BoLA‑DRB3 gene haplotypes show divergence in native Sudanese cattle from taurine and indicine breeds
- Autores
- Salim, Bashir; Takeshima, Shin‑nosuke; Nakao, Ryo; Moustafa, Mohamed A. M.; Ahmed, Mohamed‑Khair A.; Kambal, Sumaya; Mwacharo, Joram M.; Alkhaibari, Abeer M.; Giovambattista, Guillermo
- Año de publicación
- 2021
- Idioma
- inglés
- Tipo de recurso
- artículo
- Estado
- versión publicada
- Descripción
- Autochthonous Sudanese cattle breeds, namely Baggara for beef and Butana and Kenana for dairy, are characterized by their adaptive characteristics and high performance in hot and dry agroecosystems. They are thus used largely by nomadic and semi-nomadic pastoralists. We analyzed the diversity and genetic structure of the BoLA-DRB3 gene, a genetic locus linked to the immune response, for the indigenous cattle of Sudan and in the context of the global cattle repository. Blood samples (n = 225) were taken from three indigenous breeds (Baggara; n = 113, Butana; n = 60 and Kenana; n = 52) distributed across six regions of Sudan. Nucleotide sequences were genotyped using the sequence-based typing method. We describe 53 alleles, including seven novel alleles. Principal component analysis (PCA) of the protein pockets implicated in the antigen-binding function of the MHC complex revealed that pockets 4 and 9 (respectively) differentiate Kenana-Baggara and Kenana-Butana breeds from other breeds. Venn analysis of Sudanese, Southeast Asian, European and American cattle breeds with 115 alleles showed 14 were unique to Sudanese breeds. Gene frequency distributions of Baggara cattle showed an even distribution suggesting balancing selection, while the selection index (ω) revealed the presence of diversifying selection in several amino acid sites along the BoLA-DRB3 exon 2 of these native breeds. The results of several PCA were in agreement with clustering patterns observed on the neighbor joining (NJ) trees. These results provide insight into their high survival rate for different tropical diseases and their reproductive capacity in Sudan’s harsh environment.
Instituto de Genética Veterinaria - Materia
-
Ciencias Veterinarias
Evolution
Genetics
Immunology
Molecular biology - Nivel de accesibilidad
- acceso abierto
- Condiciones de uso
- http://creativecommons.org/licenses/by/4.0/
- Repositorio
- Institución
- Universidad Nacional de La Plata
- OAI Identificador
- oai:sedici.unlp.edu.ar:10915/130027
Ver los metadatos del registro completo
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BoLA‑DRB3 gene haplotypes show divergence in native Sudanese cattle from taurine and indicine breedsSalim, BashirTakeshima, Shin‑nosukeNakao, RyoMoustafa, Mohamed A. M.Ahmed, Mohamed‑Khair A.Kambal, SumayaMwacharo, Joram M.Alkhaibari, Abeer M.Giovambattista, GuillermoCiencias VeterinariasEvolutionGeneticsImmunologyMolecular biologyAutochthonous Sudanese cattle breeds, namely Baggara for beef and Butana and Kenana for dairy, are characterized by their adaptive characteristics and high performance in hot and dry agroecosystems. They are thus used largely by nomadic and semi-nomadic pastoralists. We analyzed the diversity and genetic structure of the BoLA-DRB3 gene, a genetic locus linked to the immune response, for the indigenous cattle of Sudan and in the context of the global cattle repository. Blood samples (n = 225) were taken from three indigenous breeds (Baggara; n = 113, Butana; n = 60 and Kenana; n = 52) distributed across six regions of Sudan. Nucleotide sequences were genotyped using the sequence-based typing method. We describe 53 alleles, including seven novel alleles. Principal component analysis (PCA) of the protein pockets implicated in the antigen-binding function of the MHC complex revealed that pockets 4 and 9 (respectively) differentiate Kenana-Baggara and Kenana-Butana breeds from other breeds. Venn analysis of Sudanese, Southeast Asian, European and American cattle breeds with 115 alleles showed 14 were unique to Sudanese breeds. Gene frequency distributions of Baggara cattle showed an even distribution suggesting balancing selection, while the selection index (ω) revealed the presence of diversifying selection in several amino