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Gene expression comparison between the injured tubercule skin of turbot (Scophthalmus maximus) and the scale skin of brill (Scophthalmus rhombus)

2024-11-14Journal article Open access
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dc.contributor.authorEstêvão, João
dc.contributor.authorBlanco-Hortas, Andrés
dc.contributor.authorRubiolo, Juan A.
dc.contributor.authorAramburu, Óscar
dc.contributor.authorFernández, Carlos
dc.contributor.authorGómez-Tato, Antonio
dc.contributor.authorPower, Deborah Mary
dc.contributor.authorMartínez, Paulino
dc.date.accessioned2024-12-18T11:06:49Z
dc.date.available2024-12-18T11:06:49Z
dc.date.issued2024-11-14
dc.description.abstractTurbot and brill are two congeneric commercial flatfish species with striking differences in skin organization. The calcified appendages in turbot skin are conical tubercles, while in brill, they are elasmoid scales. A skin injury involving epidermal and dermal levels was evaluated 72 h post-injury to compare the skin regeneration processes between both species. An immune-enriched 4x44k turbot oligo-microarray was used to characterize the skin transcriptome and gene expression profiles in both species. RNA-seq was also performed on the brill samples to improve transcriptome characterization and validate the microarray results. A total of 15,854 and 12,447 expressed genes were identified, respectively, in the turbot and brill skin (10,101 shared) using the oligo-microarray (11,953 and 9629 annotated). RNA-seq enabled the identification of 11,838 genes in brill skin (11,339 annotated). Functional annotation of skin transcriptomes was similar in both species, but in turbot, it was enriched on mechanisms related to maintenance of epithelial structure, mannosidase activity, phospholipid binding, and cell membranes, while in brill, it was enriched on biological and gene regulation mechanisms, tissue development, and transferase and catalytic activities. The number of DEGs identified after skin damage in brill and turbot was 439 and 143, respectively (only 14 shared). Functions related to catabolic and metabolic processes, visual and sensorial perception, response to wounding, and wound healing were enriched in turbot DEGs, while metabolism, immune response, oxidative stress, phospholipid binding, and response to stimulus were enriched in brill. The results indicate that differences may be related to the stage of wound repair due to their different skin architecture. This work provides a foundation for future studies directed at skin defense mechanisms, with practical implications in flatfish aquaculture.eng
dc.description.sponsorshipED431C 2022/33
dc.identifier.doi10.3390/fishes9110462
dc.identifier.issn2410-3888
dc.identifier.urihttp://hdl.handle.net/10400.1/26509
dc.language.isoeng
dc.peerreviewedyes
dc.publisherMDPI
dc.relationAlgarve Centre for Marine Sciences
dc.relationAlgarve Centre for Marine Sciences
dc.relationCentre for Marine and Environmental Research
dc.relation.ispartofFishes
dc.rights.urihttp://creativecommons.org/licenses/by/4.0/
dc.subjectFish skin transcriptome
dc.subjectScophthalmus maximus
dc.subjectScophthalmus rhombus
dc.subjectOligo-microarray
dc.subjectRNA-seq
dc.titleGene expression comparison between the injured tubercule skin of turbot (Scophthalmus maximus) and the scale skin of brill (Scophthalmus rhombus)eng
dc.typejournal article
dspace.entity.typePublication
oaire.awardTitleAlgarve Centre for Marine Sciences
oaire.awardTitleAlgarve Centre for Marine Sciences
oaire.awardTitleCentre for Marine and Environmental Research
oaire.awardURIinfo:eu-repo/grantAgreement/FCT/6817 - DCRRNI ID/UIDB%2F04326%2F2020/PT
oaire.awardURIinfo:eu-repo/grantAgreement/FCT/6817 - DCRRNI ID/UIDP%2F04326%2F2020/PT
oaire.awardURIinfo:eu-repo/grantAgreement/FCT/6817 - DCRRNI ID/LA%2FP%2F0101%2F2020/PT
oaire.citation.issue11
oaire.citation.startPage462
oaire.citation.titleFishes
oaire.citation.volume9
oaire.fundingStream6817 - DCRRNI ID
oaire.fundingStream6817 - DCRRNI ID
oaire.fundingStream6817 - DCRRNI ID
oaire.versionhttp://purl.org/coar/version/c_970fb48d4fbd8a85
person.familyNamePower
person.givenNameDeborah Mary
person.identifier.ciencia-id891A-8A44-3CAE
person.identifier.orcid0000-0003-1366-0246
person.identifier.scopus-author-id7101806760
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
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