Whole-genome sequencing of European autochthonous and commercial pig breeds allows the detection of signatures of selection for adaptation of genetic resources to different breeding and production systems
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2020-06-26
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European Commission Bovo, Samuele Ribani, Anisa Muñoz, María Alves, Estefania Araújo, José Pedro Bozzi, Riccardo Čandek-Potokar, M. Charneca, Rui Di Palma, Federica Etherington, Graham Fernández, Ana Isabel Suárez García, Fabián García Casco, Juan María Karolyi, Danijel Gallo, Maurizio Margeta, Vladimir Martins, José Manuel Mercat, Marie-José Moscatelli, Giulia Núñez-Moreno, Yolanda Quintanilla, Raquel Radović, Čedomir Razmaite, Violeta Riquet, Juliette Savić, Radomir Schiavo, Giuseppina Usai, Graziano Utzeri, Valerio J. Zimmer, Christoph Óvilo Martín, Cristina Fontanesi, Luca |
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Bovo, Samuele Ribani, Anisa Muñoz, María Alves, Estefania Araújo, José Pedro Bozzi, Riccardo Čandek-Potokar, M. Charneca, Rui Di Palma, Federica Etherington, Graham Fernández, Ana Isabel Suárez García, Fabián García Casco, Juan María Karolyi, Danijel Gallo, Maurizio Margeta, Vladimir Martins, José Manuel Mercat, Marie-José Moscatelli, Giulia Núñez-Moreno, Yolanda Quintanilla, Raquel Radović, Čedomir Razmaite, Violeta Riquet, Juliette Savić, Radomir Schiavo, Giuseppina Usai, Graziano Utzeri, Valerio J. Zimmer, Christoph Óvilo Martín, Cristina Fontanesi, Luca |
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Bovo, Samuele Ribani, Anisa Muñoz, María Alves, Estefania Araújo, José Pedro Bozzi, Riccardo Čandek-Potokar, M. Charneca, Rui Di Palma, Federica Etherington, Graham Fernández, Ana Isabel Suárez García, Fabián García Casco, Juan María Karolyi, Danijel Gallo, Maurizio Margeta, Vladimir Martins, José Manuel Mercat, Marie-José Moscatelli, Giulia Núñez-Moreno, Yolanda Quintanilla, Raquel Radović, Čedomir Razmaite, Violeta Riquet, Juliette Savić, Radomir Schiavo, Giuseppina Usai, Graziano Utzeri, Valerio J. Zimmer, Christoph Óvilo Martín, Cristina Fontanesi, Luca Whole-genome sequencing of European autochthonous and commercial pig breeds allows the detection of signatures of selection for adaptation of genetic resources to different breeding and production systems |
| author_sort |
Bovo, Samuele |
| title |
Whole-genome sequencing of European autochthonous and commercial pig breeds allows the detection of signatures of selection for adaptation of genetic resources to different breeding and production systems |
| title_short |
Whole-genome sequencing of European autochthonous and commercial pig breeds allows the detection of signatures of selection for adaptation of genetic resources to different breeding and production systems |
| title_full |
Whole-genome sequencing of European autochthonous and commercial pig breeds allows the detection of signatures of selection for adaptation of genetic resources to different breeding and production systems |
| title_fullStr |
Whole-genome sequencing of European autochthonous and commercial pig breeds allows the detection of signatures of selection for adaptation of genetic resources to different breeding and production systems |
| title_full_unstemmed |
Whole-genome sequencing of European autochthonous and commercial pig breeds allows the detection of signatures of selection for adaptation of genetic resources to different breeding and production systems |
| title_sort |
whole-genome sequencing of european autochthonous and commercial pig breeds allows the detection of signatures of selection for adaptation of genetic resources to different breeding and production systems |
| publisher |
BioMed Central |
| publishDate |
2020-06-26 |
| url |
http://hdl.handle.net/10261/340005 http://dx.doi.org/10.13039/501100000780 http://dx.doi.org/10.13039/501100005969 https://api.elsevier.com/content/abstract/scopus_id/85087320667 |
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| _version_ |
1816136522060005376 |
| spelling |
