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Uncovering the immunological repertoire of the carpet shell clam Ruditapes decussatus through a transcriptomic-based approach

2019Journal article Open access
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dc.contributor.authorBatista, Frederico
dc.contributor.authorChurcher, Allison
dc.contributor.authorManchado, Manuel
dc.contributor.authorLeitão, Alexandra
dc.contributor.authorPower, Deborah
dc.date.accessioned2020-08-03T16:19:32Z
dc.date.available2020-08-03T16:19:32Z
dc.date.issued2019
dc.description.abstractThe grooved carpet-shell clam Ruditapes decussatus is native to the Northern Atlantic and Mediterranean Sea and has a high commercial value. It is one of the main native bivalve species cultured in Europe. The main objective of the present study was to gain further insights into the immunological repertoire of R. decussatus through a transcriptomic approach. Pooled mantle samples of eight R. decussatus individuals were sequenced using Illumina platform. A total of 67 132 contigs with more than 800 bp were obtained. Manual annotation of these contigs revealed 146 immune-related genes. The gene families in which the highest number of immune-related genes was observed were: C1q domain-containing proteins (63), tumor necrosis factors (15) and toll-like receptors (TLRs, 10). A total of 5 359 putative single nucleotide polymorphisms (SNPs) were identified in the 146 immune-related genes. The density of SNPs ranged between 0.04 and 7.92 SNPs/100 bp. The highest and the lowest SNP density were observed in genes of the C1q domain-containing protein family. Due to the importance of TLRs in innate immunity, we focused our attention on these membrane receptors. Ten TLRs were identified based on protein domain organization. Phylogenetic analysis revealed that R. decussatus TLRs were diverse and only 3 showed orthology with TLRs of known immune functions in other bivalve species. Moreover, our analysis suggests that lineage restricted-expansions of TLRs occurred in all mollusc taxa analysed including in venerids.pt_PT
dc.description.sponsorshipThis study was financially supported by the projects: AQUAGENET (SOE2/P1/E287) funded by the European Regional Development Fund within the program INTERREG IVB SUDOE; COMPETE/FEDER (FCOMP-01-0124-FEDER-010607); PTDC/MAR/103550/2008 and CCMAR/Multi/04326/2013 funded by the Foundation for Science and Technology (FCT). F.M.B. and A.M.C were supported by postdoctoral fellowship grants from FCT (SFRH/BPD/108591/2015 and SFRH/BPD/85408/2012).pt_PT
dc.description.versioninfo:eu-repo/semantics/publishedVersionpt_PT
dc.identifier.doi10.1016/j.aaf.2018.03.003pt_PT
dc.identifier.urihttp://hdl.handle.net/10400.1/14589
dc.language.isoengpt_PT
dc.peerreviewedyespt_PT
dc.publisherElsevierpt_PT
dc.rights.urihttp://creativecommons.org/licenses/by/4.0/pt_PT
dc.subjectRuditapes decussatuspt_PT
dc.subjectTranscriptomept_PT
dc.subjectImmune genespt_PT
dc.subjectToll-like receptorspt_PT
dc.titleUncovering the immunological repertoire of the carpet shell clam Ruditapes decussatus through a transcriptomic-based approachpt_PT
dc.typejournal article
dspace.entity.typePublication
oaire.awardURIinfo:eu-repo/grantAgreement/FCT/5876-PPCDTI/PTDC%2FMAR%2F103550%2F2008/PT
oaire.awardURIinfo:eu-repo/grantAgreement/FCT/SFRH/SFRH%2FBPD%2F85408%2F2012/PT
oaire.awardURIinfo:eu-repo/grantAgreement/FCT/5876/UID%2FMulti%2F04326%2F2013/PT
oaire.citation.endPage42pt_PT
oaire.citation.issue1pt_PT
oaire.citation.startPage37pt_PT
oaire.citation.titleAquaculture and Fisheriespt_PT
oaire.citation.volume4pt_PT
oaire.fundingStream5876-PPCDTI
oaire.fundingStreamSFRH
oaire.fundingStream5876
person.familyNameBatista
person.familyNameChurcher
person.familyNamePower
person.givenNameFrederico
person.givenNameAllison
person.givenNameDeborah Mary
person.identifier.ciencia-idCB1B-7DBC-6303
person.identifier.ciencia-id891A-8A44-3CAE
person.identifier.orcid0000-0002-2848-3011
person.identifier.orcid0000-0003-1902-3002
person.identifier.orcid0000-0003-1366-0246
person.identifier.ridF-5651-2010
person.identifier.ridM-6169-2013
person.identifier.scopus-author-id7003808684
person.identifier.scopus-author-id15062343200
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
rcaap.rightsopenAccesspt_PT
rcaap.typearticlept_PT
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