Cell Types of the Human Retina and Its Organoids at Single-Cell Resolution

Cameron S. Cowan, Magdalena Renner, Martina De Gennaro, Brigitte Gross-Scherf, David Goldblum, Yanyan Hou, Martin Munz, Tiago M. Rodrigues, Jacek Krol, Tamas Szikra, Rachel Cuttat, Annick Waldt, Panagiotis Papasaikas, Roland Diggelmann, Claudia P. Patino-Alvarez, Patricia Galliker, Stefan E. Spirig, Dinko Pavlinic, Nadine Gerber-Hollbach, Sven Schuierer, Aldin Srdanovic, Marton Balogh, Riccardo Panero, Akos Kusnyerik, Arnold Szabo, Michael B. Stadler, Selim Orgül, Simone Picelli, Pascal W. Hasler, Andreas Hierlemann, Hendrik P.N. Scholl, Guglielmo Roma, Florian Nigsch, Botond Roska

Abstract

Human organoids recapitulating the cell-type diversity and function of their target organ are valuable for basic and translational research. We developed light-sensitive human retinal organoids with multiple nuclear and synaptic layers and functional synapses. We sequenced the RNA of 285,441 single cells from these organoids at seven developmental time points and from the periphery, fovea, pigment epithelium and choroid of light-responsive adult human retinas, and performed histochemistry. Cell types in organoids matured in vitro to a stable “developed” state at a rate similar to human retina development in vivo. Transcriptomes of organoid cell types converged toward the transcriptomes of adult peripheral retinal cell types. Expression of disease-associated genes was cell-type-specific in adult retina, and cell-type specificity was retained in organoids. We implicate unexpected cell types in diseases such as macular degeneration. This resource identifies cellular targets for studying disease mechanisms in organoids and for targeted repair in human retinas.

Datasets

1. Organoid - Cell Types of the Human Retina and Its Organoids at Single-Cell Resolution
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rod13913 cells
cone12973 cells
macroglia10597 cells
bipolar2819 cells
horizontal1978 cells
amacrine1447 cells
pigmented130 cells
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Cell Types of the Human Retina and Its Organoids at Single-Cell Resolution
2. Periphery - Cell Types of the Human Retina and Its Organoids at Single-Cell Resolution
Metadata
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rod13029 cells
macroglia8379 cells
bipolar7791 cells
vascular1648 cells
cone1202 cells
horizontal844 cells
amacrine747 cells
immune705 cells
pigmented343 cells
ganglion35 cells
Preview
Cell Types of the Human Retina and Its Organoids at Single-Cell Resolution
3. Fovea - Cell Types of the Human Retina and Its Organoids at Single-Cell Resolution
Metadata
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HS_D4_Re_F_Lf_S1_lib11267 cells
HS_D4_Re_F_Lf_S1_lib21153 cells
HS_D1_Re_F_Rt_S1_lib21099 cells
HS_D3_Re_F_Lf_S1_lib11028 cells
HS_D4_Re_F_Lf_S1_lib31026 cells
HS_D1_Re_F_Rt_S1_lib81024 cells
HS_D3_Re_F_Lf_S1_lib21000 cells
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HS_D1_Re_F_Rt_S1_lib4980 cells
HS_D4_Re_F_Lf_S1_lib4973 cells
HS_D1_Re_F_Rt_S1_lib7973 cells
HS_D1_Re_F_Rt_S1_lib3917 cells
HS_D1_Re_F_Rt_S1_lib5897 cells
HS_D4_Re_F_Rt_S1_lib3883 cells
HS_D4_Re_F_Rt_S1_lib2820 cells
HS_D1_Re_F_Rt_S1_lib1794 cells
HS_D4_Re_F_Rt_S1_lib1779 cells
HS_D4_Re_F_Rt_S1_lib4753 cells
HS_D3_Re_F_Rt_S1_lib2660 cells
HS_D3_Re_F_Rt_S1_lib1652 cells
HS_D3_Ch_F_Rt_S1_lib1272 cells
HS_D3_Ch_F_Rt_S1_lib2258 cells
HS_D3_Ch_F_Lf_S1_lib2157 cells
HS_D3_Ch_F_Lf_S1_lib1129 cells
HS_D4_Ch_F_Rt_S1_lib167 cells
HS_D4_Ch_F_Lf_S1_lib363 cells
HS_D4_Ch_F_Lf_S1_lib260 cells
HS_D4_Ch_F_Lf_S1_lib155 cells
HS_D4_Ch_F_Lf_S1_lib448 cells
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Cell Types of the Human Retina and Its Organoids at Single-Cell Resolution

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Source data

https://cellxgene.cziscience.com/collections/2f4c738f-e2f3-4553-9db2-0582a38ea4dc

Alias names

EGAS00001004561, PMID32946783, PMC7505495

Cite this study

Cowan, C.S., Renner, M., De Gennaro, M., Gross-Scherf, B., Goldblum, D., Hou, Y., Munz, M., Rodrigues, T.M., Krol, J., Szikra, T. and Cuttat, R., 2020. Cell types of the human retina and its organoids at single-cell resolution. Cell, 182(6), pp.1623-1640. https://doi.org/10.1016/j.cell.2020.08.013