Signatures of selection and environmental adaptation across the goat genome post-domestication
Abstract Background Since goat was domesticated 10,000 years ago, many factors have contributed to the differentiation of goat breeds and these are classified mainly into two types: (i) adaptation to different breeding systems and/or purposes and (ii) adaptation to different environments. As a resul...
| Main Authors: | , , , , , , , , , , , , , , , , , , , , , , , , |
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| Format: | Article |
| Language: | deu |
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BMC
2018-11-01
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| Series: | Genetics Selection Evolution |
| Online Access: | http://link.springer.com/article/10.1186/s12711-018-0421-y |
| _version_ | 1819211161704333312 |
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| author | Francesca Bertolini Bertrand Servin Andrea Talenti Estelle Rochat Eui Soo Kim Claire Oget Isabelle Palhière Alessandra Crisà Gennaro Catillo Roberto Steri Marcel Amills Licia Colli Gabriele Marras Marco Milanesi Ezequiel Nicolazzi Benjamin D. Rosen Curtis P. Van Tassell Bernt Guldbrandtsen Tad S. Sonstegard Gwenola Tosser-Klopp Alessandra Stella Max F. Rothschild Stéphane Joost Paola Crepaldi the AdaptMap consortium |
| author_facet | Francesca Bertolini Bertrand Servin Andrea Talenti Estelle Rochat Eui Soo Kim Claire Oget Isabelle Palhière Alessandra Crisà Gennaro Catillo Roberto Steri Marcel Amills Licia Colli Gabriele Marras Marco Milanesi Ezequiel Nicolazzi Benjamin D. Rosen Curtis P. Van Tassell Bernt Guldbrandtsen Tad S. Sonstegard Gwenola Tosser-Klopp Alessandra Stella Max F. Rothschild Stéphane Joost Paola Crepaldi the AdaptMap consortium |
| author_sort | Francesca Bertolini |
| collection | DOAJ |
| description | Abstract Background Since goat was domesticated 10,000 years ago, many factors have contributed to the differentiation of goat breeds and these are classified mainly into two types: (i) adaptation to different breeding systems and/or purposes and (ii) adaptation to different environments. As a result, approximately 600 goat breeds have developed worldwide; they differ considerably from one another in terms of phenotypic characteristics and are adapted to a wide range of climatic conditions. In this work, we analyzed the AdaptMap goat dataset, which is composed of data from more than 3000 animals collected worldwide and genotyped with the CaprineSNP50 BeadChip. These animals were partitioned into groups based on geographical area, production uses, available records on solid coat color and environmental variables including the sampling geographical coordinates, to investigate the role of natural and/or artificial selection in shaping the genome of goat breeds. Results Several signatures of selection on different chromosomal regions were detected across the different breeds, sub-geographical clusters, phenotypic and climatic groups. These regions contain genes that are involved in important biological processes, such as milk-, meat- or fiber-related production, coat color, glucose pathway, oxidative stress response, size, and circadian clock differences. Our results confirm previous findings in other species on adaptation to extreme environments and human purposes and provide new genes that could explain some of the differences between goat breeds according to their geographical distribution and adaptation to different environments. Conclusions These analyses of signatures of selection provide a comprehensive first picture of the global domestication process and adaptation of goat breeds and highlight possible genes that may have contributed to the differentiation of this species worldwide. |
| first_indexed | 2024-12-23T06:22:41Z |
| format | Article |
| id | doaj.art-a76da545030b4edeac70706d30a9d75c |
| institution | Directory Open Access Journal |
| issn | 1297-9686 |
| language | deu |
| last_indexed | 2024-12-23T06:22:41Z |
| publishDate | 2018-11-01 |
| publisher | BMC |
| record_format | Article |
| series | Genetics Selection Evolution |
| spelling | doaj.art-a76da545030b4edeac70706d30a9d75c2022-12-21T17:57:09ZdeuBMCGenetics Selection Evolution1297-96862018-11-0150112410.1186/s12711-018-0421-ySignatures of selection and environmental adaptation across the goat genome post-domesticationFrancesca Bertolini0Bertrand Servin1Andrea Talenti2Estelle Rochat3Eui Soo Kim4Claire Oget5Isabelle Palhière6Alessandra Crisà7Gennaro Catillo8Roberto Steri9Marcel Amills10Licia Colli11Gabriele Marras12Marco Milanesi13Ezequiel Nicolazzi14Benjamin D. Rosen15Curtis P. Van Tassell16Bernt Guldbrandtsen17Tad S. Sonstegard18Gwenola Tosser-Klopp19Alessandra Stella20Max F. Rothschild21Stéphane Joost22Paola Crepaldi23the AdaptMap consortiumDepartment of Animal Science, Iowa State UniversityGenPhySE, INRA, Université de Toulouse, INPT, ENVTDipartimento di Medicina Veterinaria, Università degli Studi di MilanoLaboratory of Geographic Information Systems (LASIG), School of Architecture, Civil and Environmental Engineering (ENAC), Ecole Polytechnique Fédérale de Lausanne (EPFL)Recombinetics IncGenPhySE, INRA, Université de Toulouse, INPT, ENVTGenPhySE, INRA, Université de Toulouse, INPT, ENVTConsiglio per la ricerca in agricoltura e l’analisi dell’economia agraria (CREA) - Research Centre for Animal Production and AcquacultureConsiglio per la ricerca in agricoltura e l’analisi dell’economia agraria (CREA) - Research Centre for Animal Production and AcquacultureConsiglio per la ricerca in agricoltura e l’analisi dell’economia agraria (CREA) - Research Centre for Animal Production and AcquacultureCentre for Research in Agricultural Genomics (CRAG), CSIC-IRTA-UAB-UB, Campus Universitat Autonoma de BarcelonaDIANA Dipartimento di Scienze Animali, della Nutrizione e degli Alimenti, Università Cattolica del S. CuoreFondazione Parco Tecnologico Padano (PTP)DIANA Dipartimento di Scienze Animali, della Nutrizione e degli Alimenti, Università Cattolica del S. CuoreFondazione Parco Tecnologico Padano (PTP)Animal Genomics and Improvement Laboratory, ARS USDAAnimal Genomics and Improvement Laboratory, ARS USDACenter for Quantitative Genetics and Genomics, Aarhus UniversityRecombinetics IncGenPhySE, INRA, Université de Toulouse, INPT, ENVTBioDNA Centro di Ricerca sulla Biodiversità e sul DNA Antico, Università Cattolica del S. CuoreDepartment of Animal Science, Iowa State UniversityLaboratory of Geographic Information Systems (LASIG), School of Architecture, Civil and Environmental Engineering (ENAC), Ecole Polytechnique Fédérale de Lausanne (EPFL)Dipartimento di Medicina Veterinaria, Università degli Studi di MilanoAbstract Background Since goat was domesticated 10,000 years ago, many factors have contributed to the differentiation of goat breeds and these are classified mainly into two types: (i) adaptation to different breeding systems and/or purposes and (ii) adaptation to different environments. As a result, approximately 600 goat breeds have developed worldwide; they differ considerably from one another in terms of phenotypic characteristics and are adapted to a wide range of climatic conditions. In this work, we analyzed the AdaptMap goat dataset, which is composed of data from more than 3000 animals collected worldwide and genotyped with the CaprineSNP50 BeadChip. These animals were partitioned into groups based on geographical area, production uses, available records on solid coat color and environmental variables including the sampling geographical coordinates, to investigate the role of natural and/or artificial selection in shaping the genome of goat breeds. Results Several signatures of selection on different chromosomal regions were detected across the different breeds, sub-geographical clusters, phenotypic and climatic groups. These regions contain genes that are involved in important biological processes, such as milk-, meat- or fiber-related production, coat color, glucose pathway, oxidative stress response, size, and circadian clock differences. Our results confirm previous findings in other species on adaptation to extreme environments and human purposes and provide new genes that could explain some of the differences between goat breeds according to their geographical distribution and adaptation to different environments. Conclusions These analyses of signatures of selection provide a comprehensive first picture of the global domestication process and adaptation of goat breeds and highlight possible genes that may have contributed to the differentiation of this species worldwide.http://link.springer.com/article/10.1186/s12711-018-0421-y |
| spellingShingle | Francesca Bertolini Bertrand Servin Andrea Talenti Estelle Rochat Eui Soo Kim Claire Oget Isabelle Palhière Alessandra Crisà Gennaro Catillo Roberto Steri Marcel Amills Licia Colli Gabriele Marras Marco Milanesi Ezequiel Nicolazzi Benjamin D. Rosen Curtis P. Van Tassell Bernt Guldbrandtsen Tad S. Sonstegard Gwenola Tosser-Klopp Alessandra Stella Max F. Rothschild Stéphane Joost Paola Crepaldi the AdaptMap consortium Signatures of selection and environmental adaptation across the goat genome post-domestication Genetics Selection Evolution |
| title | Signatures of selection and environmental adaptation across the goat genome post-domestication |
| title_full | Signatures of selection and environmental adaptation across the goat genome post-domestication |
| title_fullStr | Signatures of selection and environmental adaptation across the goat genome post-domestication |
| title_full_unstemmed | Signatures of selection and environmental adaptation across the goat genome post-domestication |
| title_short | Signatures of selection and environmental adaptation across the goat genome post-domestication |
| title_sort | signatures of selection and environmental adaptation across the goat genome post domestication |
| url | http://link.springer.com/article/10.1186/s12711-018-0421-y |
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