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Sarathy, C.

Publications and source records attributed to Sarathy, C..

2 recordsLinked to original sources

Hyperpolarization activated cation channel mediated intrinsic plasticity changes underlie the malleability of with-in cell-type electrophysiological heterogeneity

Within cell-type neuronal electrophysiological, morphological, and transcriptomic heterogeneity is the norm in the brain. Although generally considered a fixed property within cell-types, this heterogeneity is malleable and declines in regions of the human brain that generate seizures. Building off this foundational work we hypothesize that such plasticity of cell-type heterogeneity, specifically its decline, arises from the shared history of neuronal activity that drive intrinsic plasticity mechanisms in a concerted fashion. To explore this hypothesis we study neuronal activity in two model systems: human cortical slice cultures from patients with epilepsy as well as slices from the medial prefrontal cortex (mPFC) and subiculum of rodent kainic acid (KA) model of temporal lobe epilepsy. Biophysical properties and spiking dynamics were characterized using whole-cell patch clamp recordings of layer 2 and layer 3 (L2&3) pyramidal neurons in human slice culture as well as deep layer subicular neurons and layer 5 (L5) mPFC of KA mice. We found a significant decline in biophysical heterogeneity and a reduction in information coding in both the KA and slice culture models. In both these models we found a consistent increase in hyperpolarization-activated cation current (HCN) dependent electrophysiological properties, the blockade of which restored electrophysiological heterogeneity and information coding. Our findings demonstrate that within cell-type heterogeneity is malleable, and despite being a complex distributed network property, can be tuned by a single ionic current. These findings emphasize the plasticity of within cell-type heterogeneity, suggesting the potential for targeted interventions to restore neuronal heterogeneity changes that accompany epilepsy and potentially other neurological and neuropsychiatric diseases.

neuroscience↗

ComMet: A method for comparing metabolic states in genome-scale metabolic models

Being comprehensive knowledge bases of cellular metabolism, Genome-scale metabolic models (GEMs) serve as mathematical tools for studying cellular flux states in various organisms. However, analysis of large-scale (human) GEMs, still presents considerable challenges with respect to objective selection and reaction flux constraints. In this study, we introduce a model-based method, ComMet (Comparison of Metabolic states), for comprehensive analysis of large metabolic flux spaces and comparison of various metabolic states. ComMet allows (a) an in-depth characterisation of achievable flux states, (b) comparison of flux spaces from several conditions of interest and (c) identification and visualization of metabolically distinct network modules. As a proof-of-principle, we employed ComMet to extract the biochemical differences in the human adipocyte network (iAdipocytes1809) arising due to unlimited/blocked uptake of branched-chain amino acids. Our study opens avenues for exploring several metabolic conditions of interest in both microbe and human models. ComMet is open-source and is available at https://github.com/macsbio/commet.

systems biology↗