Exon-intron split analysis reveals posttranscriptional regulatory signals induced by high and low n-6/n-3 polyunsaturated fatty acid ratio diets in piglets

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  • dc.contributor.author Manaig, Yron Joseph Yabut
  • dc.contributor.author Mármol-Sánchez, Emilio
  • dc.contributor.author Castelló, Anna
  • dc.contributor.author Esteve-Codina, Anna
  • dc.contributor.author Sandrini, Silvia
  • dc.contributor.author Savoini, Giovanni
  • dc.contributor.author Agazzi, Alessandro
  • dc.contributor.author Sánchez, Armand
  • dc.contributor.author Folch, Josep M.
  • dc.date.accessioned 2023-12-18T07:05:28Z
  • dc.date.available 2023-12-18T07:05:28Z
  • dc.date.issued 2023
  • dc.description.abstract Polyunsaturated fatty acids (PUFA), such as omega-6 (n-6) and omega-3 (n-3), play a vital role in nutrient metabolism, inflammatory response, and gene regulation. microRNAs (miRNA), which can potentially degrade targeted messenger RNAs (mRNA) and/or inhibit their translation, might play a relevant role in PUFA-related changes in gene expression. Although differential expression analyses can provide a comprehensive picture of gene expression variation, they are unable to disentangle when in the mRNA life cycle the regulation of expression is taking place, including any putative functional miRNA-driven repression. To capture this, we used an exon-intron split analysis (EISA) approach to account for posttranscriptional changes in response to extreme values of n-6/n-3 PUFA ratio. Longissimus dorsi muscle samples of male and female piglets from sows fed with n-6/n-3 PUFA ratio of 13:1 (SOY) or 4:1 (LIN), were analyzed in a bidirectional contrast (LIN vs. SOY, SOY vs. LIN). Our results allowed the identification of genes showing strong posttranscriptional downregulation signals putatively targeted by significantly upregulated miRNA. Moreover, we identified genes primarily involved in the regulation of lipid-related metabolism and immune response, which may be associated with the pro- and anti-inflammatory functions of the n-6 and n-3 PUFA, respectively. EISA allowed us to uncover regulatory networks complementing canonical differential expression analyses, thus providing a more comprehensive view of muscle metabolic changes in response to PUFA concentration.
  • dc.description.sponsorship This work was supported by the European Union Horizon 2020 Research and Innovation programme H2020-MSCA-ITN-2017-EJD: Marie Skłodowska-Curie Innovative Training Networks (European Joint Doctorate) – Grant agreement: 765423—MANNA. Additionally, it 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. We also acknowledge the support of the Spanish Ministerio de Economía y Competitividad for the “Severo Ochoa” Programme for Centres of Excellence in R&D (Project CEX2019-000902-S) to the Centre for Research in Agricultural Genomics (CRAG) and to the programmes of Centres de Recerca de Catalunya (CERCA). Funding organizations were not involved in the execution of the project or the interpretation of results. All experimental protocols were approved by the ethical committee of the University of Milan (OPBA 22/2020). We also thank for help of Dr. Eleonora Munari and the University of Milan farm personnel with the in vivo trials, and Dr. Sara Panseri and Giacomo Mosconi for fatty acid analysis.
  • dc.format.mimetype application/pdf
  • dc.identifier.citation Manaig YJY, Mármol-Sánchez E, Castelló A, Esteve-Codina A, Sandrini S, Savoini G, Agazzi A, Sánchez A, Folch JM. Exon-intron split analysis reveals posttranscriptional regulatory signals induced by high and low n-6/n-3 polyunsaturated fatty acid ratio diets in piglets. J Anim Sci. 2023 Jan 3;101:skad271. DOI: 10.1093/jas/skad271
  • dc.identifier.doi http://dx.doi.org/10.1093/jas/skad271
  • dc.identifier.issn 0021-8812
  • dc.identifier.uri http://hdl.handle.net/10230/58564
  • dc.language.iso eng
  • dc.publisher Oxford University Press
  • dc.relation.ispartof J Anim Sci. 2023 Jan 3;101:skad271
  • dc.relation.projectID info:eu-repo/grantAgreement/EC/H2020/765423
  • dc.relation.projectID info:eu-repo/grantAgreement/ES/2PE/AGL2017-82641-R
  • dc.relation.projectID info:eu-repo/grantAgreement/ES/2PE/PID2020-112677RB-C22
  • dc.relation.projectID info:eu-repo/grantAgreement/ES/2PE/CEX2019-000902-S
  • dc.rights © The Author(s) 2023. Published by Oxford University Press on behalf of the American Society of Animal Science. This is an Open Access article distributed under the terms of the Creative Commons Attribution-NonCommercial License (https://creativecommons.org/licenses/by-nc/4.0/), which permits non-commercial re-use, distribution, and reproduction in any medium, provided the original work is properly cited. For commercial re-use, please contact journals.permissions@oup.com
  • dc.rights.accessRights info:eu-repo/semantics/openAccess
  • dc.rights.uri http://creativecommons.org/licenses/by-nc/4.0/
  • dc.subject.keyword Exon–intron split analysis
  • dc.subject.keyword PUFA
  • dc.subject.keyword Messenger RNA
  • dc.subject.keyword microRNA
  • dc.subject.keyword Piglets
  • dc.title Exon-intron split analysis reveals posttranscriptional regulatory signals induced by high and low n-6/n-3 polyunsaturated fatty acid ratio diets in piglets
  • dc.type info:eu-repo/semantics/article
  • dc.type.version info:eu-repo/semantics/publishedVersion

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