Modeling of olfactory transduction in AWCON neuron via coupled electrical-calcium dynamics

Structural and functional characterization of Caenorhabditis elegans cyclic GMP-activated channel TAX-4 via molecular dynamics simulations

Cyclic nucleotide-gated (CNG) ion channels are crucial to the intracellular calcium dynamics in neurons and other sensory cells, in several organisms. Mutations in CNG genes are linked to various dysfunctions and diseases. In this work, we propose a theoretical investigation of the structural and functional properties of wild-type TAX-4, a non-selective CNG ion channel, expressed in various sensory neurons of Caenorhabditis elegans, and involved in the permeation of monovalent and multivalent cations. Using a recent cryo-electron microscopy structure of the open state of the channel as the starting conformation, we conduct all-atom molecular dynamics simulations of the full-length channel in a membrane/water/ions system, both in the cGMP-bound and unbound conformations. Several channel structural descriptors are examined and a first-level functional annotation is carried out, on the microsecond time scale. A comparison with the available experimental data on TAX-4 and human homologues allows us to assign the simulated bound and unbound models as the pre-open and closed conformations of TAX-4, respectively. Comparisons between the bound and unbound conformations enable us to suggest key conformational changes underlying the binding-to-gating transition.

Biophysical modeling of the whole-cell dynamics of C. elegans motor and interneurons families

The nematode Caenorhabditis elegans is a widely used model organism for neuroscience. Although its nervous system has been fully reconstructed, the physiological bases of single-neuron functioning are still poorly explored. Recently, many efforts have been dedicated to measuring signals from C. elegans neurons, revealing a rich repertoire of dynamics, including bistable responses, graded responses, and action potentials. Still, biophysical models able to reproduce such a broad range of electrical responses lack. Realistic electrophysiological descriptions started to be developed only recently, merging gene expression data with electrophysiological recordings, but with a large variety of cells yet to be modeled. In this work, we contribute to filling this gap by providing biophysically accurate models of six classes of C. elegans neurons, the AIY, RIM, and AVA interneurons, and the VA, VB, and VD motor neurons. We test our models by comparing computational and experimental time series and simulate knockout neurons, to identify the biophysical mechanisms at the basis of inter and motor neuron functioning. Our models represent a step forward toward the modeling of C. elegans neuronal networks and virtual experiments on the nematode nervous system.