A comprehensive analysis of the genetic diversity and environmental adaptability in worldwide Merino and Merino‑derived sheep breeds
Background: To enhance and extend the knowledge about the global historical and phylogenetic relationships between Merino and Merino-derived breeds, 19 populations were genotyped with the OvineSNP50 BeadChip specifically for this study, while an additional 23 populations from the publicly available...
| Autores principales: | , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , |
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| Formato: | Artículo |
| Lenguaje: | Inglés |
| Publicado: |
BioMed Central
2023
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| Materias: | |
| Acceso en línea: | http://hdl.handle.net/20.500.12123/15523 https://gsejournal.biomedcentral.com/articles/10.1186/s12711-023-00797-z https://doi.org/10.1186/s12711-023-00797-z |
| _version_ | 1855485586274516992 |
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| author | Ceccobelli, Simone Landi, Vincenzo Senczuk, Gabriele Mastrangelo, Salvatore Sardina, Maria Teresa Ben‑Jemaa, Slim Persichilli, Christian Karsli, Taki Balteanu, Valentin‑Adrian Raschia, Maria Agustina Poli, Mario Andres Ciappesoni, Gabriel Muchadeyi, Farai Catherine Dzomba, Edgar Farai Kunene, Nokuthula Winfred Lühken, Gesine Deniskova, Tatiana Evgenievna Dotsev, Arsen Vladimirovich Zinovieva, Natalia Anatolievna Zsolnai, Attila Anton, István Kusza, Szilvia Carolino, Nuno Santos‑Silva, Fátima Kawęcka, Aldona Swiatek, Marcin Niżnikowski, Roman Spehar, Marija Anaya, Gabriel Granero, Antonio Perloiro, Tiago Cardoso, Pedro Grande, Silverio López de los Santos, Beatriz Danchin‑Burge, Coralie Pasquini, Marina Martínez Martínez, Amparo Delgado Bermejo, Juan Vicente Lasagna, Emiliano Ciani, Elena Sarti, Francesca Maria Pilla, Fabio |
| author_browse | Anaya, Gabriel Anton, István Balteanu, Valentin‑Adrian Ben‑Jemaa, Slim Cardoso, Pedro Carolino, Nuno Ceccobelli, Simone Ciani, Elena Ciappesoni, Gabriel Danchin‑Burge, Coralie Delgado Bermejo, Juan Vicente Deniskova, Tatiana Evgenievna Dotsev, Arsen Vladimirovich Dzomba, Edgar Farai Grande, Silverio Granero, Antonio Karsli, Taki Kawęcka, Aldona Kunene, Nokuthula Winfred Kusza, Szilvia Landi, Vincenzo Lasagna, Emiliano López de los Santos, Beatriz Lühken, Gesine Martínez Martínez, Amparo Mastrangelo, Salvatore Muchadeyi, Farai Catherine Niżnikowski, Roman Pasquini, Marina Perloiro, Tiago Persichilli, Christian Pilla, Fabio Poli, Mario Andres Raschia, Maria Agustina Santos‑Silva, Fátima Sardina, Maria Teresa Sarti, Francesca Maria Senczuk, Gabriele Spehar, Marija Swiatek, Marcin Zinovieva, Natalia Anatolievna Zsolnai, Attila |
| author_facet | Ceccobelli, Simone Landi, Vincenzo Senczuk, Gabriele Mastrangelo, Salvatore Sardina, Maria Teresa Ben‑Jemaa, Slim Persichilli, Christian Karsli, Taki Balteanu, Valentin‑Adrian Raschia, Maria Agustina Poli, Mario Andres Ciappesoni, Gabriel Muchadeyi, Farai Catherine Dzomba, Edgar Farai Kunene, Nokuthula Winfred Lühken, Gesine Deniskova, Tatiana Evgenievna Dotsev, Arsen Vladimirovich Zinovieva, Natalia Anatolievna Zsolnai, Attila Anton, István Kusza, Szilvia Carolino, Nuno Santos‑Silva, Fátima Kawęcka, Aldona Swiatek, Marcin Niżnikowski, Roman Spehar, Marija Anaya, Gabriel Granero, Antonio Perloiro, Tiago Cardoso, Pedro Grande, Silverio López de los Santos, Beatriz Danchin‑Burge, Coralie Pasquini, Marina Martínez Martínez, Amparo Delgado Bermejo, Juan Vicente Lasagna, Emiliano Ciani, Elena Sarti, Francesca Maria Pilla, Fabio |
| author_sort | Ceccobelli, Simone |
| collection | INTA Digital |
