Transcriptomic analysis of a wild and a cultivated varieties of Capsicum annuum over fruit development and ripening.

Chili pepper (Capsicum annuum) is one of the most important crops worldwide. Its fruits contain metabolites produced over the maturation process like capsaicinoids and carotenoids. This metabolic process produces internal changes in flavor, color, texture, and aroma in fruits to make them more attra...

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Autores principales:	Fernando G Razo-Mendivil, Fernando Hernandez-Godínez, Corina Hayano-Kanashiro, Octavio Martínez
Formato:	article
Lenguaje:	EN
Publicado:	Public Library of Science (PLoS) 2021
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/8dad6cde44b049569d5974d9f9de131f
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spelling	oai:doaj.org-article:8dad6cde44b049569d5974d9f9de131f2021-12-02T20:17:37ZTranscriptomic analysis of a wild and a cultivated varieties of Capsicum annuum over fruit development and ripening.1932-620310.1371/journal.pone.0256319https://doaj.org/article/8dad6cde44b049569d5974d9f9de131f2021-01-01T00:00:00Zhttps://doi.org/10.1371/journal.pone.0256319https://doaj.org/toc/1932-6203Chili pepper (Capsicum annuum) is one of the most important crops worldwide. Its fruits contain metabolites produced over the maturation process like capsaicinoids and carotenoids. This metabolic process produces internal changes in flavor, color, texture, and aroma in fruits to make them more attractive for seed dispersal organisms. The chiltepin (C. annuum L. var. glabriusculum) is a wild variety of the C. annuum L. species that is considered a source of genetic resources that could be used to improve the current chili crops. In this study, we performed a transcriptomic analysis on two fruit maturation stages: immature stage (green fruit) and mature stage (red fruit) of a wild and a cultivated pepper variety. We found 19,811 genes expressed, and 1,008 genes differentially expressed (DEGs) in at least one of the five contrast used; 730 DEGs were found only in one contrast, and most DEGs in all contrasts were downregulated. GO enrichment analysis showed that the majority of DEGs are related to stress responses. KEGG enrichment analysis detected differences in expression patterns in metabolic pathways related to phenylpropanoid biosynthesis, secondary metabolites, plant hormone signal transduction, carotenoid biosynthesis and sesquiterpenoid and triterpenoid biosynthesis. We selected 105 tomato fruit ripening-related genes, and found 53 pepper homologs differentially expressed related to shape, size, and secondary metabolite biosynthesis. According to the transcriptome analysis, the two peppers showed very similar gene expression patterns; differences in expression patterns of genes related to shape, size, ethylene and secondary metabolites biosynthesis suggest that changes produced by domestication of chilli pepper could be very specific to the expression of genes related to traits desired in commercial fruits.Fernando G Razo-MendivilFernando Hernandez-GodínezCorina Hayano-KanashiroOctavio MartínezPublic Library of Science (PLoS)articleMedicineRScienceQENPLoS ONE, Vol 16, Iss 8, p e0256319 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Fernando G Razo-Mendivil Fernando Hernandez-Godínez Corina Hayano-Kanashiro Octavio Martínez Transcriptomic analysis of a wild and a cultivated varieties of Capsicum annuum over fruit development and ripening.
description	Chili pepper (Capsicum annuum) is one of the most important crops worldwide. Its fruits contain metabolites produced over the maturation process like capsaicinoids and carotenoids. This metabolic process produces internal changes in flavor, color, texture, and aroma in fruits to make them more attractive for seed dispersal organisms. The chiltepin (C. annuum L. var. glabriusculum) is a wild variety of the C. annuum L. species that is considered a source of genetic resources that could be used to improve the current chili crops. In this study, we performed a transcriptomic analysis on two fruit maturation stages: immature stage (green fruit) and mature stage (red fruit) of a wild and a cultivated pepper variety. We found 19,811 genes expressed, and 1,008 genes differentially expressed (DEGs) in at least one of the five contrast used; 730 DEGs were found only in one contrast, and most DEGs in all contrasts were downregulated. GO enrichment analysis showed that the majority of DEGs are related to stress responses. KEGG enrichment analysis detected differences in expression patterns in metabolic pathways related to phenylpropanoid biosynthesis, secondary metabolites, plant hormone signal transduction, carotenoid biosynthesis and sesquiterpenoid and triterpenoid biosynthesis. We selected 105 tomato fruit ripening-related genes, and found 53 pepper homologs differentially expressed related to shape, size, and secondary metabolite biosynthesis. According to the transcriptome analysis, the two peppers showed very similar gene expression patterns; differences in expression patterns of genes related to shape, size, ethylene and secondary metabolites biosynthesis suggest that changes produced by domestication of chilli pepper could be very specific to the expression of genes related to traits desired in commercial fruits.
format	article
author	Fernando G Razo-Mendivil Fernando Hernandez-Godínez Corina Hayano-Kanashiro Octavio Martínez
author_facet	Fernando G Razo-Mendivil Fernando Hernandez-Godínez Corina Hayano-Kanashiro Octavio Martínez
author_sort	Fernando G Razo-Mendivil
title	Transcriptomic analysis of a wild and a cultivated varieties of Capsicum annuum over fruit development and ripening.
title_short	Transcriptomic analysis of a wild and a cultivated varieties of Capsicum annuum over fruit development and ripening.
title_full	Transcriptomic analysis of a wild and a cultivated varieties of Capsicum annuum over fruit development and ripening.
title_fullStr	Transcriptomic analysis of a wild and a cultivated varieties of Capsicum annuum over fruit development and ripening.
title_full_unstemmed	Transcriptomic analysis of a wild and a cultivated varieties of Capsicum annuum over fruit development and ripening.
title_sort	transcriptomic analysis of a wild and a cultivated varieties of capsicum annuum over fruit development and ripening.
publisher	Public Library of Science (PLoS)
publishDate	2021
url	https://doaj.org/article/8dad6cde44b049569d5974d9f9de131f
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Transcriptomic analysis of a wild and a cultivated varieties of Capsicum annuum over fruit development and ripening.

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