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Pathogens-in-Foods (PIF): An open-access European database of occurrence data of biological hazards in foods

2025Artigo científico Acesso restrito
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datacite.subject.fosCiências Agrárias::Agricultura, Silvicultura e Pescas
datacite.subject.sdg03:Saúde de Qualidade
datacite.subject.sdg02:Erradicar a Fome
dc.contributor.authorGonzales-Barron, Ursula
dc.contributor.authorFaria, Ana Sofia
dc.contributor.authorThebault, Anne
dc.contributor.authorGuillier, Laurent
dc.contributor.authorMendes, Lucas Ribeiro
dc.contributor.authorSilva, Lucas Ribeiro
dc.contributor.authorMessens, Winy
dc.contributor.authorKooh, Pauline
dc.contributor.authorCadavez, Vasco
dc.date.accessioned2025-04-04T10:34:05Z
dc.date.available2025-04-04T10:34:05Z
dc.date.issued2025
dc.description.abstractThe collection of occurrence data of foodborne pathogens in foods faces the hindrances of dispersion of information, lack of standardisation and harmonisation, and ultimately, high expenditure in time and resources. The Pathogens-in-Foods (PIF) database was conceived as a solution to centralise published data on prevalence and concentration of pathogenic bacteria, viruses and parasites occurring in foods, obtained through systematic review (SR), and categorised in harmonised data structures under controlled terminologies. The present article outlines how PIF was constructed to adhere to the FAIR (findability, accessibility, interoperability and reusability) principles for scientific data management; and proceeds with a description of the PIF concept, which entails two phases: the SR process and the population of PIF. The protocolled SR process is supported by a welldefined search strategy, inclusion criteria, and rules for internal validation assessment; whereas the population of PIF with new data relies in data extraction, validation and release. The article then introduces a novel data quality approach, named as the CCC approach (data consistency, conformity and completeness), which ensures proper interpretation of data, richness of data, and flawless transcription of data. After a brief explanation of the three PIF components – database, back-end and front-end – the article proceeds with the exposition of the data model, as well as the capabilities of the front-end, including data search, insertion and curation. The future of PIF lies in expanding its capabilities, addressing emerging challenges, and leveraging technological advancements to maintain its relevance and utility in the evolving landscape of food safety.eng
dc.description.sponsorshipThis work was funded by EFSA through GP/EFSA/BIOHAW/2022/ 01 and GP/EFSA/BIOHAW/2023/05. This work was also supported by National Funds through FCT/MCTES (PIDDAC): CIMO, UIDB/00690/ 2020 (DOI: 10.54499/UIDB/00690/2020) and UIDP/00690/2020 (DOI: 10.54499/UIDP/00690/2020); and SusTEC, LA/P/0007/2020 (DOI: 10.54499/LA/P/0007/2020). National funding by FCT, Foundation for Science and Technology, through the individual scientific employment program-contract with Ursula Gonzales-Barron. The authors acknowledge former project´s member Moez Sanaa for his valuable inputs in the progression of the concept of the Pathogen-in-Foods (PIF) database, and Diogo Cadavez, Marcos Pereira and Enzo Dornelles Italiano for ensuring the technical operability and maintenance of PIF between January 2022 and July 2024. The authors also acknowledge EFSA staff members Fulvio Barizzone, Frank Boelaert and Irene Mu˜noz-Guajardo for their methodological input.
dc.identifier.citationGonzales-Barron, Ursula; Faria, Ana Sofia; Thebault, Anne; Guillier, Laurent; Mendes, Lucas Ribeiro; Silva, Lucas Ribeiro; Messens, Winy; Kooh, Pauline; Cadavez, Vasco (2025). Pathogens-in-Foods (PIF): An open-access European database of occurrence data of biological hazards in foods. Microbial Risk Analysis. ISSN 2352-3522. 29, p. 1-16
dc.identifier.doi10.1016/j.mran.2025.100342
dc.identifier.issn2352-3522
dc.identifier.urihttp://hdl.handle.net/10198/34385
dc.language.isoeng
dc.peerreviewedyes
dc.publisherElsevier
dc.relationMountain Research Center
dc.relationMountain Research Center
dc.relationAssociate Laboratory for Sustainability and Tecnology in Mountain Regions
dc.relation.ispartofMicrobial Risk Analysis
dc.rights.urihttp://creativecommons.org/licenses/by/4.0/
dc.subjectMicrobiological hazards
dc.subjectWeb resource
dc.subjectFoodstuffs
dc.subjectPrevalence
dc.subjectConcentration
dc.subjectInfectivity
dc.subjectFoodborne pathogens
dc.titlePathogens-in-Foods (PIF): An open-access European database of occurrence data of biological hazards in foodseng
dc.typejournal article
dspace.entity.typePublication
oaire.awardTitleMountain Research Center
oaire.awardTitleMountain Research Center
oaire.awardTitleAssociate Laboratory for Sustainability and Tecnology in Mountain Regions
oaire.awardURIinfo:eu-repo/grantAgreement/FCT/6817 - DCRRNI ID/UIDB%2F00690%2F2020/PT
oaire.awardURIinfo:eu-repo/grantAgreement/FCT/6817 - DCRRNI ID/UIDP%2F00690%2F2020/PT
oaire.awardURIinfo:eu-repo/grantAgreement/FCT/6817 - DCRRNI ID/LA%2FP%2F0007%2F2020/PT
oaire.citation.endPage16
oaire.citation.startPage1
oaire.citation.titleMicrobial Risk Analysis
oaire.citation.volume29
oaire.fundingStream6817 - DCRRNI ID
oaire.fundingStream6817 - DCRRNI ID
oaire.fundingStream6817 - DCRRNI ID
oaire.versionhttp://purl.org/coar/version/c_970fb48d4fbd8a85
person.familyNameGonzales-Barron
person.familyNameFaria
person.familyNameCadavez
person.givenNameUrsula
person.givenNameAna Sofia
person.givenNameVasco
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person.identifier.ciencia-id441B-01AB-A12E
person.identifier.orcid0000-0002-8462-9775
person.identifier.orcid0000-0002-7339-1036
person.identifier.orcid0000-0002-3077-7414
person.identifier.ridA-3958-2010
person.identifier.scopus-author-id9435483700
person.identifier.scopus-author-id56078920800
person.identifier.scopus-author-id9039121900
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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