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Data Employed in the Construction of a Composite Protein Database for Proteogenomic Analyses of Cephalopods Salivary Apparatus

2020Journal article Open access
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dc.contributor.authorAlmeida, Daniela
dc.contributor.authorDomínguez-Pérez, Dany
dc.contributor.authorMatos, Ana
dc.contributor.authorAgüero-Chapin, Guillermin
dc.contributor.authorCastaño-Guerrero, Yuselis
dc.contributor.authorVasconcelos, Vitor
dc.contributor.authorCampos, Alexandre
dc.contributor.authorAntunes, Agostinho
dc.date.accessioned2021-09-28T09:05:54Z
dc.date.available2021-09-28T09:05:54Z
dc.date.issued2020
dc.description.abstractHere we provide all datasets and details applied in the construction of a composite protein database required for the proteogenomic analyses of the article “Putative Antimicrobial Peptides of the Posterior Salivary Glands from the Cephalopod Octopus vulgaris Revealed by Exploring a Composite Protein Database”. All data, subdivided into six datasets, are deposited at the Mendeley Data repository as follows. Dataset_1 provides our composite database “All_Databases_5950827_sequences.fasta” derived from six smaller databases composed of (i) protein sequences retrieved from public databases related to cephalopods’ salivary glands, (ii) proteins identified with Proteome Discoverer software using our original data obtained by shotgun proteomic analyses of posterior salivary glands (PSGs) from three Octopus vulgaris specimens (provided as Dataset_2) and (iii) a non-redundant antimicrobial peptide (AMP) database. Dataset_3 includes the transcripts obtained by de novo assembly of 16 transcriptomes from cephalopods’ PSGs using CLC Genomics Workbench. Dataset_4 provides the proteins predicted by the TransDecoder tool from the de novo assembly of 16 transcriptomes of cephalopods’ PSGs. Further details about database construction, as well as the scripts and command lines used to construct them, are deposited within Dataset_5 and Dataset_6. The data provided in this article will assist in unravelling the role of cephalopods’ PSGs in feeding strategies, toxins and AMP productionpt_PT
dc.description.sponsorshipThis study was supported by the Strategic Funding UIDB/04423/2020 and UIDP/04423/2020 through national funds provided by the Foundation for Science and Technology (FCT) and the European Regional Development Fund (ERDF) in the framework of the program PT2020, by the European Structural and Investment Funds (ESIF) through the Competitiveness and Internationalization Operational Program—COMPETE 2020 and by National Funds through the FCT under the project PTDC/CTA-AMB/31774/2017 (POCI-01-0145-FEDER/031774/2017). We are grateful to Robert Carcasses (Full Stack developer at Kenkou GmbH, Germany) for language programming advice and assistance.pt_PT
dc.description.versioninfo:eu-repo/semantics/publishedVersionpt_PT
dc.identifier.doi10.3390/data5040110pt_PT
dc.identifier.urihttp://hdl.handle.net/10400.22/18595
dc.language.isoengpt_PT
dc.publisherMDPIpt_PT
dc.relationPOCI-01-0145-FEDER/031774/2017pt_PT
dc.relationInterdisciplinary Centre of Marine and Environmental Research
dc.relationInterdisciplinary Centre of Marine and Environmental Research
dc.relation.publisherversionhttps://www.mdpi.com/2306-5729/5/4/110pt_PT
dc.rights.urihttp://creativecommons.org/licenses/by-nc-nd/4.0/pt_PT
dc.subjectOctopus vulgarispt_PT
dc.subjectShotgun proteomicspt_PT
dc.subjectQ-Exactivept_PT
dc.subjectTranscriptome de novo assemblypt_PT
dc.subjectMass spectrometry-based proteomicspt_PT
dc.subjectTransDecoderpt_PT
dc.subjectSix-frame translation toolpt_PT
dc.subjectCLC Genomics Workbenchpt_PT
dc.titleData Employed in the Construction of a Composite Protein Database for Proteogenomic Analyses of Cephalopods Salivary Apparatuspt_PT
dc.typejournal article
dspace.entity.typePublication
oaire.awardTitleInterdisciplinary Centre of Marine and Environmental Research
oaire.awardTitleInterdisciplinary Centre of Marine and Environmental Research
oaire.awardURIinfo:eu-repo/grantAgreement/FCT/6817 - DCRRNI ID/UIDB%2F04423%2F2020/PT
oaire.awardURIinfo:eu-repo/grantAgreement/FCT/6817 - DCRRNI ID/UIDP%2F04423%2F2020/PT
oaire.awardURIinfo:eu-repo/grantAgreement/FCT/9471 - RIDTI/PTDC%2FCTA-AMB%2F31774%2F2017/PT
oaire.citation.issue4pt_PT
oaire.citation.startPage110pt_PT
oaire.citation.titleDatapt_PT
oaire.citation.volume5pt_PT
oaire.fundingStream6817 - DCRRNI ID
oaire.fundingStream6817 - DCRRNI ID
oaire.fundingStream9471 - RIDTI
person.familyNameCastaño Guerrero
person.givenNameYuselis
person.identifier.ciencia-idA81E-756E-7AD5
person.identifier.orcid0000-0001-6155-5083
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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