Temporal transcriptomic profiling reveals dynamic changes in gene expression of Xenopus animal cap upon activin treatment

Abstract Activin, a member of the transforming growth factor-β (TGF-β) superfamily of proteins, induces various tissues from the amphibian presumptive ectoderm, called animal cap explants (ACs) in vitro. However, it remains unclear how and to what extent the resulting cells recapitulate in vivo deve...

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Autores principales:	Yumeko Satou-Kobayashi, Jun-Dal Kim, Akiyoshi Fukamizu, Makoto Asashima
Formato:	article
Lenguaje:	EN
Publicado:	Nature Portfolio 2021
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/05b23392bb6a48028a2a2c2885373c27
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spelling	oai:doaj.org-article:05b23392bb6a48028a2a2c2885373c272021-12-02T18:30:46ZTemporal transcriptomic profiling reveals dynamic changes in gene expression of Xenopus animal cap upon activin treatment10.1038/s41598-021-93524-x2045-2322https://doaj.org/article/05b23392bb6a48028a2a2c2885373c272021-07-01T00:00:00Zhttps://doi.org/10.1038/s41598-021-93524-xhttps://doaj.org/toc/2045-2322Abstract Activin, a member of the transforming growth factor-β (TGF-β) superfamily of proteins, induces various tissues from the amphibian presumptive ectoderm, called animal cap explants (ACs) in vitro. However, it remains unclear how and to what extent the resulting cells recapitulate in vivo development. To comprehensively understand whether the molecular dynamics during activin-induced ACs differentiation reflect the normal development, we performed time-course transcriptome profiling of Xenopus ACs treated with 50 ng/mL of activin A, which predominantly induced dorsal mesoderm. The number of differentially expressed genes (DEGs) in response to activin A increased over time, and totally 9857 upregulated and 6663 downregulated DEGs were detected. 1861 common upregulated DEGs among all Post_activin samples included several Spemann’s organizer genes. In addition, the temporal transcriptomes were clearly classified into four distinct groups in correspondence with specific features, reflecting stepwise differentiation into mesoderm derivatives, and a decline in the regulation of nuclear envelop and golgi. From the set of early responsive genes, we also identified the suppressor of cytokine signaling 3 (socs3) as a novel activin A-inducible gene. Our transcriptome data provide a framework to elucidate the transcriptional dynamics of activin-driven AC differentiation, reflecting the molecular characteristics of early normal embryogenesis.Yumeko Satou-KobayashiJun-Dal KimAkiyoshi FukamizuMakoto AsashimaNature PortfolioarticleMedicineRScienceQENScientific Reports, Vol 11, Iss 1, Pp 1-12 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Yumeko Satou-Kobayashi Jun-Dal Kim Akiyoshi Fukamizu Makoto Asashima Temporal transcriptomic profiling reveals dynamic changes in gene expression of Xenopus animal cap upon activin treatment
description	Abstract Activin, a member of the transforming growth factor-β (TGF-β) superfamily of proteins, induces various tissues from the amphibian presumptive ectoderm, called animal cap explants (ACs) in vitro. However, it remains unclear how and to what extent the resulting cells recapitulate in vivo development. To comprehensively understand whether the molecular dynamics during activin-induced ACs differentiation reflect the normal development, we performed time-course transcriptome profiling of Xenopus ACs treated with 50 ng/mL of activin A, which predominantly induced dorsal mesoderm. The number of differentially expressed genes (DEGs) in response to activin A increased over time, and totally 9857 upregulated and 6663 downregulated DEGs were detected. 1861 common upregulated DEGs among all Post_activin samples included several Spemann’s organizer genes. In addition, the temporal transcriptomes were clearly classified into four distinct groups in correspondence with specific features, reflecting stepwise differentiation into mesoderm derivatives, and a decline in the regulation of nuclear envelop and golgi. From the set of early responsive genes, we also identified the suppressor of cytokine signaling 3 (socs3) as a novel activin A-inducible gene. Our transcriptome data provide a framework to elucidate the transcriptional dynamics of activin-driven AC differentiation, reflecting the molecular characteristics of early normal embryogenesis.
format	article
author	Yumeko Satou-Kobayashi Jun-Dal Kim Akiyoshi Fukamizu Makoto Asashima
author_facet	Yumeko Satou-Kobayashi Jun-Dal Kim Akiyoshi Fukamizu Makoto Asashima
author_sort	Yumeko Satou-Kobayashi
title	Temporal transcriptomic profiling reveals dynamic changes in gene expression of Xenopus animal cap upon activin treatment
title_short	Temporal transcriptomic profiling reveals dynamic changes in gene expression of Xenopus animal cap upon activin treatment
title_full	Temporal transcriptomic profiling reveals dynamic changes in gene expression of Xenopus animal cap upon activin treatment
title_fullStr	Temporal transcriptomic profiling reveals dynamic changes in gene expression of Xenopus animal cap upon activin treatment
title_full_unstemmed	Temporal transcriptomic profiling reveals dynamic changes in gene expression of Xenopus animal cap upon activin treatment
title_sort	temporal transcriptomic profiling reveals dynamic changes in gene expression of xenopus animal cap upon activin treatment
publisher	Nature Portfolio
publishDate	2021
url	https://doaj.org/article/05b23392bb6a48028a2a2c2885373c27
work_keys_str_mv	AT yumekosatoukobayashi temporaltranscriptomicprofilingrevealsdynamicchangesingeneexpressionofxenopusanimalcapuponactivintreatment AT jundalkim temporaltranscriptomicprofilingrevealsdynamicchangesingeneexpressionofxenopusanimalcapuponactivintreatment AT akiyoshifukamizu temporaltranscriptomicprofilingrevealsdynamicchangesingeneexpressionofxenopusanimalcapuponactivintreatment AT makotoasashima temporaltranscriptomicprofilingrevealsdynamicchangesingeneexpressionofxenopusanimalcapuponactivintreatment
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Temporal transcriptomic profiling reveals dynamic changes in gene expression of Xenopus animal cap upon activin treatment

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