Partitioning of gene expression among zebrafish photoreceptor subtypes

Abstract Vertebrate photoreceptors are categorized into two broad classes, rods and cones, responsible for dim- and bright-light vision, respectively. While many molecular features that distinguish rods and cones are known, gene expression differences among cone subtypes remain poorly understood. Te...

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Autores principales:	Yohey Ogawa, Joseph C. Corbo
Formato:	article
Lenguaje:	EN
Publicado:	Nature Portfolio 2021
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/fea5262f256449bf8d052bb26e433667
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spelling	oai:doaj.org-article:fea5262f256449bf8d052bb26e4336672021-12-02T17:51:16ZPartitioning of gene expression among zebrafish photoreceptor subtypes10.1038/s41598-021-96837-z2045-2322https://doaj.org/article/fea5262f256449bf8d052bb26e4336672021-08-01T00:00:00Zhttps://doi.org/10.1038/s41598-021-96837-zhttps://doaj.org/toc/2045-2322Abstract Vertebrate photoreceptors are categorized into two broad classes, rods and cones, responsible for dim- and bright-light vision, respectively. While many molecular features that distinguish rods and cones are known, gene expression differences among cone subtypes remain poorly understood. Teleost fishes are renowned for the diversity of their photoreceptor systems. Here, we used single-cell RNA-seq to profile adult photoreceptors in zebrafish, a teleost. We found that in addition to the four canonical zebrafish cone types, there exist subpopulations of green and red cones (previously shown to be located in the ventral retina) that express red-shifted opsin paralogs (opn1mw4 or opn1lw1) as well as a unique combination of cone phototransduction genes. Furthermore, the expression of many paralogous phototransduction genes is partitioned among cone subtypes, analogous to the partitioning of the phototransduction paralogs between rods and cones seen across vertebrates. The partitioned cone-gene pairs arose via the teleost-specific whole-genome duplication or later clade-specific gene duplications. We also discovered that cone subtypes express distinct transcriptional regulators, including many factors not previously implicated in photoreceptor development or differentiation. Overall, our work suggests that partitioning of paralogous gene expression via the action of differentially expressed transcriptional regulators enables diversification of cone subtypes in teleosts.Yohey OgawaJoseph C. CorboNature PortfolioarticleMedicineRScienceQENScientific Reports, Vol 11, Iss 1, Pp 1-13 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Yohey Ogawa Joseph C. Corbo Partitioning of gene expression among zebrafish photoreceptor subtypes
description	Abstract Vertebrate photoreceptors are categorized into two broad classes, rods and cones, responsible for dim- and bright-light vision, respectively. While many molecular features that distinguish rods and cones are known, gene expression differences among cone subtypes remain poorly understood. Teleost fishes are renowned for the diversity of their photoreceptor systems. Here, we used single-cell RNA-seq to profile adult photoreceptors in zebrafish, a teleost. We found that in addition to the four canonical zebrafish cone types, there exist subpopulations of green and red cones (previously shown to be located in the ventral retina) that express red-shifted opsin paralogs (opn1mw4 or opn1lw1) as well as a unique combination of cone phototransduction genes. Furthermore, the expression of many paralogous phototransduction genes is partitioned among cone subtypes, analogous to the partitioning of the phototransduction paralogs between rods and cones seen across vertebrates. The partitioned cone-gene pairs arose via the teleost-specific whole-genome duplication or later clade-specific gene duplications. We also discovered that cone subtypes express distinct transcriptional regulators, including many factors not previously implicated in photoreceptor development or differentiation. Overall, our work suggests that partitioning of paralogous gene expression via the action of differentially expressed transcriptional regulators enables diversification of cone subtypes in teleosts.
format	article
author	Yohey Ogawa Joseph C. Corbo
author_facet	Yohey Ogawa Joseph C. Corbo
author_sort	Yohey Ogawa
title	Partitioning of gene expression among zebrafish photoreceptor subtypes
title_short	Partitioning of gene expression among zebrafish photoreceptor subtypes
title_full	Partitioning of gene expression among zebrafish photoreceptor subtypes
title_fullStr	Partitioning of gene expression among zebrafish photoreceptor subtypes
title_full_unstemmed	Partitioning of gene expression among zebrafish photoreceptor subtypes
title_sort	partitioning of gene expression among zebrafish photoreceptor subtypes
publisher	Nature Portfolio
publishDate	2021
url	https://doaj.org/article/fea5262f256449bf8d052bb26e433667
work_keys_str_mv	AT yoheyogawa partitioningofgeneexpressionamongzebrafishphotoreceptorsubtypes AT josephccorbo partitioningofgeneexpressionamongzebrafishphotoreceptorsubtypes
_version_	1718379326642061312

Partitioning of gene expression among zebrafish photoreceptor subtypes

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