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Single Cell RNA-sequencing analysis of the juvenile and postnatal mouse enteric nervous system of the small intestine

GSE263422 Mus musculus Expression profiling by high throughput sequencing 5 samples Submitted 2025/03/17 Platform GPL24247
Summary
The study aimed to achieve a molecular definition of submucosal neuron classes in the mouse small intestine and describe their differentiation from enteric stem cells during postnatal stages. Method: We performed single cell RNA-sequencing of enteric neurons from small intestine at the postnatal day (P)24; (Baf53b-CrexR26RtdTom mice) and ENS cells from the small intestine at P7 (Wnt1-CrexR26RtdTom). Results: 3 unique cardinal submucosal enteric neuron classes (smENC1-3) were identified and confirmed in native tissue by histochemical methods and class-specific Cre mice mated with reporter mice. Analysis of postnatal transcriptomes revealed that enteric stem cells differentiate into two neuronal branches, that successively diversify into smENC3 (Branch A) or smENC1 and smENC2 (Branch B). Conclusion: Utilizing single cell RNA-sequencing we conclude that murine small intestine consists of 3 cardinal submucosal classes that arise from binary neurogenic branching and postmitotic identity conversions.
Published in
The transcriptomes, connections and development of submucosal neuron classes in the mouse small intestine
Li W, Morarach K, Liu Z et al. · Nature neuroscience 2025 · PMID 40442499 · doi:10.1038/s41593-025-01962-x
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Direct links to NCBI, no account and no request form: the whole study as GSE263422_RAW.tar, processed values as the series matrix, the supplementary file directory, and per-sample supplementary files for any of the 5 samples. Raw sequencing reads are also available from ENA.

Also filed as BioProject PRJNA1097518 and SRA study SRP500398. Searching any of these in the dataset finder brings you back here.

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