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A cell atlas of the chick retina based on single-cell transcriptomics

Retinal structure and function have been studied in many vertebrate orders, but molecular characterization has been largely confined to mammals. We used single-cell RNA sequencing (scRNA-seq) to generate a cell atlas of the chick retina. We identified 136 cell types plus 14 positional or development...

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Autores principales: Yamagata, Masahito, Yan, Wenjun, Sanes, Joshua R
Formato: Online Artículo Texto
Lenguaje:English
Publicado: eLife Sciences Publications, Ltd 2021
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7837701/
https://www.ncbi.nlm.nih.gov/pubmed/33393903
http://dx.doi.org/10.7554/eLife.63907
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author Yamagata, Masahito
Yan, Wenjun
Sanes, Joshua R
author_facet Yamagata, Masahito
Yan, Wenjun
Sanes, Joshua R
author_sort Yamagata, Masahito
collection PubMed
description Retinal structure and function have been studied in many vertebrate orders, but molecular characterization has been largely confined to mammals. We used single-cell RNA sequencing (scRNA-seq) to generate a cell atlas of the chick retina. We identified 136 cell types plus 14 positional or developmental intermediates distributed among the six classes conserved across vertebrates – photoreceptor, horizontal, bipolar, amacrine, retinal ganglion, and glial cells. To assess morphology of molecularly defined types, we adapted a method for CRISPR-based integration of reporters into selectively expressed genes. For Müller glia, we found that transcriptionally distinct cells were regionally localized along the anterior-posterior, dorsal-ventral, and central-peripheral retinal axes. We also identified immature photoreceptor, horizontal cell, and oligodendrocyte types that persist into late embryonic stages. Finally, we analyzed relationships among chick, mouse, and primate retinal cell classes and types. Our results provide a foundation for anatomical, physiological, evolutionary, and developmental studies of the avian visual system.
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spelling pubmed-78377012021-01-27 A cell atlas of the chick retina based on single-cell transcriptomics Yamagata, Masahito Yan, Wenjun Sanes, Joshua R eLife Neuroscience Retinal structure and function have been studied in many vertebrate orders, but molecular characterization has been largely confined to mammals. We used single-cell RNA sequencing (scRNA-seq) to generate a cell atlas of the chick retina. We identified 136 cell types plus 14 positional or developmental intermediates distributed among the six classes conserved across vertebrates – photoreceptor, horizontal, bipolar, amacrine, retinal ganglion, and glial cells. To assess morphology of molecularly defined types, we adapted a method for CRISPR-based integration of reporters into selectively expressed genes. For Müller glia, we found that transcriptionally distinct cells were regionally localized along the anterior-posterior, dorsal-ventral, and central-peripheral retinal axes. We also identified immature photoreceptor, horizontal cell, and oligodendrocyte types that persist into late embryonic stages. Finally, we analyzed relationships among chick, mouse, and primate retinal cell classes and types. Our results provide a foundation for anatomical, physiological, evolutionary, and developmental studies of the avian visual system. eLife Sciences Publications, Ltd 2021-01-04 /pmc/articles/PMC7837701/ /pubmed/33393903 http://dx.doi.org/10.7554/eLife.63907 Text en © 2021, Yamagata et al http://creativecommons.org/licenses/by/4.0/ http://creativecommons.org/licenses/by/4.0/This article is distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0/) , which permits unrestricted use and redistribution provided that the original author and source are credited.
spellingShingle Neuroscience
Yamagata, Masahito
Yan, Wenjun
Sanes, Joshua R
A cell atlas of the chick retina based on single-cell transcriptomics
title A cell atlas of the chick retina based on single-cell transcriptomics
title_full A cell atlas of the chick retina based on single-cell transcriptomics
title_fullStr A cell atlas of the chick retina based on single-cell transcriptomics
title_full_unstemmed A cell atlas of the chick retina based on single-cell transcriptomics
title_short A cell atlas of the chick retina based on single-cell transcriptomics
title_sort cell atlas of the chick retina based on single-cell transcriptomics
topic Neuroscience
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7837701/
https://www.ncbi.nlm.nih.gov/pubmed/33393903
http://dx.doi.org/10.7554/eLife.63907
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