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Updated: Mar 28, 2026

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Transmission Electron Microscopy as the Visualization Technique for Analysis of Circadian Synaptic Plasticity in the Mouse Barrel Cortex
Published on: August 19, 2025
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Unbiased, High-Throughput Electron Microscopy Analysis of Experience-Dependent Synaptic Changes in the Neocortex
Santosh Chandrasekaran1, Saket Navlakha2, Nicholas J Audette1
1Department of Biological Sciences and Center for the Neural Basis of Cognition and.
Summary
Sensory experience alters neocortical circuits by changing synapse properties. This study used electron microscopy and machine learning for a broad analysis, revealing new sites of synaptic plasticity during development and whisker-dependent learning.
Area of Science:
- Neuroscience
- Synaptic Plasticity
- Cortical Circuitry
Background:
- Neocortical circuits undergo changes due to sensory and motor experiences, affecting synaptic properties.
- Previous research focused on specific neuronal pathways, leaving a gap in understanding column-wide adaptations.
- A comprehensive analysis is crucial for understanding how cortical circuits adapt to learning and altered sensory input.
Purpose of the Study:
- To perform an unbiased, broad-scale analysis of synaptic property changes across the entire cortical column.
- To investigate developmental and experience-dependent alterations in synaptic density and length.
- To identify new loci of synaptic plasticity in the neocortex.
Main Methods:
- Adaptation of electron microscopy for selective synapse labeling.
- Application of a machine-learning algorithm for semi-automated synapse detection.
- Comparative analysis of synapse density and length across development and during whisker-evoked plasticity in mice.
Main Results:
- Synapse density significantly increased in superficial layers (L1-L4) between postnatal days 14-18, with increased synapse length in L3 and L5B.
- Whisker deprivation for 24 hours led to increased synapse density in L2 and decreased density in L6, alongside increased length in L3.
- Electrophysiological analysis revealed a significant, nearly twofold increase in miniature excitatory postsynaptic current (mEPSC) frequency in L2 pyramidal neurons of the whisker-spared column.
Conclusions:
- Development and sensory experience dynamically alter neocortical synapse properties.
- The study utilized a semi-automated electron microscopy approach for unbiased, column-wide synaptic analysis.
- This method successfully identified novel sites of synaptic change, amenable to further electrophysiological verification and hypothesis generation.

