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bioRxiv · 10.1101/2025.07.23.666342

The misplaced mouse Pax6 interneuron subclass: A cross-species transcriptomic reassignment

Werner, J. M.·Suresh, H.·Gillis, J.
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Abstract

Subclass cell-types are strongly conserved across mammalian brains, making the systemic absence of a caudal ganglionic eminence (CGE) Pax6 interneuron subclass in mouse transcriptional atlases unexpected. Through cross-species transcriptomic analysis, we identify a Pax6 subclass homolog in mouse and uncover primate-specific divergence in the Sncg subclass. Our results highlight the pitfalls of relying on single marker genes and provide evolution-aware annotations and marker sets to support robust cross-mammal interneuron comparisons.

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Werner, J. M., Suresh, H., Gillis, J.. 2025-07-24. The misplaced mouse Pax6 interneuron subclass: A cross-species transcriptomic reassignment. https://doi.org/10.1101/2025.07.23.666342

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