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Admixture and breed traceability in European indigenous pig breeds and wild boar using genome-wide SNP data

2022Journal article Open access
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dc.contributor.authorDadousis, Christos
dc.contributor.authorMuñoz, Maria
dc.contributor.authorÓvilo, Cristina
dc.contributor.authorFabbri, Maria Chiara
dc.contributor.authorAraújo, José Pedro
dc.contributor.authorBovo, Samuele
dc.contributor.authorPotokar, Marjeta Čandek
dc.contributor.authorCharneca, Rui
dc.contributor.authorCrovetti, Alessandro
dc.contributor.authorGallo, Maurizio
dc.contributor.authorGarcía-Casco, Juan María
dc.contributor.authorKarolyi, Danijel
dc.contributor.authorKušec, Goran
dc.contributor.authorMartins, José Manuel
dc.contributor.authorMercat, Marie-José
dc.contributor.authorPugliese, Carolina
dc.contributor.authorQuintanilla, Raquel
dc.contributor.authorRadović, Čedomir
dc.contributor.authorRazmaite, Violeta
dc.contributor.authorRibani, Anisa
dc.contributor.authorRiquet, Juliet
dc.contributor.authorSavić, Radomir
dc.contributor.authorSchiavo, Giuseppina
dc.contributor.authorŠkrlep, Martin
dc.contributor.authorTinarelli, Silvia
dc.contributor.authorUsai, Graziano
dc.contributor.authorZimmer, Christoph
dc.contributor.authorFontanesi, Luca
dc.contributor.authorBozzi, Riccardo
dc.date.accessioned2022-05-24T11:20:06Z
dc.date.available2022-05-24T11:20:06Z
dc.date.issued2022
dc.description.abstractPreserving diversity of indigenous pig (Sus scrofa) breeds is a key factor to (i) sustain the pork chain (both at local and global scales) including the production of high-quality branded products, (ii) enrich the animal biobanking and (iii) progress conservation policies. Single nucleotide polymorphism (SNP) chips offer the opportunity for whole-genome comparisons among individuals and breeds. Animals from twenty European local pigs breeds, reared in nine countries (Croatia: Black Slavonian, Turopolje; France: Basque, Gascon; Germany: Schwabisch-Hällisches Schwein; Italy: Apulo Calabrese, Casertana, Cinta Senese, Mora Romagnola, Nero Siciliano, Sarda; Lithuania: Indigenous Wattle, White Old Type; Portugal: Alentejana, Bísara; Serbia: Moravka, Swallow-Bellied Mangalitsa; Slovenia: Krškopolje pig; Spain: Iberian, Majorcan Black), and three commercial breeds (Duroc, Landrace and Large White) were sampled and genotyped with the GeneSeek Genomic Profiler (GGP) 70 K HD porcine genotyping chip. A dataset of 51 Wild Boars from nine countries was also added, summing up to 1186 pigs (~ 49 pigs/ breed). The aim was to: (i) investigate individual admixture ancestries and (ii) assess breed traceability via discriminant analysis on principal components (DAPC). Albeit the mosaic of shared ancestries found for Nero Siciliano, Sarda and Moravka, admixture analysis indicated independent evolvement for the rest of the breeds. High prediction accuracy of DAPC mark SNP data as a reliable solution for the traceability of breed-specific pig products.pt_PT
dc.description.sponsorshipThis work has received funding from the European Union’s Horizon 2020 research and innovation programme under grant agreement No. 634476 for the project with acronym TREASURE. The content of this article reflects only the authors’ view and the European Union Agency is not responsible for any use that may be made of the information it contains. MŠ and MČP received core-financing by the Slovenian Research Agency (grant number P4-0133).pt_PT
dc.description.versioninfo:eu-repo/semantics/publishedVersionpt_PT
dc.identifier.citationDadousis, Christos; Muñoz, Maria; Óvilo, Cristina; Fabbri, Maria Chiara; Araújo, José Pedro; Bovo, Samuele; Potokar, Marjeta Čandek; Charneca, Rui; Crovetti, Alessandro; Gallo, Maurizio; García-Casco, Juan María; Karolyi, Danijel; Kušec, Goran; Martins, José Manuel; Mercat, Marie-José; Pugliese, Carolina; Quintanilla, Raquel; Radović, Čedomir; Razmaite, Violeta; Ribani, Anisa; Riquet, Juliet; Savić, Radomir; Schiavo, Giuseppina; Škrlep, Martin; Tinarelli, Silvia; Usai, Graziano; Zimmer, Christoph; Fontanesi, Luca; Bozzi, Riccardo (2022). Admixture and breed traceability in European indigenous pig breeds and wild boar using genome-wide SNP data. Scientific Reports. ISSN 2045-2322. 12:1, p. 1-13pt_PT
dc.identifier.doi10.1038/s41598-022-10698-8pt_PT
dc.identifier.eissn2045-2322
dc.identifier.issn2045-2322
dc.identifier.urihttp://hdl.handle.net/10198/25533
dc.language.isoengpt_PT
dc.peerreviewedyespt_PT
dc.publisherNature Researchpt_PT
dc.relationDIVERSITY OF LOCAL PIG BREEDS AND PRODUCTION SYSTEMS FOR HIGH QUALITY TRADITIONAL PRODUCTS AND SUSTAINABLE PORK CHAINS
dc.rights.urihttp://creativecommons.org/licenses/by/4.0/pt_PT
dc.titleAdmixture and breed traceability in European indigenous pig breeds and wild boar using genome-wide SNP datapt_PT
dc.typejournal article
dspace.entity.typePublication
oaire.awardTitleDIVERSITY OF LOCAL PIG BREEDS AND PRODUCTION SYSTEMS FOR HIGH QUALITY TRADITIONAL PRODUCTS AND SUSTAINABLE PORK CHAINS
oaire.awardURIinfo:eu-repo/grantAgreement/EC/H2020/634476/EU
oaire.citation.issue1pt_PT
oaire.citation.titleScientific Reportspt_PT
oaire.citation.volume12pt_PT
oaire.fundingStreamH2020
project.funder.identifierhttp://doi.org/10.13039/501100008530
project.funder.nameEuropean Commission
rcaap.rightsopenAccesspt_PT
rcaap.typearticlept_PT
relation.isProjectOfPublication5931b3f3-b0d5-4041-adc9-852a0dad7c96
relation.isProjectOfPublication.latestForDiscovery5931b3f3-b0d5-4041-adc9-852a0dad7c96

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