dig-inia-es-10261-3400052024-10-28T21:38:09Z Whole-genome sequencing of European autochthonous and commercial pig breeds allows the detection of signatures of selection for adaptation of genetic resources to different breeding and production systems Bovo, Samuele Ribani, Anisa Muñoz, María Alves, Estefania Araújo, José Pedro Bozzi, Riccardo Čandek-Potokar, M. Charneca, Rui Di Palma, Federica Etherington, Graham Fernández, Ana Isabel Suárez García, Fabián García Casco, Juan María Karolyi, Danijel Gallo, Maurizio Margeta, Vladimir Martins, José Manuel Mercat, Marie-José Moscatelli, Giulia Núñez-Moreno, Yolanda Quintanilla, Raquel Radović, Čedomir Razmaite, Violeta Riquet, Juliette Savić, Radomir Schiavo, Giuseppina Usai, Graziano Utzeri, Valerio J. Zimmer, Christoph Óvilo Martín, Cristina Fontanesi, Luca European Commission Università di Bologna Bovo, Samuele [0000-0002-5712-8211] Ribani, Anisa [0000-0001-6778-1938] Araújo, José Pedro [0000-0002-1232-3160] Bozzi, Riccardo [0000-0001-8854-0834] Čandek-Potokar, M. [0000-0003-0231-126X] Charneca, Rui [0000-0002-3597-6746] Di Palma, Federica [0000-0002-4394-0102] Etherington, Graham [0000-0002-5003-1425] Suárez García, Fabián [0000-0002-1970-293X] García Casco, Juan María [0000-0003-0851-608X] Karolyi, Danijel [0000-0003-0409-9071] Gallo, Maurizio [0000-0002-9801-2856] Martins, José Manuel [0000-0003-3616-8406] Mercat, Marie-José [0000-0002-3087-082X] Moscatelli, Giulia [0000-0002-6284-2911] Núñez, Yolanda [0000-0001-5988-7628] Quintanilla, Raquel [0000-0003-3274-3434] Radović, Čedomir [0000-0002-1800-2448] Razmaite, Violeta [0000-0001-9006-5761] Riquet, Juliette [0000-0001-7787-031X] Savić, Radomir [0000-0003-2131-5303] Schiavo, Giuseppina [0000-0002-3497-1337] Usai, Graziano [0000-0002-6002-2223] Utzeri, Valerio J. [0000-0001-5320-4216] Óvilo Martín, Cristina [0000-0002-5738-8435] Fontanesi, Luca [0000-0001-7050-3760] Consejo Superior de Investigaciones Científicas [https://ror.org/02gfc7t72] 19 Pág. Natural and artificial directional selection in cosmopolitan and autochthonous pig breeds and wild boars have shaped their genomes and resulted in a reservoir of animal genetic diversity. Signatures of selection are the result of these selection events that have contributed to the adaptation of breeds to different environments and production systems. In this study, we analysed the genome variability of 19 European autochthonous pig breeds (Alentejana, Bísara, Majorcan Black, Basque, Gascon, Apulo-Calabrese, Casertana, Cinta Senese, Mora Romagnola, Nero Siciliano, Sarda, Krškopolje pig, Black Slavonian, Turopolje, Moravka, Swallow-Bellied Mangalitsa, Schwäbisch-Hällisches Schwein, Lithuanian indigenous wattle and Lithuanian White old type) from nine countries, three European commercial breeds (Italian Large White, Italian Landrace and Italian Duroc), and European wild boars, by mining whole-genome sequencing data obtained by using a DNA-pool sequencing approach. Signatures of selection were identified by using a single-breed approach with two statistics [within-breed pooled heterozygosity (HP) and fixation index (FST)] and group-based FST approaches, which compare groups of breeds defined according to external traits and use/specialization/type. SB received a fellowship from the Europe-FAANG COST Action. This work received funding from the University of Bologna RFO 2016–2019 programme and from the European Union’s Horizon 2020 research and innovation programme under Grant agreement No. 634476 for the project with the acronym TREASURE. The content of this article refects only the authors’ view and the European Union Agency is not responsible for any use that may be made of the information it contains Peer reviewed 2023-11-30T11:18:01Z 2023-11-30T11:18:01Z 2020-06-26 artículo http://purl.org/coar/resource_type/c_6501 Genetics Selection Evolution 52: e33 (2020) 0999-193X http://hdl.handle.net/10261/340005 10.1186/s12711-020-00553-7 1297-9686 http://dx.doi.org/10.13039/501100000780 http://dx.doi.org/10.13039/501100005969 32591011 2-s2.0-85087320667 https://api.elsevier.com/content/abstract/scopus_id/85087320667 en #PLACEHOLDER_PARENT_METADATA_VALUE# info:eu-repo/grantAgreement/EC/H2020/634476 Departamento de Mejora Genética Animal Publisher's version https://doi.org/10.1186/s12711-020-00553-7 Sí open application/pdf BioMed Central |