| description | Background: To enhance and extend the knowledge about the global historical and phylogenetic relationships between Merino and Merino-derived breeds, 19 populations were genotyped with the OvineSNP50 BeadChip specifically for this study, while an additional 23 populations from the publicly available genotypes were retrieved. Three complementary statistical tests, Rsb (extended haplotype homozygosity between-populations), XP-EHH (cross-population extended haplotype homozygosity), and runs of homozygosity (ROH) islands were applied to identify genomic variants with potential impact on the adaptability of Merino genetic type in two contrasting climate zones.
Results: The results indicate that a large part of the Merino’s genetic relatedness and admixture patterns are explained by their genetic background and/or geographic origin, followed by local admixture. Multi-dimensional scaling, Neighbor-Net, Admixture, and TREEMIX analyses consistently provided evidence of the role of Australian, Rambouillet and German strains in the extensive gene introgression into the other Merino and Merino-derived breeds. The close relationship between Iberian Merinos and other South-western European breeds is consistent with the Iberian origin of the Merino genetic type, with traces from previous contributions of other Mediterranean stocks. Using Rsb and XP-EHH approaches, signatures of selection were detected spanning four genomic regions located on Ovis aries chromosomes (OAR) 1, 6 and 16, whereas two genomic regions on OAR6, that partially overlapped with the previous ones, were highlighted by ROH islands. Overall, the three approaches identified 106 candidate genes putatively under selection. Among them, genes related to immune response were identified via the gene interaction network. In addition, several candidate genes were found, such as LEKR1, LCORL, GHR, RBPJ, BMPR1B, PPARGC1A, and PRKAA1, related to morphological, growth and reproductive traits, adaptive thermogenesis, and hypoxia responses.
Conclusions: To the best of our knowledge, this is the first comprehensive dataset that includes most of the Merino and Merino-derived sheep breeds raised in different regions of the world. The results provide an in-depth picture of the genetic makeup of the current Merino and Merino-derived breeds, highlighting the possible selection pressures associated with the combined effect of anthropic and environmental factors. The study underlines the importance of Merino genetic types as invaluable resources of possible adaptive diversity in the context of the occurring climate changes. |
| format | Artículo |
| id | INTA15523 |
| institution | Instituto Nacional de Tecnología Agropecuaria (INTA -Argentina) |
| language | Inglés |
| publishDate | 2023 |
| publishDateRange | 2023 |
| publishDateSort | 2023 |
| publisher | BioMed Central |
| publisherStr | BioMed Central |
| record_format | dspace |
| spelling | INTA155232023-10-11T14:53:50Z A comprehensive analysis of the genetic diversity and environmental adaptability in worldwide Merino and Merino‑derived sheep breeds Ceccobelli, Simone Landi, Vincenzo Senczuk, Gabriele Mastrangelo, Salvatore Sardina, Maria Teresa Ben‑Jemaa, Slim Persichilli, Christian Karsli, Taki Balteanu, Valentin‑Adrian Raschia, Maria Agustina Poli, Mario Andres Ciappesoni, Gabriel Muchadeyi, Farai Catherine Dzomba, Edgar Farai Kunene, Nokuthula Winfred Lühken, Gesine Deniskova, Tatiana Evgenievna Dotsev, Arsen Vladimirovich Zinovieva, Natalia Anatolievna Zsolnai, Attila Anton, István Kusza, Szilvia Carolino, Nuno Santos‑Silva, Fátima Kawęcka, Aldona Swiatek, Marcin