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DIVERSITY ACROSS MAJOR AND CANDIDATE GENES IN EUROPEAN LOCAL PIG BREEDS

Óvilo, Cristina; Bozzi, Riccardo; García, F; Nuñez, Yolanda; Geraci, Claudia; Crovetti, Alessandro; García-Casco, Juan; Alves, Estefânia; Škrlep, Martin; Charneca, Rui; Quintanilla, Raquel; Kušec, Goran; Riquet, Juliette; Mercat, Marie-José; Zimmer, Christoph; Razmaitė, Violeta; Araújo, José Pedro; Radović, Čedomir; Savić, Radomir; Čandek-Potokar, Marjeta; Fontanesi, Luca; Fernández, Ana; Muñoz, Maria


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  <identifier identifierType="DOI">10.5281/zenodo.1135161</identifier>
  <creators>
    <creator>
      <creatorName>Óvilo, Cristina</creatorName>
      <givenName>Cristina</givenName>
      <familyName>Óvilo</familyName>
      <affiliation>Departamento Mejora Genética Animal, INIA, Madrid, España</affiliation>
    </creator>
    <creator>
      <creatorName>Bozzi, Riccardo</creatorName>
      <givenName>Riccardo</givenName>
      <familyName>Bozzi</familyName>
      <affiliation>Department of Agrifood Production and Environmental Sciences, School of Agriculture, University of Florence</affiliation>
    </creator>
    <creator>
      <creatorName>García, F</creatorName>
      <givenName>F</givenName>
      <familyName>García</familyName>
      <affiliation>Departamento Mejora Genética Animal, INIA, Madrid, España</affiliation>
    </creator>
    <creator>
      <creatorName>Nuñez, Yolanda</creatorName>
      <givenName>Yolanda</givenName>
      <familyName>Nuñez</familyName>
      <affiliation>Departamento Mejora Genética Animal, INIA, Madrid, España</affiliation>
    </creator>
    <creator>
      <creatorName>Geraci, Claudia</creatorName>
      <givenName>Claudia</givenName>
      <familyName>Geraci</familyName>
      <affiliation>Universita di Bologna, Italy</affiliation>
    </creator>
    <creator>
      <creatorName>Crovetti, Alessandro</creatorName>
      <givenName>Alessandro</givenName>
      <familyName>Crovetti</familyName>
      <affiliation>Universita degli studi di Firenze, Italy</affiliation>
    </creator>
    <creator>
      <creatorName>García-Casco, Juan</creatorName>
      <givenName>Juan</givenName>
      <familyName>García-Casco</familyName>
      <affiliation>Centro de I+D en Cerdo Ibérico, Dpto. Mejora Genética Animal, INIA, Zafra, Spain</affiliation>
    </creator>
    <creator>
      <creatorName>Alves, Estefânia</creatorName>
      <givenName>Estefânia</givenName>
      <familyName>Alves</familyName>
      <affiliation>Departamento Mejora Genética Animal, INIA, Madrid, España</affiliation>
    </creator>
    <creator>
      <creatorName>Škrlep, Martin</creatorName>
      <givenName>Martin</givenName>
      <familyName>Škrlep</familyName>
      <affiliation>Agricultural Institute of Slovenia, Ljubljana, Slovenia</affiliation>
    </creator>
    <creator>
      <creatorName>Charneca, Rui</creatorName>
      <givenName>Rui</givenName>
      <familyName>Charneca</familyName>
      <affiliation>Universidade de Évora, ICAAM, Portugal</affiliation>
    </creator>
    <creator>
      <creatorName>Quintanilla, Raquel</creatorName>
      <givenName>Raquel</givenName>
      <familyName>Quintanilla</familyName>
      <affiliation>Programa de Genética y Mejora Animal, IRTA, Barcelona, España</affiliation>
    </creator>
    <creator>
      <creatorName>Kušec, Goran</creatorName>
      <givenName>Goran</givenName>
      <familyName>Kušec</familyName>
      <affiliation>Faculty of Agriculture in Osijek, J.J. Strossmayer University of Osijek, Osijek, Croatia</affiliation>
    </creator>
    <creator>
      <creatorName>Riquet, Juliette</creatorName>
      <givenName>Juliette</givenName>
      <familyName>Riquet</familyName>
      <affiliation>Génétique Physiologie et Systèmes d'Elevage, INRA, France</affiliation>
    </creator>
    <creator>
      <creatorName>Mercat, Marie-José</creatorName>
      <givenName>Marie-José</givenName>
      <familyName>Mercat</familyName>
      <affiliation>Institut du porc, IFIP, France</affiliation>
    </creator>
    <creator>
      <creatorName>Zimmer, Christoph</creatorName>
      <givenName>Christoph</givenName>
      <familyName>Zimmer</familyName>
      <affiliation>Bäuerlichen Erzeugergemeinschaft Schwäbisch Hall, Germany</affiliation>
    </creator>
    <creator>
      <creatorName>Razmaitė, Violeta</creatorName>
      <givenName>Violeta</givenName>
      <familyName>Razmaitė</familyName>
      <affiliation>Institute of Animal Science, Lithuanian University</affiliation>
    </creator>
    <creator>
      <creatorName>Araújo, José Pedro</creatorName>
      <givenName>José Pedro</givenName>
      <familyName>Araújo</familyName>
      <affiliation>Instituto Politécnico de Viana do Castelo, Portugal</affiliation>
    </creator>
    <creator>
      <creatorName>Radović, Čedomir</creatorName>
      <givenName>Čedomir</givenName>
      <familyName>Radović</familyName>
      <affiliation>Institute for Animal Husbandry-Pig Research Department, Serbia</affiliation>
    </creator>
    <creator>
      <creatorName>Savić, Radomir</creatorName>
