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Large-scale cellular-resolution read/write of activity enables discovery of cell types defined by complex circuit properties
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Large-scale cellular-resolution read/write of activity enables discovery of cell types defined by complex circuit…

Antonia Drinnenberg, Alexander Attinger, Allan Raventos +12 more
October 2025
 ·
bioRxiv
 ·
DOI 
10.1101/2025.10.21.683734
94
%
Reproducible
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It ranks in the top 1% of preprints assessed in Neuroscience this quarter.
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Why this is interesting

By delivering an order-of-magnitude leap in all-optical neural access, this work overturns like-to-like cortical wiring rules, revealing a functionally defined SST interneuron subnetwork invisible to genetic or anatomical classification alone.

QED claims analysis

Summary

Development of stable transgenic all-optical tools enabling read-write access to thousands of individually-defined cortical neurons reveals a functionally distinct subclass of deep layer 2/3 somatostatin-positive interneurons that exhibit general ensemble-response properties, being robustly recruited by diverse large-scale excitatory activity patterns through broad spatial integration and low activation thresholds, thereby defying conventional like-to-like connectivity rules and suggesting a specialized role in monitoring and normalizing distributed cortical excitation.

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Main Claim 1 –

Ai228/Ai229 Transgenics Enable Stable ChRmine–GCaMP6m All-Optical Access

Supporting evidence

  • Ai228 Achieves Efficient, Precise Photostimulation at Low Power
  • Cre Drivers Enable Layer-Specific All-Optical Access With Ai228
  • Ai229 Preserves Red Channel but Slightly Reduces Performance
  • Transgenic Strategy Reduces Imaging-Laser Cross-Stimulation Versus Viral Methods
Main Claim 2 –

Follower-Focused Strategy Enables 10,000-Neuron Readout and 1,000-Neuron Read-Write

Main Claim 3 –

Downstream Non-Target Responses Decode Ensemble Identity Within and Across Areas

Supporting evidence

  • Functional Ensembles Recruit Iso-Tuned Neurons Over >150 µm Distances
Main Claim 4 –

GER Neurons Follow Multiple Ensembles at >20-Fold Chance Rates

Supporting evidence

  • GER Neurons Are Broadly Responsive, Synchronous, and Deep L2/3 Enriched
  • Modeling Indicates GER Requires Low Threshold and Broad Spatial Integration

Abstract

The complexity of the mammalian brain’s vast population of interconnected neurons poses a formidable challenge to elucidate its underlying mechanisms of coordination and computation. A key step forward will be technologies that can perform large-scale, cellular-resolution monitoring and interrogation of distributed brain circuit activity in behaving animals. Here, we present an all-optical strategy for precise optogenetic activity control of ∼103 neurons and simultaneous activity monitoring of ∼104 neurons within and across areas of mouse cortex—an order-of-magnitude leap beyond previous capabilities. Tracking population responses following delivery of precisely-defined widely-distributed activity patterns to the visual cortex of awake mice, we were surprised to identify neurons robustly responsive to stimulation of diverse ensembles, defying conventional like-to-like wiring rules. These cells were primarily deep L2/3 somatostatin-positive (SST) interneurons with functional properties distinct from other SST neurons, and appeared to play a role in brain dynamics that could only have been identified through broad cellular-resolution circuit interrogation. Our work reveals the value of measuring large-scale circuit-dynamical properties of functionally-resolved single cells, beyond genetic and anatomical classification, to define and explore the roles of cell types in brain function.

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