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
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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
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