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mRNA-Seq and microarray development for the Grooved carpet shell clam, Ruditapes decussatus: a functional approach to unravel host -parasite interaction

2013-10-29Artigo científico Acesso aberto
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dc.contributor.authorLeite, Ricardo
dc.contributor.authorMilan, Massimo
dc.contributor.authorCoppe, Alessandro
dc.contributor.authorBortoluzzi, Stefania
dc.contributor.authorDos Anjos, António
dc.contributor.authorReinhardt, Richard
dc.contributor.authorSaavedra, Carlos
dc.contributor.authorPatarnello, T.
dc.contributor.authorCancela, Leonor
dc.contributor.authorBargelloni, Luca
dc.date.accessioned2014-05-07T14:50:41Z
dc.date.available2014-05-07T14:50:41Z
dc.date.issued2013-10-29
dc.date.updated2014-04-05T17:10:27Z
dc.description.abstractBackground: The Grooved Carpet shell clam Ruditapes decussatus is the autochthonous European clam and the most appreciated from a gastronomic and economic point of view. The production is in decline due to several factors such as Perkinsiosis and habitat invasion and competition by the introduced exotic species, the manila clam Ruditapes philippinarum. After we sequenced R. decussatus transcriptome we have designed an oligo microarray capable of contributing to provide some clues on molecular response of the clam to Perkinsiosis. Results: A database consisting of 41,119 unique transcripts was constructed, of which 12,479 (30.3%) were annotated by similarity. An oligo-DNA microarray platform was then designed and applied to profile gene expression in R. decussatus heavily infected by Perkinsus olseni. Functional annotation of differentially expressed genes between those two conditionswas performed by gene set enrichment analysis. As expected, microarrays unveil genes related with stress/infectious agents such as hydrolases, proteases and others. The extensive role of innate immune system was also analyzed and effect of parasitosis upon expression of important molecules such as lectins reviewed.Conclusions: This study represents a first attempt to characterize Ruditapes decussatus transcriptome, an important marine resource for the European aquaculture. The trancriptome sequencing and consequent annotation will increase the available tools and resources for this specie, introducing the possibility of high throughput experiments such as microarrays analysis. In this specific case microarray approach was used to unveil some important aspects of host-parasite interaction between the Carpet shell clam and Perkinsus, two non-model species, highlighting some genes associated with this interaction. Ample information was obtained to identify biological processes significantly enriched among differentially expressed genes in Perkinsus infected versus non-infected gills. An overview on the genes related with the immune system on R. decussatus transcriptome is also reported.por
dc.description.versioninfo:eu-repo/semantics/publishedVersion
dc.identifier.citationBMC Genomics. 2013 Oct 29;14(1):741por
dc.identifier.doihttp://dx.doi.org/10.1186/1471-2164-14-741
dc.identifier.otherAUT: LCA00739;
dc.identifier.urihttp://hdl.handle.net/10400.1/3798
dc.language.isoengpor
dc.peerreviewedyespor
dc.publisherBioMed Centralpor
dc.rights.holderRicardo B Leite et al.; licensee BioMed Central Ltd.
dc.titlemRNA-Seq and microarray development for the Grooved carpet shell clam, Ruditapes decussatus: a functional approach to unravel host -parasite interactionpor
dc.typejournal article
dspace.entity.typePublication
oaire.awardURIinfo:eu-repo/grantAgreement/FCT/SFRH/SFRH%2FBPD%2F91518%2F2012/PT
oaire.awardURIinfo:eu-repo/grantAgreement/FCT/SFRH/SFRH%2FBD%2F30112%2F2006/PT
oaire.citation.endPage17por
oaire.citation.issue1:741por
oaire.citation.startPage1por
oaire.citation.titleBMC Genomicspor
oaire.citation.volume14por
oaire.fundingStreamSFRH
oaire.fundingStreamSFRH
person.familyNameLeite
person.familyNameAnjos
person.familyNameCancela
person.givenNameRicardo
person.givenNameAntónio
person.givenNameM. Leonor
person.identifier447622
person.identifier.ciencia-idF115-256E-C84D
person.identifier.ciencia-id2D11-C8C8-D8EA
person.identifier.orcid0000-0002-9622-3895
person.identifier.orcid0000-0001-6521-8930
person.identifier.orcid0000-0003-3114-6662
person.identifier.ridB-3389-2008
person.identifier.ridM-7604-2013
person.identifier.scopus-author-id8362650900
person.identifier.scopus-author-id25638237700
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
rcaap.rightsopenAccesspor
rcaap.typearticlepor
relation.isAuthorOfPublication3fb360e0-a481-486e-96ca-af9f6ecd6eb8
relation.isAuthorOfPublicationc525cee7-e184-4154-ab9a-23270970ca86
relation.isAuthorOfPublicationb9bbfe32-3dfe-4131-ad14-a4394008447f
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