Global analysis of the association between pig muscle fatty acid composition and gene expression using RNA-Seq

Fatty acids (FAs) play an essential role as mediators of cell signaling and signal transduction, affecting metabolic homeostasis and determining meat quality in pigs. However, FAs are transformed by the action of several genes, such as those encoding desaturases and elongases of FAs in lipogenic tis...

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Authors: Valdés Hernández, Jesús, Ramayo-Caldas, Yuliaxis, Passols, Magí, Sebastià, Cristina, Criado-Mesas, Lourdes, Crespo-Piazuelo, Daniel, Esteve-Codina, Anna, Castelló, Anna, Sánchez, Armand, Folch, Josep María
Format: article
Status:Published version
Publication Date:2023
Country:España
Institution:Consejo Superior de Investigaciones Científicas (CSIC)
Repository:DIGITAL.CSIC. Repositorio Institucional del CSIC
OAI Identifier:oai:digital.csic.es:10261/335391
Online Access:http://hdl.handle.net/10261/335391
https://api.elsevier.com/content/abstract/scopus_id/85146140710
Access Level:Open access
Keyword:Fatty acids
Gene expression
Gene expression analysis
Gene expression profiling
Transcriptomics
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oai_identifier_str oai:digital.csic.es:10261/335391
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dc.title.none.fl_str_mv Global analysis of the association between pig muscle fatty acid composition and gene expression using RNA-Seq
title Global analysis of the association between pig muscle fatty acid composition and gene expression using RNA-Seq
spellingShingle Global analysis of the association between pig muscle fatty acid composition and gene expression using RNA-Seq
Valdés Hernández, Jesús
Fatty acids
Gene expression
Gene expression analysis
Gene expression profiling
Transcriptomics
title_short Global analysis of the association between pig muscle fatty acid composition and gene expression using RNA-Seq
title_full Global analysis of the association between pig muscle fatty acid composition and gene expression using RNA-Seq
title_fullStr Global analysis of the association between pig muscle fatty acid composition and gene expression using RNA-Seq
title_full_unstemmed Global analysis of the association between pig muscle fatty acid composition and gene expression using RNA-Seq
title_sort Global analysis of the association between pig muscle fatty acid composition and gene expression using RNA-Seq
dc.creator.none.fl_str_mv Valdés Hernández, Jesús
Ramayo-Caldas, Yuliaxis
Passols, Magí
Sebastià, Cristina
Criado-Mesas, Lourdes
Crespo-Piazuelo, Daniel
Esteve-Codina, Anna
Castelló, Anna
Sánchez, Armand
Folch, Josep María
author Valdés Hernández, Jesús
author_facet Valdés Hernández, Jesús
Ramayo-Caldas, Yuliaxis
Passols, Magí
Sebastià, Cristina
Criado-Mesas, Lourdes
Crespo-Piazuelo, Daniel
Esteve-Codina, Anna
Castelló, Anna
Sánchez, Armand
Folch, Josep María
author_role author
author2 Ramayo-Caldas, Yuliaxis
Passols, Magí
Sebastià, Cristina
Criado-Mesas, Lourdes
Crespo-Piazuelo, Daniel
Esteve-Codina, Anna
Castelló, Anna
Sánchez, Armand
Folch, Josep María
author2_role author
author
author
author
author
author
author
author
author
dc.contributor.none.fl_str_mv Ministerio de Ciencia, Innovación y Universidades (España)
Agencia Estatal de Investigación (España)
Generalitat de Catalunya
European Commission
Consejo Superior de Investigaciones Científicas [https://ror.org/02gfc7t72]
dc.subject.none.fl_str_mv Fatty acids
Gene expression
Gene expression analysis
Gene expression profiling
Transcriptomics
topic Fatty acids
Gene expression
Gene expression analysis
Gene expression profiling
Transcriptomics
description Fatty acids (FAs) play an essential role as mediators of cell signaling and signal transduction, affecting metabolic homeostasis and determining meat quality in pigs. However, FAs are transformed by the action of several genes, such as those encoding desaturases and elongases of FAs in lipogenic tissues. The aim of the current work was to identify candidate genes, biological processes, and pathways involved in the modulation of intramuscular FA profile from longissimus dorsi muscle. FA profile by gas chromatography of methyl esters and gene expression by RNA-Seq were determined in 129 Iberian × Duroc backcrossed pigs. An association analysis between the muscle transcriptome and its FA profile was performed, followed by a concordance and functional analysis. Overall, a list of well-known (e.g., PLIN1, LEP, ELOVL6, SC5D, NCOA2, ACSL1, MDH1, LPL, LGALS12, TFRC, GOT1, and FBP1) and novel (e.g., TRARG1, TANK, ENSSSCG00000011196, and ENSSSCG00000038429) candidate genes was identified, either in association with specific or several FA traits. Likewise, several of these genes belong to biological processes and pathways linked to energy, lipid, and carbohydrate metabolism, which seem determinants in the modulation of FA compositions. This study can contribute to elucidate the complex relationship between gene expression and FA profile in pig muscle.
