Expanded transcriptomic view of strawberry fruit ripening through meta-analysis.

Strawberry is an important fruit crop and a model for studying non-climacteric fruit ripening. Fruit ripening and senescence influence strawberry fruit quality and postharvest storability, and have been intensively studied. However, genetic and physiological differences among cultivars preclude cons...

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Autores principales:	Gibum Yi, Hosub Shin, Kyeonglim Min, Eun Jin Lee
Formato:	article
Lenguaje:	EN
Publicado:	Public Library of Science (PLoS) 2021
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/13c211ffbaa7458fb95664b089ca3692
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spelling	oai:doaj.org-article:13c211ffbaa7458fb95664b089ca36922021-12-02T20:11:09ZExpanded transcriptomic view of strawberry fruit ripening through meta-analysis.1932-620310.1371/journal.pone.0252685https://doaj.org/article/13c211ffbaa7458fb95664b089ca36922021-01-01T00:00:00Zhttps://doi.org/10.1371/journal.pone.0252685https://doaj.org/toc/1932-6203Strawberry is an important fruit crop and a model for studying non-climacteric fruit ripening. Fruit ripening and senescence influence strawberry fruit quality and postharvest storability, and have been intensively studied. However, genetic and physiological differences among cultivars preclude consensus understanding of these processes. We therefore performed a meta-analysis by mapping existing transcriptome data to the newly published and improved strawberry reference genome and extracted meta-differentially expressed genes (meta-DEGs) from six cultivars to provide an expanded transcriptomic view of strawberry ripening. We identified cultivar-specific transcriptome changes in anthocyanin biosynthesis-related genes and common changes in cell wall degradation, chlorophyll degradation, and starch metabolism-related genes during ripening. We also identified 483 meta-DEGs enriched in gene ontology categories related to photosynthesis and amino acid and fatty acid biosynthesis that had not been revealed in previous studies. We conclude that meta-analysis of existing transcriptome studies can effectively address fundamental questions in plant sciences.Gibum YiHosub ShinKyeonglim MinEun Jin LeePublic Library of Science (PLoS)articleMedicineRScienceQENPLoS ONE, Vol 16, Iss 6, p e0252685 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Gibum Yi Hosub Shin Kyeonglim Min Eun Jin Lee Expanded transcriptomic view of strawberry fruit ripening through meta-analysis.
description	Strawberry is an important fruit crop and a model for studying non-climacteric fruit ripening. Fruit ripening and senescence influence strawberry fruit quality and postharvest storability, and have been intensively studied. However, genetic and physiological differences among cultivars preclude consensus understanding of these processes. We therefore performed a meta-analysis by mapping existing transcriptome data to the newly published and improved strawberry reference genome and extracted meta-differentially expressed genes (meta-DEGs) from six cultivars to provide an expanded transcriptomic view of strawberry ripening. We identified cultivar-specific transcriptome changes in anthocyanin biosynthesis-related genes and common changes in cell wall degradation, chlorophyll degradation, and starch metabolism-related genes during ripening. We also identified 483 meta-DEGs enriched in gene ontology categories related to photosynthesis and amino acid and fatty acid biosynthesis that had not been revealed in previous studies. We conclude that meta-analysis of existing transcriptome studies can effectively address fundamental questions in plant sciences.
format	article
author	Gibum Yi Hosub Shin Kyeonglim Min Eun Jin Lee
author_facet	Gibum Yi Hosub Shin Kyeonglim Min Eun Jin Lee
author_sort	Gibum Yi
title	Expanded transcriptomic view of strawberry fruit ripening through meta-analysis.
title_short	Expanded transcriptomic view of strawberry fruit ripening through meta-analysis.
title_full	Expanded transcriptomic view of strawberry fruit ripening through meta-analysis.
title_fullStr	Expanded transcriptomic view of strawberry fruit ripening through meta-analysis.
title_full_unstemmed	Expanded transcriptomic view of strawberry fruit ripening through meta-analysis.
title_sort	expanded transcriptomic view of strawberry fruit ripening through meta-analysis.
publisher	Public Library of Science (PLoS)
publishDate	2021
url	https://doaj.org/article/13c211ffbaa7458fb95664b089ca3692
work_keys_str_mv	AT gibumyi expandedtranscriptomicviewofstrawberryfruitripeningthroughmetaanalysis AT hosubshin expandedtranscriptomicviewofstrawberryfruitripeningthroughmetaanalysis AT kyeonglimmin expandedtranscriptomicviewofstrawberryfruitripeningthroughmetaanalysis AT eunjinlee expandedtranscriptomicviewofstrawberryfruitripeningthroughmetaanalysis
_version_	1718374928883908608

Expanded transcriptomic view of strawberry fruit ripening through meta-analysis.

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