Gene regulatory networks controlling temporal patterning, neurogenesis, and cell-fate specification in mammalian retina

Summary: Gene regulatory networks (GRNs), consisting of transcription factors and their target sites, control neurogenesis and cell-fate specification in the developing central nervous system. In this study, we use integrated single-cell RNA and single-cell ATAC sequencing (scATAC-seq) analysis in d...

Descripción completa

Guardado en:

Detalles Bibliográficos
Autores principales:	Pin Lyu, Thanh Hoang, Clayton P. Santiago, Eric D. Thomas, Andrew E. Timms, Haley Appel, Megan Gimmen, Nguyet Le, Lizhi Jiang, Dong Won Kim, Siqi Chen, David F. Espinoza, Ariel E. Telger, Kurt Weir, Brian S. Clark, Timothy J. Cherry, Jiang Qian, Seth Blackshaw
Formato:	article
Lenguaje:	EN
Publicado:	Elsevier 2021
Materias:	retina development transcription factor neurogenesis single-cell ATAC-seq single-cell RNA-seq Biology (General) QH301-705.5
Acceso en línea:	https://doaj.org/article/bb845b0091334d5fbe14f15fb9a4f379
Etiquetas:	Agregar Etiqueta Sin Etiquetas, Sea el primero en etiquetar este registro!