      <givenName>Radomir</givenName>
      <familyName>Savić</familyName>
      <affiliation>University of Belgrade-Faculty of Agriculture, Republic of Serbia</affiliation>
    </creator>
    <creator>
      <creatorName>Čandek-Potokar, Marjeta</creatorName>
      <givenName>Marjeta</givenName>
      <familyName>Čandek-Potokar</familyName>
      <affiliation>Agricultural Institute of Slovenia, Ljubljana, Slovenia</affiliation>
    </creator>
    <creator>
      <creatorName>Fontanesi, Luca</creatorName>
      <givenName>Luca</givenName>
      <familyName>Fontanesi</familyName>
      <affiliation>Universita di Bologna, Italy</affiliation>
    </creator>
    <creator>
      <creatorName>Fernández, Ana</creatorName>
      <givenName>Ana</givenName>
      <familyName>Fernández</familyName>
      <affiliation>Departamento Mejora Genética Animal, INIA, Madrid, España</affiliation>
    </creator>
    <creator>
      <creatorName>Muñoz, Maria</creatorName>
      <givenName>Maria</givenName>
      <familyName>Muñoz</familyName>
      <affiliation>Centro de I+D en Cerdo Ibérico, Dpto. Mejora Genética Animal, INIA, Zafra, Spain</affiliation>
    </creator>
  </creators>
  <titles>
    <title>DIVERSITY ACROSS MAJOR AND CANDIDATE GENES IN EUROPEAN LOCAL PIG BREEDS</title>
  </titles>
  <publisher>Zenodo</publisher>
  <publicationYear>2017</publicationYear>
  <subjects>
    <subject>fatty pig</subject>
    <subject>candidate gene</subject>
    <subject>diversity</subject>
    <subject>allele frequency</subject>
  </subjects>
  <dates>
    <date dateType="Issued">2017-11-23</date>
  </dates>
  <language>en</language>
  <resourceType resourceTypeGeneral="Text">Presentation</resourceType>
  <alternateIdentifiers>
    <alternateIdentifier alternateIdentifierType="url">https://zenodo.org/record/1135161</alternateIdentifier>
  </alternateIdentifiers>
  <relatedIdentifiers>
    <relatedIdentifier relatedIdentifierType="DOI" relationType="IsVersionOf">10.5281/zenodo.1135160</relatedIdentifier>
    <relatedIdentifier relatedIdentifierType="URL" relationType="IsPartOf">https://zenodo.org/communities/h2020_treasure</relatedIdentifier>
  </relatedIdentifiers>
  <rightsList>
    <rights rightsURI="https://creativecommons.org/licenses/by/4.0/legalcode">Creative Commons Attribution 4.0 International</rights>
    <rights rightsURI="info:eu-repo/semantics/openAccess">Open Access</rights>
  </rightsList>
  <descriptions>
    <description descriptionType="Abstract">&lt;p&gt;In the frame of the European TREASURE* project, the genetic characterization of 20 local pig breeds is being performed with genetic and genomic tools. The objectives are the study of genetic diversity in these populations and the identification of useful markers for authentication, traceability, conservation and breeding programs. In first place, a candidate gene approach has been applied and the most relevant genes and mutations associated with pig productive, meat quality, reproductive and disease resistance traits have&amp;nbsp; been prioritized and analyzed. Two OpenArray&amp;reg; chips of 32 and 16 SNPs were designed and genotyped in 48 animals from each one of 20 breeds included in the project (Alentejana, Apulo Calabrese, Basque, B&amp;iacute;saro, Black Majorcan, Black Sicilian, Black Slavonian, Casertana, Cinta Senese, Gascon, Iberian, Krskopolje, Lithuanian indigenous wattle, Mangalitsa, Mora Romagnola, Moravka, Old Lithuanian White, Sarda, Schw&amp;auml;bisch H&amp;auml;llisches, Turopolje). Forty SNPs located in 34 genes were successfully genotyped (MC1R, TYRP1, NR6A, PCK1, RYR1, IGF2, MC4R, PHKG1, SCD, GBP5, TAS2R39, TAS2R4, MUC4, ESR1, CYP2E1, LEP, CAST, MTTP, CYB5A, FTO, PPARGC1A, CAPN1, PPARD, CTSL, LEPR, PRKAG3, ACACA, KIT, ACSL4, ADIPOQ, FASN, AHR, FUT1, MSTN). Results provide relevant information regarding genetic diversity and segregation of SNPs responsible for specific production and quality traits. Coat color and morphological trait-genes, showing low level of segregation, and fixed SNPs may be useful for traceability. On the other hand, we detected SNPs which may be useful for breeding programs. For instance, we observed predominance of unfavorable alleles for disease resistance and boar taint genes in most breeds, and segregation of many genes involved in meat quality, fatness and growth. These results joint with ongoing genomic assays, will provide essential information regarding genetic diversity, structure, selective signatures and biological processes responsible for specific production and quality traits.&lt;/p&gt;</description>
  </descriptions>
  <fundingReferences>
    <fundingReference>
      <funderName>European Commission</funderName>
      <funderIdentifier funderIdentifierType="Crossref Funder ID">10.13039/100010661</funderIdentifier>
      <awardNumber awardURI="info:eu-repo/grantAgreement/EC/H2020/634476/">634476</awardNumber>
      <awardTitle>DIVERSITY OF LOCAL PIG BREEDS AND PRODUCTION SYSTEMS FOR HIGH QUALITY TRADITIONAL PRODUCTS AND SUSTAINABLE PORK CHAINS</awardTitle>
    </fundingReference>
  </fundingReferences>
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