L0229
                Award Recipient :
                Funded by: Behring Röntgen Foundation
                Award Recipient :
                Funded by: funder-id http://dx.doi.org/10.13039/501100022604, Johanna Quandt Stiftung;
                Award Recipient :
                Funded by: LOEWE CePTER – Center for Personalized Translational Epilepsy Research
                Award Recipient :
                This work was supported by BMBF (No. 01GQ1406 - Bernstein Award 2013 to HC, No. 031L0229 - HUMANEUROMOD to PJ) and by funds from the von Behring Röntgen Foundation to PJ. JT acknowledges support by the Johanna Quandt foundation and LOEWE CePTER – Center for Personalized Translational Epilepsy Research. The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript.
                Categories
                Research Article
                Biology and Life Sciences
                Biophysics
                Ion Channels
                Physical Sciences
                Physics
                Biophysics
                Ion Channels
                Biology and Life Sciences
                Physiology
                Electrophysiology
                Ion Channels
                Biology and Life Sciences
                Physiology
                Electrophysiology
                Neurophysiology
                Ion Channels
                Biology and Life Sciences
                Neuroscience
                Neurophysiology
                Ion Channels
                Biology and Life Sciences
                Biochemistry
                Proteins
                Ion Channels
                Biology and Life Sciences
                Physiology
                Electrophysiology
                Membrane Potential
                Action Potentials
                Biology and Life Sciences
                Physiology
                Electrophysiology
                Neurophysiology
                Action Potentials
                Biology and Life Sciences
                Neuroscience
                Neurophysiology
                Action Potentials
                Biology and Life Sciences
                Cell Biology
                Cellular Types
                Animal Cells
                Neurons
                Biology and Life Sciences
                Neuroscience
                Cellular Neuroscience
                Neurons
                Biology and Life Sciences
                Physiology
                Electrophysiology
                Biology and Life Sciences
                Biophysics
                Ion Channels
                Potassium Channels
                Physical Sciences
                Physics
                Biophysics
                Ion Channels
                Potassium Channels
                Biology and Life Sciences
                Physiology
                Electrophysiology
                Ion Channels
                Potassium Channels
                Biology and Life Sciences
                Physiology
                Electrophysiology
                Neurophysiology
                Ion Channels
                Potassium Channels
                Biology and Life Sciences
                Neuroscience
                Neurophysiology
                Ion Channels
                Potassium Channels
                Biology and Life Sciences
                Biochemistry
                Proteins
                Ion Channels
                Potassium Channels
                Biology and Life Sciences
                Psychology
                Behavior
                Social Sciences
                Psychology
                Behavior
                Physical Sciences
                Mathematics
                Probability Theory
                Law of Large Numbers
                Physical Sciences
                Mathematics
                Probability Theory
                Random Variables
                Custom metadata
                vor-update-to-uncorrected-proof
                2023-07-18
                All relevant data and code is available at https://zenodo.org/record/7863310.

                Quantitative & Systems biology
                Quantitative & Systems biology

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