A single-cell transcriptomic atlas of sensory-dependent gene expression in developing mouse visual cortex

Xavier, Andre M, Lin, Qianyu, Kang, Chris J, Cheadle, Lucas (February 2025) A single-cell transcriptomic atlas of sensory-dependent gene expression in developing mouse visual cortex. Development. dev.204244. ISSN 0950-1991 (Public Dataset)

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Abstract

Sensory experience drives the maturation of neural circuits during postnatal brain development through molecular mechanisms that remain to be fully elucidated. One likely mechanism involves the sensory-dependent expression of genes that encode direct mediators of circuit remodeling within developing cells. To identify potential drivers of sensory-dependent synaptic development, we generated a single-nucleus RNA sequencing dataset describing the transcriptional responses of cells in mouse visual cortex to sensory deprivation or stimulation during a developmental window when visual input is necessary for circuit refinement. We sequenced 118,529 nuclei across sixteen neuronal and non-neuronal cell types isolated from control, sensory deprived, and sensory stimulated mice, identifying 1,268 sensory-induced genes within the developing brain. While experience elicited transcriptomic changes in all cell types, excitatory neurons in layer 2/3 exhibited the most robust changes, and the sensory-induced genes in these cells are poised to strengthen synapse-to-nucleus crosstalk and to promote cell-type-specific axon guidance pathways. Altogether, we expect this dataset to significantly broaden our understanding of the molecular mechanisms through which sensory experience shapes neural circuit wiring in the developing brain.

Item Type: Paper
Subjects: bioinformatics
bioinformatics > genomics and proteomics > genetics & nucleic acid processing
bioinformatics > genomics and proteomics
organism description > animal
organism description > animal > mammal
organism description > animal > mammal > rodent > mouse
organs, tissues, organelles, cell types and functions
organism description > animal > mammal > rodent
organs, tissues, organelles, cell types and functions > tissues types and functions
bioinformatics > genomics and proteomics > genetics & nucleic acid processing > transcriptomes
organs, tissues, organelles, cell types and functions > tissues types and functions > visual cortex
CSHL Authors:
Communities: CSHL labs > Cheadle lab
SWORD Depositor: CSHL Elements
Depositing User: CSHL Elements
Date: 28 February 2025
Date Deposited: 27 Mar 2025 18:25
Last Modified: 27 Mar 2025 18:25
Related URLs:
Dataset ID:
URI: https://repository.cshl.edu/id/eprint/41837

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