Repository logo
 
Publication

Transcriptomic changes behind Sparus aurata hepatic response to different aquaculture challenges: An RNA-seq study and multiomics integration

2024-03Journal article Open Access
Simple item page
dc.contributor.authorRaposo de Magalhães, Cláudia
dc.contributor.authorSandoval, Kenneth
dc.contributor.authorKagan, Ferenc
dc.contributor.authorMcCormack, Grace
dc.contributor.authorSchrama, Denise
dc.contributor.authorCarrilho, Raquel
dc.contributor.authorFarinha, Ana Paula
dc.contributor.authorCerqueira, Marco
dc.contributor.authorRodrigues, Pedro
dc.date.accessioned2024-05-02T12:11:29Z
dc.date.available2024-05-02T12:11:29Z
dc.date.issued2024-03
dc.description.abstractGilthead seabream (Sparus aurata) is an important species in Mediterranean aquaculture. Rapid intensification of its production and sub-optimal husbandry practices can cause stress, impairing overall fish performance and raising issues related to sustainability, animal welfare, and food safety. The advent of next-generation sequencing technologies has greatly revolutionized the study of fish stress biology, allowing a deeper understanding of the molecular stress responses. Here, we characterized for the first time, using RNA-seq, the different hepatic transcriptome responses of gilthead seabream to common aquaculture challenges, namely overcrowding, net handling, and hypoxia, further integrating them with the liver proteome and metabolome responses. After reference-guided transcriptome assembly, annotation, and differential gene expression analysis, 7, 343, and 654 genes were differentially expressed (adjusted p-value < 0.01, log2|fold-change| >1) in the fish from the overcrowding, net handling, and hypoxia challenged groups, respectively. Gene set enrichment analysis (FDR < 0.05) suggested a scenario of challenge-specific responses, that is, net handling induced ribosomal assembly stress, whereas hypoxia induced DNA replication stress in gilthead seabream hepatocytes, consistent with proteomics and metabolomics' results. However, both responses converged upon the downregulation of insulin growth factor signalling and induction of endoplasmic reticulum stress. These results demonstrate the high phenotypic plasticity of this species and its differential responses to distinct challenging environments at the transcriptomic level. Furthermore, it provides significant resources for characterizing and identifying potentially novel genes that are important for gilthead seabream resilience and aquaculture production efficiency with regard to fish welfare.pt_PT
dc.description.sponsorshipMAR2020 MAR-02.05.01-FEAMP-0012pt_PT
dc.description.versioninfo:eu-repo/semantics/publishedVersionpt_PT
dc.identifier.doi10.1371/journal.pone.0300472pt_PT
dc.identifier.issn1932-6203
dc.identifier.urihttp://hdl.handle.net/10400.1/20690
dc.language.isoengpt_PT
dc.peerreviewedyespt_PT
dc.publisherPublic Library Sciencept_PT
dc.relationEstablishment of farmed fish welfare biomarkers; a multi-omics approach
dc.relationCharacterization and modulation of fish allergenicity towards the production of a low allergen farmed fish
dc.relationBIOIMMUNE - Natural Antimicrobials and Pyrexia as Alternative Strategies for Antibiotic Use to Prevent Pathogens and Improve Welfare in Aquaculture
dc.rights.urihttp://creativecommons.org/licenses/by/4.0/pt_PT
dc.subjectStress-responsept_PT
dc.subjectOreochromis-niloticuspt_PT
dc.subjectOncorhynchus-mykisspt_PT
dc.subjectRibosome biogenesispt_PT
dc.subjectEnrichment analysispt_PT
dc.subjectStocking densitypt_PT
dc.subjectGene-expressionpt_PT
dc.subjectChronic hypoxiapt_PT
dc.subjectRainbow-troutpt_PT
dc.subjectNile tilapiapt_PT
dc.titleTranscriptomic changes behind Sparus aurata hepatic response to different aquaculture challenges: An RNA-seq study and multiomics integrationpt_PT