Niżnikowski, Roman Spehar, Marija Anaya, Gabriel Granero, Antonio Perloiro, Tiago Cardoso, Pedro Grande, Silverio López de los Santos, Beatriz Danchin‑Burge, Coralie Pasquini, Marina Martínez Martínez, Amparo Delgado Bermejo, Juan Vicente Lasagna, Emiliano Ciani, Elena Sarti, Francesca Maria Pilla, Fabio Genetic Diversity (as resource) Adaptability Sheep Breeds Phylogenetics Candidate Genes Diversidad Genética (como recurso) Adaptabilidad Razas de Ovinos Filogenética Genes Candidatos Raza Merino Background: To enhance and extend the knowledge about the global historical and phylogenetic relationships between Merino and Merino-derived breeds, 19 populations were genotyped with the OvineSNP50 BeadChip specifically for this study, while an additional 23 populations from the publicly available genotypes were retrieved. Three complementary statistical tests, Rsb (extended haplotype homozygosity between-populations), XP-EHH (cross-population extended haplotype homozygosity), and runs of homozygosity (ROH) islands were applied to identify genomic variants with potential impact on the adaptability of Merino genetic type in two contrasting climate zones. Results: The results indicate that a large part of the Merino’s genetic relatedness and admixture patterns are explained by their genetic background and/or geographic origin, followed by local admixture. Multi-dimensional scaling, Neighbor-Net, Admixture, and TREEMIX analyses consistently provided evidence of the role of Australian, Rambouillet and German strains in the extensive gene introgression into the other Merino and Merino-derived breeds. The close relationship between Iberian Merinos and other South-western European breeds is consistent with the Iberian origin of the Merino genetic type, with traces from previous contributions of other Mediterranean stocks. Using Rsb and XP-EHH approaches, signatures of selection were detected spanning four genomic regions located on Ovis aries chromosomes (OAR) 1, 6 and 16, whereas two genomic regions on OAR6, that partially overlapped with the previous ones, were highlighted by ROH islands. Overall, the three approaches identified 106 candidate genes putatively under selection. Among them, genes related to immune response were identified via the gene interaction network. In addition, several candidate genes were found, such as LEKR1, LCORL, GHR, RBPJ, BMPR1B, PPARGC1A, and PRKAA1, related to morphological, growth and reproductive traits, adaptive thermogenesis, and hypoxia responses. Conclusions: To the best of our knowledge, this is the first comprehensive dataset that includes most of the Merino and Merino-derived sheep breeds raised in different regions of the world. The results provide an in-depth picture of the genetic makeup of the current Merino and Merino-derived breeds, highlighting the possible selection pressures associated with the combined effect of anthropic and environmental factors. The study underlines the importance of Merino genetic types as invaluable resources of possible adaptive diversity in the context of the occurring climate changes. Instituto de Genética Fil: Ceccobelli, Simone. Università Politecnica delle Marche. Department of Agricultural, Food and Environmental Sciences; Italia Fil: Landi, Vincenzo. University of Bari ‘‘Aldo Moro”. Department of Veterinary Medicine; Italia Fil: Senczuk, Gabriele. University of Molise. Department of Agricultural, Environmental and Food Sciences; Italia Fil: Mastrangelo, Salvatore. University of Palermo. Department of Agricultural, Food and Forest Sciences; Italia Fil: Sardina, Maria Teresa. University