Characterization of experimental cattle populations from Argentina with a low-density SNP genotyping panel

Autores
Michiels, Brian; Pardo, Alan Maxs; Ortega Masague, Maria Florencia; Giovambattista, Guillermo; Corva, Pablo
Año de publicación
2022
Idioma
inglés
Tipo de recurso
artículo
Estado
versión publicada
Descripción
The objectives of the present experiment were to evaluate a low-density SNP array designed for the molecular characterisation of gene banks and to assess the genetic diversity and population structure of beef cattle herds from an Argentinean research station. Forty-nine animals from three breeds (Angus, Hereford, and Argentinean Creole) were genotyped using the multi-species IMAGE001 60-K SNP array (10 K for cattle). Genotypes of other 19 cattle populations from Argentina, other American countries, and Europe were included in the study. Of special interest was the characterization of the Argentinean Creole, the only autochthonous cattle breed in the country. Due to the merging of different datasets, approximately 5 K SNPs were effectively used. Genetic differentiation (FST), principal component analysis, neighbour-joining tree of Reynolds distances and ancestry analysis showed that autochthonous American breeds are clearly differentiated, but all have genetic influences of Iberian cattle. The analysed herds of Argentinean Creole showed no evidence of recent admixture and represent a unique genetic pool within local American breeds. An experimental herd and the local commercial Hereford population have also diverged, probably due to the influence of current selection objectives in the breed. Our results illustrate the utility of using low-cost, low density SNP arrays in the evaluation of animal genetic resources. This type of panels could become a very useful resource in developing countries, where most endangered cattle breeds are located. The results also reinforce the importance of experimental herds as reservoir of genetic diversity, particularly in the case of local breeds under-represented in traditional production systems.
EEA Balcarce
Fil: Michiels, Brian. Universidad Nacional de Mar del Plata. Facultad de Ciencias Agrarias; Argentina.
Fil: Pardo, Alan Maxs. Instituto Nacional de Tecnología Agropecuaria (INTA). Estación Experimental Agropecuaria Balcarce; Argentina.
Fil: Pardo, Alan Maxs. Universidad Nacional de Mar del Plata. Facultad de Ciencias Agrarias; Argentina.
Fil: Ortega Masagué, Maria F. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto De Investigación Animal del Chaco Semiárido; Argentina
Fil: Giovambattista, Guillermo. Universidad Nacionald La Plata. Facultad de Ciencias Veterinarias; Argentina. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina. Instituto de Genética Veterinaria; Argentina.
Fil: Corva, Pablo M. Universidad Nacional de Mar del Plata. Facultad de Ciencias Agrarias; Argentina.
Fuente
Animal Genetics 00 : 1–5 (First published: 05 December 2022)
Materia
Ganado Bovino
Razas (animales)
Variación Genética
Genotipado
Cattle
Breeds (animals)
Genetic Variation
Genotyping
Nivel de accesibilidad
acceso restringido
Condiciones de uso
Repositorio
INTA Digital (INTA)
Institución
Instituto Nacional de Tecnología Agropecuaria
OAI Identificador
oai:localhost:20.500.12123/13544
Acceder
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network_name_str INTA Digital (INTA)
spelling Characterization of experimental cattle populations from Argentina with a low-density SNP genotyping panelMichiels, BrianPardo, Alan MaxsOrtega Masague, Maria FlorenciaGiovambattista, GuillermoCorva, PabloGanado BovinoRazas (animales)Variación GenéticaGenotipadoCattleBreeds (animals)Genetic VariationGenotypingThe objectives of the present experiment were to evaluate a low-density SNP array designed for the molecular characterisation of gene banks and to assess the genetic diversity and population structure of beef cattle herds from an Argentinean research station. Forty-nine animals from three breeds (Angus, Hereford, and Argentinean Creole) were genotyped using the multi-species IMAGE001 60-K SNP array (10 K for cattle). Genotypes of other 19 cattle populations from Argentina, other American countries, and Europe were included in the study. Of special interest was the characterization of the Argentinean Creole, the only autochthonous cattle breed in the country. Due to the merging of different datasets, approximately 5 K SNPs were effectively used. Genetic differentiation (FST), principal component analysis, neighbour-joining tree of Reynolds distances and ancestry analysis showed that autochthonous American breeds are clearly differentiated, but all have genetic influences of Iberian cattle. The analysed herds of Argentinean Creole showed no evidence of recent admixture and represent a unique genetic pool within local American breeds. An experimental herd and the local commercial Hereford population have also diverged, probably due to the influence of current selection objectives in the breed. Our results illustrate the utility of using low-cost, low density SNP arrays in the evaluation of animal genetic resources. This type of panels could become a very useful resource in developing countries, where most endangered cattle breeds are located. The results also reinforce the importance of experimental herds as reservoir of genetic diversity, particularly in the case of local breeds under-represented in traditional production systems.EEA BalcarceFil: Michiels, Brian. Universidad Nacional de Mar del Plata. Facultad de Ciencias Agrarias; Argentina.Fil: Pardo, Alan Maxs. Instituto Nacional de Tecnología Agropecuaria (INTA). Estación Experimental Agropecuaria Balcarce; Argentina.Fil: Pardo, Alan Maxs. Universidad Nacional de Mar del Plata. Facultad de Ciencias Agrarias; Argentina.Fil: Ortega Masagué, Maria F. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto De Investigación Animal del Chaco Semiárido; ArgentinaFil: Giovambattista, Guillermo. Universidad Nacionald La Plata. Facultad de Ciencias Veterinarias; Argentina. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina. Instituto de Genética Veterinaria; Argentina.Fil: Corva, Pablo M. Universidad Nacional de Mar del Plata. Facultad de Ciencias Agrarias; Argentina.Wiley2022-12-06T17:55:46Z2022-12-06T17:55:46Z2022-12-05info:eu-repo/semantics/articleinfo:eu-repo/semantics/publishedVersionhttp://purl.org/coar/resource_type/c_6501info:ar-repo/semantics/articuloapplication/pdfhttp://hdl.handle.net/20.500.12123/13544https://onlinelibrary.wiley.com/doi/10.1111/age.132781365-2052https://doi.org/10.1111/age.13278Animal Genetics 00 : 1–5 (First published: 05 December 2022)reponame:INTA Digital (INTA)instname:Instituto Nacional de Tecnología Agropecuariaenginfo:eu-repograntAgreement/INTA/2019-RIST-E6-I112-001/2019-RIST-E6-I112-001/AR./Red de Recursos Genéticos info:eu-repo/semantics/restrictedAccess2025-09-04T09:49:39Zoai:localhost:20.500.12123/13544instacron:INTAInstitucionalhttp://repositorio.inta.gob.ar/Organismo científico-tecnológicoNo correspondehttp://repositorio.inta.gob.ar/oai/requesttripaldi.nicolas@inta.gob.arArgentinaNo correspondeNo correspondeNo correspondeopendoar:l2025-09-04 09:49:39.833INTA Digital (INTA) - Instituto Nacional de Tecnología Agropecuariafalse
dc.title.none.fl_str_mv Characterization of experimental cattle populations from Argentina with a low-density SNP genotyping panel
title Characterization of experimental cattle populations from Argentina with a low-density SNP genotyping panel
spellingShingle Characterization of experimental cattle populations from Argentina with a low-density SNP genotyping panel
Michiels, Brian
Ganado Bovino
Razas (animales)
Variación Genética
Genotipado
Cattle
Breeds (animals)
Genetic Variation
Genotyping
title_short Characterization of experimental cattle populations from Argentina with a low-density SNP genotyping panel
title_full Characterization of experimental cattle populations from Argentina with a low-density SNP genotyping panel
title_fullStr Characterization of experimental cattle populations from Argentina with a low-density SNP genotyping panel
title_full_unstemmed Characterization of experimental cattle populations from Argentina with a low-density SNP genotyping panel
title_sort Characterization of experimental cattle populations from Argentina with a low-density SNP genotyping panel
dc.creator.none.fl_str_mv Michiels, Brian
Pardo, Alan Maxs
Ortega Masague, Maria Florencia
Giovambattista, Guillermo
Corva, Pablo
author Michiels, Brian
author_facet Michiels, Brian
Pardo, Alan Maxs
Ortega Masague, Maria Florencia
Giovambattista, Guillermo
Corva, Pablo
author_role author
author2 Pardo, Alan Maxs
Ortega Masague, Maria Florencia
Giovambattista, Guillermo
Corva, Pablo
author2_role author
author
author
author
dc.subject.none.fl_str_mv Ganado Bovino
Razas (animales)
Variación Genética
Genotipado
Cattle
Breeds (animals)
Genetic Variation
Genotyping
topic Ganado Bovino
Razas (animales)
Variación Genética
Genotipado
Cattle
Breeds (animals)
Genetic Variation
Genotyping
dc.description.none.fl_txt_mv The objectives of the present experiment were to evaluate a low-density SNP array designed for the molecular characterisation of gene banks and to assess the genetic diversity and population structure of beef cattle herds from an Argentinean research station. Forty-nine animals from three breeds (Angus, Hereford, and Argentinean Creole) were genotyped using the multi-species IMAGE001 60-K SNP array (10 K for cattle). Genotypes of other 19 cattle populations from Argentina, other American countries, and Europe were included in the study. Of special interest was the characterization of the Argentinean Creole, the only autochthonous cattle breed in the country. Due to the merging of different datasets, approximately 5 K SNPs were effectively used. Genetic differentiation (FST), principal component analysis, neighbour-joining tree of Reynolds distances and ancestry analysis showed that autochthonous American breeds are clearly differentiated, but all have genetic influences of Iberian cattle. The analysed herds of Argentinean Creole showed no evidence of recent admixture and represent a unique genetic pool within local American breeds. An experimental herd and the local commercial Hereford population have also diverged, probably due to the influence of current selection objectives in the breed. Our results illustrate the utility of using low-cost, low density SNP arrays in the evaluation of animal genetic resources. This type of panels could become a very useful resource in developing countries, where most endangered cattle breeds are located. The results also reinforce the importance of experimental herds as reservoir of genetic diversity, particularly in the case of local breeds under-represented in traditional production systems.
