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Single-cell sequencing of human iPSC-derived cerebellar organoids shows recapitulation of cerebellar development

Samuel Nayler, Devika Agarwal, Fabiola Curion, Rory Bowden, Esther B.E. Becker
doi: https://doi.org/10.1101/2020.07.01.182196
Samuel Nayler
1Department of Physiology, Anatomy and Genetics; University of Oxford; Oxford, OX1 3PT; United Kingdom
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  • For correspondence: Samuel.Nayler@dpag.ox.ac.uk Esther.Becker@dpag.ox.ac.uk
Devika Agarwal
3Weatherall Institute for Molecular Medicine; University of Oxford; Oxford, OX3 7BN; United Kingdom
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Fabiola Curion
2Wellcome Centre for Human Genetics; University of Oxford; Oxford, OX3 7BN; United Kingdom
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Rory Bowden
2Wellcome Centre for Human Genetics; University of Oxford; Oxford, OX3 7BN; United Kingdom
4Walter and Eliza Hall Institute of Medical Research, Parkville Victoria 3052; Australia
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Esther B.E. Becker
1Department of Physiology, Anatomy and Genetics; University of Oxford; Oxford, OX1 3PT; United Kingdom
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  • For correspondence: Samuel.Nayler@dpag.ox.ac.uk Esther.Becker@dpag.ox.ac.uk
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ABSTRACT

Current protocols for producing cerebellar neurons from human pluripotent stem cells (hPSCs) are reliant on animal co-culture and mostly exist as monolayers, which have limited capability to recapitulate the complex arrangement of the brain. We developed a method to differentiate hPSCs into cerebellar organoids that display hallmarks of in vivo cerebellar development. Single-cell profiling followed by comparison to an atlas of the developing murine cerebellum revealed transcriptionally-discrete populations encompassing all major cerebellar cell types. Matrigel encapsulation altered organoid growth dynamics, resulting in differential regulation of cell cycle, migration and cell-death pathways. However, this was at the expense of reproducibility. Furthermore, we showed the contribution of basement membrane signalling to both cellular composition of the organoids and developmentally-relevant gene expression programmes. This model system has exciting implications for studying cerebellar development and disease most notably by providing xeno-free conditions, representing a more biologically relevant and therapeutically tractable culture setting.

Competing Interest Statement

The authors have declared no competing interest.

Footnotes

  • ↵5 Lead contact

  • https://github.com/SamN1985/General-code

  • https://plotly.com/~SamN1985/3

  • https://plotly.com/~SamN1985/1

  • https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE150153

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The copyright holder for this preprint is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. All rights reserved. No reuse allowed without permission.
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Posted July 01, 2020.
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Single-cell sequencing of human iPSC-derived cerebellar organoids shows recapitulation of cerebellar development
Samuel Nayler, Devika Agarwal, Fabiola Curion, Rory Bowden, Esther B.E. Becker
bioRxiv 2020.07.01.182196; doi: https://doi.org/10.1101/2020.07.01.182196
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Single-cell sequencing of human iPSC-derived cerebellar organoids shows recapitulation of cerebellar development
Samuel Nayler, Devika Agarwal, Fabiola Curion, Rory Bowden, Esther B.E. Becker
bioRxiv 2020.07.01.182196; doi: https://doi.org/10.1101/2020.07.01.182196

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