Cellular development and evolution of the mammalian cerebellum [Research Data]

DOI

The expansion of the neocortex, a hallmark of mammalian evolution1,2, was accompanied by an increase in cerebellar neuron numbers3. However, little is known about the evolution of the cellular programs underlying cerebellum development in mammals. In this study, we generated single-nucleus RNA-sequencing data for ~400,000 cells to trace cerebellum development from early neurogenesis to adulthood in human, mouse, and the marsupial opossum. We established a consensus classification of the cellular diversity in the developing mammalian cerebellum and validated it by spatial mapping in the fetal human cerebellum. Our cross-species analyses revealed a largely conserved developmental dynamics of cell type generation, except for Purkinje cells, where we observed an expansion of early-born subtypes in the human lineage. Global transcriptome profiles, conserved cell state markers, and gene expression trajectories across neuronal differentiation show that cerebellar cell type-defining programs have been overall preserved for at least ~160 million years. However, we also identified many orthologous genes that gained or lost expression in cerebellar neural cell types in one of the species, or evolved new expression trajectories during neuronal differentiation, indicating widespread gene repurposing at the cell type level. Altogether, our study unveils shared and lineage-specific gene expression programs governing the development of cerebellar cells, and expands our understanding of mammalian brain evolution.

Identifier
DOI https://doi.org/10.11588/data/QDOC4E
Related Identifier https://doi.org/10.1038/s41586-023-06884-x
Metadata Access https://heidata.uni-heidelberg.de/oai?verb=GetRecord&metadataPrefix=oai_datacite&identifier=doi:10.11588/data/QDOC4E
Provenance
Creator Sepp, Mari; Leiss, Kevin; Murat, Florent; Okonechnikov, Konstantin; Joshi, Piyush; Leushkin, Evgeny; Spänig, Lisa; Mbengue, Noe; Schneider, Céline; Schmidt, Julia; Trost, Nils; Schauer, Maria; Khaitovich, Philipp; Lisgo, Steven; Palkovits, Miklós; Giere, Peter; Kutscher, Lena M.; Anders, Simon; Cardoso-Moreira, Margarida; Sarropoulos, Ioannis; Pfister, Stefan M.; Kaessmann, Henrik
Publisher heiDATA
Contributor Kaessmann, Henrik; Leiss, Kevin; Sepp, Mari
Publication Year 2021
Funding Reference European Research Council 615253, OntoTransEvol ; European Research Council 101019268, VerteBrain ; European Research Council 819894, BRAIN-MATCH ; Brain Research Program 2017-1.2.1-NKP-2017-00002 ; Cancer Research UK FC011171 ; UK Medical Research Council FC011171 ; Wellcome Trust FC011171
Rights info:eu-repo/semantics/openAccess
OpenAccess true
Contact Kaessmann, Henrik (Heidelberg University, Center for Molecular Biology of Heidelberg University (ZMBH)); Leiss, Kevin (Heidelberg University, Center for Molecular Biology of Heidelberg University (ZMBH)); Sepp, Mari (Heidelberg University, Center for Molecular Biology of Heidelberg University (ZMBH))
Representation
Resource Type snRNA-seq, smFISH; Dataset
Format image/tiff; text/plain; application/x-tar
Size 2206433448; 137324347; 20358656000; 22602178560; 29291632640; 29459220480; 29115514880; 26459678720; 26556672000; 25992980480; 26110709760; 25437573120; 22592942080; 19094466560; 23422238720; 20704440320; 21334528000; 20406200320; 17551349760; 19810949120; 20749107200; 19325429760; 7283353600; 14475786240; 14376755200; 15733514240; 23754731520; 15849410560; 23066265600; 1076756480; 19946915840; 20245166080; 18859448320; 25514854400; 21800714240; 22130892800; 22352230400; 22932060160; 17603379200; 23225825280; 21405020160; 21845360640; 27765135360; 27482992640; 27219609600; 27280506880; 27152670720; 20250746880; 20888360960; 20169728000; 21361039360; 20195031040; 20361984000; 19984629760; 15778037760; 20624230400; 11142369280; 16560875520; 19694049280; 20467507200; 23409940480; 28068986880; 35991889920; 23717488640; 21639761920; 21980160000; 22247444480; 21694791680; 20514600960; 23452815360; 21514496000; 20602849280; 21611601920; 21540239360; 21716500480; 20350269440; 11223654400; 19439288320; 11970498560; 28158003200; 12627240960; 19228313600; 26309048320; 21740492800; 16944547840; 19465349120; 17895004160; 25579212800; 22317301760
Version 3.0
Discipline Life Sciences; Medicine