of Palermo. Department of Agricultural, Food and Forest Sciences; Italia Fil: Ben‑Jemaa, Slim. Université de Carthage. Institut National de la Recherche Agronomique de Tunisie. Laboratoire des Productions Animales et Fourragères; Túnez Fil: Persichilli, Christian. University of Molise. Department of Agricultural, Environmental and Food Sciences; Italia Fil: Karsli, Taki. Eskisehir Osmangazi University. Faculty of Agriculture. Department of Animal Science; Turquía Fil: Balteanu, Valentin‑Adrian. University of Agricultural Sciences and Veterinary Medicine of Cluj-Napoca. Institute of Life Sciences. Laboratory of Genomics, Biodiversity, Animal Breeding and Molecular Pathology; Rumania Fil: Raschia, Maria Agustina. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Genética; Argentina Fil: Poli, Mario Andres. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Genética; Argentina Fil: Ciappesoni, Gabriel. Instituto Nacional de Investigación Agropecuaria; Uruguay Fil: Muchadeyi, Farai Catherine. Agricultural Research Council. Biotechnology Platform; Sudáfrica Fil: Dzomba, Edgar Farai. University of KwaZulu-Natal. School of Life Sciences. Discipline of Genetics; Sudáfrica Fil: Kunene, Nokuthula Winfred. University of Zululand. Department of Agriculture; Sudáfrica Fil: Lühken, Gesine. Justus Liebig University. Institute of Animal Breeding and Genetics; Alemania Fil: Deniskova, Tatiana Evgenievna. L.K. Ernst Federal Research Center for Animal Husbandry; Rusia Fil: Dotsev, Arsen Vladimirovich. L.K. Ernst Federal Research Center for Animal Husbandry; Rusia Fil: Zinovieva, Natalia Anatolievna. L.K. Ernst Federal Research Center for Animal Husbandry; Rusia Fil: Zsolnai, Attila. Hungarian University of Agriculture and Life Sciences. Institute of Animal Science. Department of Animal Breeding; Hungría Fil: Anton, István. Hungarian University of Agriculture and Life Sciences. Institute of Animal Science. Department of Animal Breeding; Hungría Fil: Kusza, Szilvia. University of Debrecen. Centre for Agricultural Genomics and Biotechnology. Faculty of Agricultural and Food Sciences and Environmental Management; Hungría Fil: Carolino, Nuno. Instituto Nacional de Investigação Agrária e Veterinária; Portugal Fil: Santos‑Silva, Fátima. Instituto Nacional de Investigação Agrária e Veterinária; Portugal Fil: Kawęcka, Aldona. National Research Institute of Animal Production. Department of Sheep and Goat Breeding; Polonia Fil: Swiatek, Marcin. Warsaw University of Life Sciences-SGGW. Institute of Animal Sciences. Department of Animal Breeding; Polonia Fil: Niżnikowski, Roman. Warsaw University of Life Sciences-SGGW. Institute of Animal Sciences. Department of Animal Breeding; Polonia Fil: Spehar, Marija. Croatian Agency for Agriculture and Food; Croacia Fil: Anaya, Gabriel. University of Córdoba. Department of Genetics. MERAGEM Group; España Fil: Granero, Antonio. Asociación Nacional de Criadores de Ganado Merino (ACME); España Fil: Perloiro, Tiago. Associação Nacional de Criadores de Ovinos da Raça Merina (ANCORME); Portugal Fil: Cardoso, Pedro. Associação de Produtores Agropecuários (OVIBEIRA); Portugal Fil: Grande, Silverio. Associazione Nazionale della Pastorizia (ASSONAPA); Italia Fil: López de los Santos, Beatriz. Departamento de Investigación y Desarrollo. EA Group SC; España Fil: Danchin‑Burge, Coralie. Institut de l’Elevage; Francia Fil: Pasquini, Marina. Università Politecnica delle Marche. Department of Agricultural, Food and Environmental Sciences; Italia Fil: Martínez Martínez, Amparo. Universidad de Córdoba. Departamento de Genética; España Fil: Delgado Bermejo, Juan