dc.typejournal article
dspace.entity.typePublication
oaire.awardTitleEstablishment of farmed fish welfare biomarkers; a multi-omics approach
oaire.awardTitleCharacterization and modulation of fish allergenicity towards the production of a low allergen farmed fish
oaire.awardTitleBIOIMMUNE - Natural Antimicrobials and Pyrexia as Alternative Strategies for Antibiotic Use to Prevent Pathogens and Improve Welfare in Aquaculture
oaire.awardURIinfo:eu-repo/grantAgreement/FCT/OE/SFRH%2FBD%2F138884%2F2018/PT
oaire.awardURIinfo:eu-repo/grantAgreement/FCT/OE/SFRH%2FBD%2F136319%2F2018/PT
oaire.awardURIinfo:eu-repo/grantAgreement/FCT/OE/2021.06786.BD/PT
oaire.awardURIinfo:eu-repo/grantAgreement/FCT/CEEC IND 3ed/2020.02937.CEECIND%2FCP1597%2FCT0001/PT
oaire.citation.issue3pt_PT
oaire.citation.startPagee0300472pt_PT
oaire.citation.titlePlos Onept_PT
oaire.citation.volume19pt_PT
oaire.fundingStreamOE
oaire.fundingStreamOE
oaire.fundingStreamOE
oaire.fundingStreamCEEC IND 3ed
person.familyNameRaposo de Magalhães
person.familyNameSchrama
person.familyNameVaz Carrilho
person.familyNameMARTINS FARINHA RESENDE
person.familyNameCerqueira
person.familyNameRodrigues
person.givenNameCláudia
person.givenNameDenise
person.givenNameRaquel
person.givenNameANA PAULA
person.givenNameMarco
person.givenNamePedro
person.identifier159154
person.identifierG-5692-2017
person.identifier.ciencia-idEB1C-0E40-F003
person.identifier.ciencia-id501C-AC69-68C0
person.identifier.ciencia-idF41E-AC88-8BCD
person.identifier.ciencia-id4312-4B8F-3079
person.identifier.ciencia-id4F1E-16FC-00D8
person.identifier.orcid0000-0001-7751-2870
person.identifier.orcid0000-0003-0274-5957
person.identifier.orcid0000-0003-1455-5958
person.identifier.orcid0000-0001-7237-5053
person.identifier.orcid0000-0002-9668-1204
person.identifier.ridH-6511-2016
person.identifier.ridM-3406-2013
person.identifier.scopus-author-id55755583400
person.identifier.scopus-author-id54386717500
person.identifier.scopus-author-id55107531000
project.funder.identifierhttp://doi.org/10.13039/501100001871
project.funder.identifierhttp://doi.org/10.13039/501100001871
project.funder.identifierhttp://doi.org/10.13039/501100001871
project.funder.identifierhttp://doi.org/10.13039/501100001871
project.funder.nameFundação para a Ciência e a Tecnologia
project.funder.nameFundação para a Ciência e a Tecnologia
project.funder.nameFundação para a Ciência e a Tecnologia
project.funder.nameFundação para a Ciência e a Tecnologia
rcaap.rightsopenAccesspt_PT
rcaap.typearticlept_PT
relation.isAuthorOfPublicationd4a61a87-6540-4fe2-8a75-b66a677f3f47
relation.isAuthorOfPublication00f4fa6e-b467-4d5c-83f2-a454f7b4bc71
relation.isAuthorOfPublication9ab8fb52-1c14-41ad-a0cb-201e471b8b08
relation.isAuthorOfPublicationea9ff946-e709-44ad-9e33-273f7f88af83
relation.isAuthorOfPublication468ec69f-f93b-4db1-970b-1009035a2157
relation.isAuthorOfPublicationc4613fe6-e1a0-4dd9-be8d-442b2b8a7b72
relation.isAuthorOfPublication.latestForDiscovery468ec69f-f93b-4db1-970b-1009035a2157
relation.isProjectOfPublication90bff101-f7c5-4433-8fcd-2f48ac76f330
relation.isProjectOfPublication3f584fa8-a47c-4cfe-8b45-53aff2ef599c
relation.isProjectOfPublication52e7b24c-6d3b-4d65-aab0-9eef621d6fbe
relation.isProjectOfPublication9ca45011-35e6-4833-8797-17316ad7f4ce
relation.isProjectOfPublication.latestForDiscovery9ca45011-35e6-4833-8797-17316ad7f4ce

Files

Original bundle
Now showing 1 - 1 of 1
Thumbnail Image
Name:
Transcriptomic changes behind Sparus aurata hepatic response to different aquaculture challenges.pdf
Size:
2.56 MB
Format:
Adobe Portable Document Format
Download
License bundle
Now showing 1 - 1 of 1
No Thumbnail Available
Name:
license.txt
Size:
3.46 KB
Format:
Item-specific license agreed upon to submission
Description:
Download

Collections

CCM2-Artigos (em revistas ou actas indexadas)