publishDate 2023
dc.date.none.fl_str_mv 2023
2023
2023
dc.type.none.fl_str_mv info:eu-repo/semantics/article
http://purl.org/coar/resource_type/c_6501
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info:eu-repo/semantics/publishedVersion
format article
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dc.identifier.none.fl_str_mv http://hdl.handle.net/10261/335391
https://api.elsevier.com/content/abstract/scopus_id/85146140710
url http://hdl.handle.net/10261/335391
https://api.elsevier.com/content/abstract/scopus_id/85146140710
dc.language.none.fl_str_mv Inglés
language_invalid_str_mv Inglés
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The underlying dataset has been published as supplementary material of the article in the publisher platform at DOI 10.1038/s41598-022-27016-x
https://doi.org/10.1038/s41598-022-27016-x
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dc.publisher.none.fl_str_mv Springer Nature
publisher.none.fl_str_mv Springer Nature
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instname:Consejo Superior de Investigaciones Científicas (CSIC)
instname_str Consejo Superior de Investigaciones Científicas (CSIC)
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spelling Global analysis of the association between pig muscle fatty acid composition and gene expression using RNA-SeqValdés Hernández, JesúsRamayo-Caldas, YuliaxisPassols, MagíSebastià, CristinaCriado-Mesas, LourdesCrespo-Piazuelo, DanielEsteve-Codina, AnnaCastelló, AnnaSánchez, ArmandFolch, Josep MaríaFatty acidsGene expressionGene expression analysisGene expression profilingTranscriptomicsFatty acids (FAs) play an essential role as mediators of cell signaling and signal transduction, affecting metabolic homeostasis and determining meat quality in pigs. However, FAs are transformed by the action of several genes, such as those encoding desaturases and elongases of FAs in lipogenic tissues. The aim of the current work was to identify candidate genes, biological processes, and pathways involved in the modulation of intramuscular FA profile from longissimus dorsi muscle. FA profile by gas chromatography of methyl esters and gene expression by RNA-Seq were determined in 129 Iberian × Duroc backcrossed pigs. An association analysis between the muscle transcriptome and its FA profile was performed, followed by a concordance and functional analysis. Overall, a list of well-known (e.g., PLIN1, LEP, ELOVL6, SC5D, NCOA2, ACSL1, MDH1, LPL, LGALS12, TFRC, GOT1, and FBP1) and novel (e.g., TRARG1, TANK, ENSSSCG00000011196, and ENSSSCG00000038429) candidate genes was identified, either in association with specific or several FA traits. Likewise, several of these genes belong to biological processes and pathways linked to energy, lipid, and carbohydrate metabolism, which seem determinants in the modulation of FA compositions. This study can contribute to elucidate the complex relationship between gene expression and FA profile in pig muscle.This work was supported by the Spanish Ministerio de Ciencia e Innovación (MICINN) and the Fondo Europeo de Desarrollo Regional (FEDER) with project references: AGL2017-82641-R and PID2020-112677RB-C22. Jesús Valdés Hernández was funded with an FI PhD grant “Formació i contractació de personal investigador novell” fellowship provided by the “Agència de Gestió d’Ajuts Universitaris i de Recerca (AGAUR)” from Generalitat de Catalunya (2019FI_B_00787 credential). Yuliaxis Ramayo-Caldas was funded by a “Ramon y Cajal” contract (RYC2019-027244-I) from the Spanish Ministry of Science and Innovation. Anna Esteve-Codina was funded by ISCIII /MINECO (PT17/0009/0019) and co-funded by FEDER. We acknowledge the support of the Spanish Ministerio de Economía y Competitividad for the “Severo Ochoa” Programme for Centres of Excellence in R&D (Project No. CEX2019-000902-S) to the Centre for Research in Agricultural Genomics (CRAG) and to the programmes of Centres de Recerca de Catalunya (CERCA).With funding from the Spanish government through the ‘Severo Ochoa Centre of Excellence’ accreditation (CEX2019-000902-S)Peer reviewedSpringer NatureMinisterio de Ciencia, Innovación y Universidades (España)Agencia Estatal de Investigación (España)Generalitat de CatalunyaEuropean CommissionConsejo Superior de Investigaciones Científicas [https://ror.org/02gfc7t72]202320232023info:eu-repo/semantics/articlehttp://purl.org/coar/resource_type/c_6501Publisher's versioninfo:eu-repo/semantics/publishedVersionapplication/pdfhttp://hdl.handle.net/10261/335391https://api.elsevier.com/content/abstract/scopus_id/85146140710reponame:DIGITAL.CSIC. Repositorio Institucional del CSICinstname:Consejo Superior de Investigaciones Científicas (CSIC)Inglés#PLACEHOLDER_PARENT_METADATA_VALUE##PLACEHOLDER_PARENT_METADATA_VALUE##PLACEHOLDER_PARENT_METADATA_VALUE##PLACEHOLDER_PARENT_METADATA_VALUE#info:eu-repo/grantAgreement/AEI/Plan Estatal de Investigación Científica y Técnica y de Innovación 2013-2016/AGL2017-82641-Rinfo:eu-repo/grantAgreement/AEI//RYC2019-027244-Iinfo:eu-repo/grantAgreement/AEI/Plan Estatal de Investigación Científica y Técnica y de Innovación 2017-2020/PID2020-112677RB-C22info:eu-repo/grantAgreement/AEI/Plan Estatal de Investigación Científica y Técnica y de Innovación 2017-2020/CEX2019-000902-SThe underlying dataset has been published as supplementary material of the article in the publisher platform at DOI 10.1038/s41598-022-27016-xhttps://doi.org/10.1038/s41598-022-27016-xSíinfo:eu-repo/semantics/openAccessoai:digital.csic.es:10261/3353912026-05-22T06:33:51Z
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