Vicente. Universidad de Córdoba. Departamento de Genética; España Fil: Lasagna, Emiliano. University of Perugia. Department of Agricultural, Food and Environmental Sciences; Italia Fil: Ciani, Elena. University of Bari “Aldo Moro”. Department of Bioscience, Biotechnology and Biopharmaceutics; Italia Fil: Sarti, Francesca Maria. University of Perugia. Department of Agricultural, Food and Environmental Sciences; Italia Fil: Pilla, Fabio. University of Molise. Department of Agricultural, Environmental and Food Sciences; Italia 2023-10-11T14:49:25Z 2023-10-11T14:49:25Z 2023-04 info:ar-repo/semantics/artículo info:eu-repo/semantics/article info:eu-repo/semantics/publishedVersion http://hdl.handle.net/20.500.12123/15523 https://gsejournal.biomedcentral.com/articles/10.1186/s12711-023-00797-z 1297-9686 https://doi.org/10.1186/s12711-023-00797-z eng info:eu-repo/semantics/openAccess http://creativecommons.org/licenses/by-nc-sa/4.0/ Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International (CC BY-NC-SA 4.0) application/pdf BioMed Central Genetics Selection Evolution 55 : 24 (Abril 2023) |
| spellingShingle | Genetic Diversity (as resource) Adaptability Sheep Breeds Phylogenetics Candidate Genes Diversidad Genética (como recurso) Adaptabilidad Razas de Ovinos Filogenética Genes Candidatos Raza Merino Ceccobelli, Simone Landi, Vincenzo Senczuk, Gabriele Mastrangelo, Salvatore Sardina, Maria Teresa Ben‑Jemaa, Slim Persichilli, Christian Karsli, Taki Balteanu, Valentin‑Adrian Raschia, Maria Agustina Poli, Mario Andres Ciappesoni, Gabriel Muchadeyi, Farai Catherine Dzomba, Edgar Farai Kunene, Nokuthula Winfred Lühken, Gesine Deniskova, Tatiana Evgenievna Dotsev, Arsen Vladimirovich Zinovieva, Natalia Anatolievna Zsolnai, Attila Anton, István Kusza, Szilvia Carolino, Nuno Santos‑Silva, Fátima Kawęcka, Aldona Swiatek, Marcin Niżnikowski, Roman Spehar, Marija Anaya, Gabriel Granero, Antonio Perloiro, Tiago Cardoso, Pedro Grande, Silverio López de los Santos, Beatriz Danchin‑Burge, Coralie Pasquini, Marina Martínez Martínez, Amparo Delgado Bermejo, Juan Vicente Lasagna, Emiliano Ciani, Elena Sarti, Francesca Maria Pilla, Fabio A comprehensive analysis of the genetic diversity and environmental adaptability in worldwide Merino and Merino‑derived sheep breeds |
| title | A comprehensive analysis of the genetic diversity and environmental adaptability in worldwide Merino and Merino‑derived sheep breeds |
| title_full | A comprehensive analysis of the genetic diversity and environmental adaptability in worldwide Merino and Merino‑derived sheep breeds |
| title_fullStr | A comprehensive analysis of the genetic diversity and environmental adaptability in worldwide Merino and Merino‑derived sheep breeds |
| title_full_unstemmed | A comprehensive analysis of the genetic diversity and environmental adaptability in worldwide Merino and Merino‑derived sheep breeds |
| title_short | A comprehensive analysis of the genetic diversity and environmental adaptability in worldwide Merino and Merino‑derived sheep breeds |
| title_sort | comprehensive analysis of the genetic diversity and environmental adaptability in worldwide merino and merino derived sheep breeds |
| topic | Genetic Diversity (as resource) Adaptability Sheep Breeds Phylogenetics Candidate Genes Diversidad Genética (como recurso) Adaptabilidad Razas de Ovinos Filogenética Genes Candidatos Raza Merino |
| url | http://hdl.handle.net/20.500.12123/15523 https://gsejournal.biomedcentral.com/articles/10.1186/s12711-023-00797-z https://doi.org/10.1186/s12711-023-00797-z |
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