id	oai:doaj.org-article:bb845b0091334d5fbe14f15fb9a4f379
record_format	dspace
spelling	oai:doaj.org-article:bb845b0091334d5fbe14f15fb9a4f3792021-11-18T04:47:49ZGene regulatory networks controlling temporal patterning, neurogenesis, and cell-fate specification in mammalian retina2211-124710.1016/j.celrep.2021.109994https://doaj.org/article/bb845b0091334d5fbe14f15fb9a4f3792021-11-01T00:00:00Zhttp://www.sciencedirect.com/science/article/pii/S221112472101473Xhttps://doaj.org/toc/2211-1247Summary: Gene regulatory networks (GRNs), consisting of transcription factors and their target sites, control neurogenesis and cell-fate specification in the developing central nervous system. In this study, we use integrated single-cell RNA and single-cell ATAC sequencing (scATAC-seq) analysis in developing mouse and human retina to identify multiple interconnected, evolutionarily conserved GRNs composed of cell-type-specific transcription factors that both activate genes within their own network and inhibit genes in other networks. These GRNs control temporal patterning in primary progenitors, regulate transition from primary to neurogenic progenitors, and drive specification of each major retinal cell type. We confirm that NFI transcription factors selectively activate expression of genes promoting late-stage temporal identity in primary retinal progenitors and identify other transcription factors that regulate rod photoreceptor specification in postnatal retina. This study inventories cis- and trans-acting factors that control retinal development and can guide cell-based therapies aimed at replacing retinal neurons lost to disease.Pin LyuThanh HoangClayton P. SantiagoEric D. ThomasAndrew E. TimmsHaley AppelMegan GimmenNguyet LeLizhi JiangDong Won KimSiqi ChenDavid F. EspinozaAriel E. TelgerKurt WeirBrian S. ClarkTimothy J. CherryJiang QianSeth BlackshawElsevierarticleretinadevelopmenttranscription factorneurogenesissingle-cell ATAC-seqsingle-cell RNA-seqBiology (General)QH301-705.5ENCell Reports, Vol 37, Iss 7, Pp 109994- (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	retina development transcription factor neurogenesis single-cell ATAC-seq single-cell RNA-seq Biology (General) QH301-705.5
spellingShingle	retina development transcription factor neurogenesis single-cell ATAC-seq single-cell RNA-seq Biology (General) QH301-705.5 Pin Lyu Thanh Hoang Clayton P. Santiago Eric D. Thomas Andrew E. Timms Haley Appel Megan Gimmen Nguyet Le Lizhi Jiang Dong Won Kim Siqi Chen David F. Espinoza Ariel E. Telger Kurt Weir Brian S. Clark Timothy J. Cherry Jiang Qian Seth Blackshaw Gene regulatory networks controlling temporal patterning, neurogenesis, and cell-fate specification in mammalian retina
description	Summary: Gene regulatory networks (GRNs), consisting of transcription factors and their target sites, control neurogenesis and cell-fate specification in the developing central nervous system. In this study, we use integrated single-cell RNA and single-cell ATAC sequencing (scATAC-seq) analysis in developing mouse and human retina to identify multiple interconnected, evolutionarily conserved GRNs composed of cell-type-specific transcription factors that both activate genes within their own network and inhibit genes in other networks. These GRNs control temporal patterning in primary progenitors, regulate transition from primary to neurogenic progenitors, and drive specification of each major retinal cell type. We confirm that NFI transcription factors selectively activate expression of genes promoting late-stage temporal identity in primary retinal progenitors and identify other transcription factors that regulate rod photoreceptor specification in postnatal retina. This study inventories cis- and trans-acting factors that control retinal development and can guide cell-based therapies aimed at replacing retinal neurons lost to disease.
format	article
author	Pin Lyu Thanh Hoang Clayton P. Santiago Eric D. Thomas Andrew E. Timms Haley Appel Megan Gimmen Nguyet Le Lizhi Jiang Dong Won Kim Siqi Chen David F. Espinoza Ariel E. Telger Kurt Weir Brian S. Clark Timothy J. Cherry Jiang Qian Seth Blackshaw
author_facet	Pin Lyu Thanh Hoang Clayton P. Santiago Eric D. Thomas Andrew E. Timms Haley Appel Megan Gimmen Nguyet Le Lizhi Jiang Dong Won Kim Siqi Chen David F. Espinoza Ariel E. Telger Kurt Weir Brian S. Clark Timothy J. Cherry Jiang Qian Seth Blackshaw
author_sort	Pin Lyu
title	Gene regulatory networks controlling temporal patterning, neurogenesis, and cell-fate specification in mammalian retina
title_short	Gene regulatory networks controlling temporal patterning, neurogenesis, and cell-fate specification in mammalian retina
title_full	Gene regulatory networks controlling temporal patterning, neurogenesis, and cell-fate specification in mammalian retina
title_fullStr	Gene regulatory networks controlling temporal patterning, neurogenesis, and cell-fate specification in mammalian retina
title_full_unstemmed	Gene regulatory networks controlling temporal patterning, neurogenesis, and cell-fate specification in mammalian retina
title_sort	gene regulatory networks controlling temporal patterning, neurogenesis, and cell-fate specification in mammalian retina
publisher	Elsevier
publishDate	2021
url	https://doaj.org/article/bb845b0091334d5fbe14f15fb9a4f379
work_keys_str_mv	AT pinlyu generegulatorynetworkscontrollingtemporalpatterningneurogenesisandcellfatespecificationinmammalianretina AT thanhhoang generegulatorynetworkscontrollingtemporalpatterningneurogenesisandcellfatespecificationinmammalianretina AT claytonpsantiago generegulatorynetworkscontrollingtemporalpatterningneurogenesisandcellfatespecificationinmammalianretina AT ericdthomas generegulatorynetworkscontrollingtemporalpatterningneurogenesisandcellfatespecificationinmammalianretina AT andrewetimms generegulatorynetworkscontrollingtemporalpatterningneurogenesisandcellfatespecificationinmammalianretina AT haleyappel generegulatorynetworkscontrollingtemporalpatterningneurogenesisandcellfatespecificationinmammalianretina AT megangimmen generegulatorynetworkscontrollingtemporalpatterningneurogenesisandcellfatespecificationinmammalianretina AT nguyetle generegulatorynetworkscontrollingtemporalpatterningneurogenesisandcellfatespecificationinmammalianretina AT lizhijiang generegulatorynetworkscontrollingtemporalpatterningneurogenesisandcellfatespecificationinmammalianretina AT dongwonkim generegulatorynetworkscontrollingtemporalpatterningneurogenesisandcellfatespecificationinmammalianretina AT siqichen generegulatorynetworkscontrollingtemporalpatterningneurogenesisandcellfatespecificationinmammalianretina AT davidfespinoza generegulatorynetworkscontrollingtemporalpatterningneurogenesisandcellfatespecificationinmammalianretina AT arieletelger generegulatorynetworkscontrollingtemporalpatterningneurogenesisandcellfatespecificationinmammalianretina AT kurtweir generegulatorynetworkscontrollingtemporalpatterningneurogenesisandcellfatespecificationinmammalianretina AT briansclark generegulatorynetworkscontrollingtemporalpatterningneurogenesisandcellfatespecificationinmammalianretina AT timothyjcherry generegulatorynetworkscontrollingtemporalpatterningneurogenesisandcellfatespecificationinmammalianretina AT jiangqian generegulatorynetworkscontrollingtemporalpatterningneurogenesisandcellfatespecificationinmammalianretina AT sethblackshaw generegulatorynetworkscontrollingtemporalpatterningneurogenesisandcellfatespecificationinmammalianretina
_version_	1718425063286374400

Gene regulatory networks controlling temporal patterning, neurogenesis, and cell-fate specification in mammalian retina

Ejemplares similares