EEA Balcarce
Fil: Michiels, Brian. Universidad Nacional de Mar del Plata. Facultad de Ciencias Agrarias; Argentina.
Fil: Pardo, Alan Maxs. Instituto Nacional de Tecnología Agropecuaria (INTA). Estación Experimental Agropecuaria Balcarce; Argentina.
Fil: Pardo, Alan Maxs. Universidad Nacional de Mar del Plata. Facultad de Ciencias Agrarias; Argentina.
Fil: Ortega Masagué, Maria F. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto De Investigación Animal del Chaco Semiárido; Argentina
Fil: Giovambattista, Guillermo. Universidad Nacionald La Plata. Facultad de Ciencias Veterinarias; Argentina. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina. Instituto de Genética Veterinaria; Argentina.
Fil: Corva, Pablo M. Universidad Nacional de Mar del Plata. Facultad de Ciencias Agrarias; Argentina.
description The objectives of the present experiment were to evaluate a low-density SNP array designed for the molecular characterisation of gene banks and to assess the genetic diversity and population structure of beef cattle herds from an Argentinean research station. Forty-nine animals from three breeds (Angus, Hereford, and Argentinean Creole) were genotyped using the multi-species IMAGE001 60-K SNP array (10 K for cattle). Genotypes of other 19 cattle populations from Argentina, other American countries, and Europe were included in the study. Of special interest was the characterization of the Argentinean Creole, the only autochthonous cattle breed in the country. Due to the merging of different datasets, approximately 5 K SNPs were effectively used. Genetic differentiation (FST), principal component analysis, neighbour-joining tree of Reynolds distances and ancestry analysis showed that autochthonous American breeds are clearly differentiated, but all have genetic influences of Iberian cattle. The analysed herds of Argentinean Creole showed no evidence of recent admixture and represent a unique genetic pool within local American breeds. An experimental herd and the local commercial Hereford population have also diverged, probably due to the influence of current selection objectives in the breed. Our results illustrate the utility of using low-cost, low density SNP arrays in the evaluation of animal genetic resources. This type of panels could become a very useful resource in developing countries, where most endangered cattle breeds are located. The results also reinforce the importance of experimental herds as reservoir of genetic diversity, particularly in the case of local breeds under-represented in traditional production systems.
publishDate 2022
dc.date.none.fl_str_mv 2022-12-06T17:55:46Z
2022-12-06T17:55:46Z
2022-12-05
dc.type.none.fl_str_mv info:eu-repo/semantics/article
info:eu-repo/semantics/publishedVersion
http://purl.org/coar/resource_type/c_6501
info:ar-repo/semantics/articulo
format article
status_str publishedVersion
dc.identifier.none.fl_str_mv http://hdl.handle.net/20.500.12123/13544
https://onlinelibrary.wiley.com/doi/10.1111/age.13278
1365-2052
https://doi.org/10.1111/age.13278
url http://hdl.handle.net/20.500.12123/13544
https://onlinelibrary.wiley.com/doi/10.1111/age.13278
https://doi.org/10.1111/age.13278
identifier_str_mv 1365-2052
dc.language.none.fl_str_mv eng
language eng
dc.relation.none.fl_str_mv info:eu-repograntAgreement/INTA/2019-RIST-E6-I112-001/2019-RIST-E6-I112-001/AR./Red de Recursos Genéticos 
dc.rights.none.fl_str_mv info:eu-repo/semantics/restrictedAccess
eu_rights_str_mv restrictedAccess
dc.format.none.fl_str_mv application/pdf
dc.publisher.none.fl_str_mv Wiley
publisher.none.fl_str_mv Wiley
dc.source.none.fl_str_mv Animal Genetics 00 : 1–5 (First published: 05 December 2022)
reponame:INTA Digital (INTA)
instname:Instituto Nacional de Tecnología Agropecuaria
reponame_str INTA Digital (INTA)
collection INTA Digital (INTA)
instname_str Instituto Nacional de Tecnología Agropecuaria
repository.name.fl_str_mv INTA Digital (INTA) - Instituto Nacional de Tecnología Agropecuaria
repository.mail.fl_str_mv tripaldi.nicolas@inta.gob.ar
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score 12.623145

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