acid sites along the BoLA-DRB3 exon 2 of these native breeds. The results of several PCA were in agreement with clustering patterns observed on the neighbor joining (NJ) trees. These results provide insight into their high survival rate for different tropical diseases and their reproductive capacity in Sudan’s harsh environment.Instituto de Genética Veterinaria2021info:eu-repo/semantics/articleinfo:eu-repo/semantics/publishedVersionArticulohttp://purl.org/coar/resource_type/c_6501info:ar-repo/semantics/articuloapplication/pdfhttp://sedici.unlp.edu.ar/handle/10915/130027enginfo:eu-repo/semantics/altIdentifier/issn/2045-2322info:eu-repo/semantics/altIdentifier/doi/10.1038/s41598-021-96330-7info:eu-repo/semantics/openAccesshttp://creativecommons.org/licenses/by/4.0/Creative Commons Attribution 4.0 International (CC BY 4.0)reponame:SEDICI (UNLP)instname:Universidad Nacional de La Platainstacron:UNLP2025-09-29T11:32:41Zoai:sedici.unlp.edu.ar:10915/130027Institucionalhttp://sedici.unlp.edu.ar/Universidad públicaNo correspondehttp://sedici.unlp.edu.ar/oai/snrdalira@sedici.unlp.edu.arArgentinaNo correspondeNo correspondeNo correspondeopendoar:13292025-09-29 11:32:42.184SEDICI (UNLP) - Universidad Nacional de La Platafalse |
dc.title.none.fl_str_mv |
BoLA‑DRB3 gene haplotypes show divergence in native Sudanese cattle from taurine and indicine breeds |
title |
BoLA‑DRB3 gene haplotypes show divergence in native Sudanese cattle from taurine and indicine breeds |
spellingShingle |
BoLA‑DRB3 gene haplotypes show divergence in native Sudanese cattle from taurine and indicine breeds Salim, Bashir Ciencias Veterinarias Evolution Genetics Immunology Molecular biology |
title_short |
BoLA‑DRB3 gene haplotypes show divergence in native Sudanese cattle from taurine and indicine breeds |
title_full |
BoLA‑DRB3 gene haplotypes show divergence in native Sudanese cattle from taurine and indicine breeds |
title_fullStr |
BoLA‑DRB3 gene haplotypes show divergence in native Sudanese cattle from taurine and indicine breeds |
title_full_unstemmed |
BoLA‑DRB3 gene haplotypes show divergence in native Sudanese cattle from taurine and indicine breeds |
title_sort |
BoLA‑DRB3 gene haplotypes show divergence in native Sudanese cattle from taurine and indicine breeds |
dc.creator.none.fl_str_mv |
Salim, Bashir Takeshima, Shin‑nosuke Nakao, Ryo Moustafa, Mohamed A. M. Ahmed, Mohamed‑Khair A. Kambal, Sumaya Mwacharo, Joram M. Alkhaibari, Abeer M. Giovambattista, Guillermo |
author |
Salim, Bashir |
author_facet |
Salim, Bashir Takeshima, Shin‑nosuke Nakao, Ryo Moustafa, Mohamed A. M. Ahmed, Mohamed‑Khair A. Kambal, Sumaya Mwacharo, Joram M. Alkhaibari, Abeer M. Giovambattista, Guillermo |
author_role |
author |
author2 |
Takeshima, Shin‑nosuke Nakao, Ryo Moustafa, Mohamed A. M. Ahmed, Mohamed‑Khair A. Kambal, Sumaya Mwacharo, Joram M. Alkhaibari, Abeer M. Giovambattista, Guillermo |
author2_role |
author author author author author author author author |
dc.subject.none.fl_str_mv |
Ciencias Veterinarias Evolution Genetics Immunology Molecular biology |
topic |
Ciencias Veterinarias Evolution Genetics Immunology Molecular biology |
dc.description.none.fl_txt_mv |
Autochthonous Sudanese cattle breeds, namely Baggara for beef and Butana and Kenana for dairy, are characterized by their adaptive characteristics and high performance in hot and dry agroecosystems. They are thus used largely by nomadic and semi-nomadic pastoralists. We analyzed the diversity and genetic structure of the BoLA-DRB3 gene, a genetic locus linked to the immune response, for the indigenous cattle of Sudan and in the context of the global cattle repository. Blood samples (n = 225) were taken from three indigenous breeds (Baggara; n = 113, Butana; n = 60 and Kenana; n = 52) distributed across six regions of Sudan. Nucleotide sequences were genotyped using the sequence-based typing method. We describe 53 alleles, including seven novel alleles. Principal component analysis (PCA) of the protein pockets implicated in the antigen-binding function of the MHC complex revealed that pockets 4 and 9 (respectively) differentiate Kenana-Baggara and Kenana-Butana breeds from other breeds. Venn analysis of Sudanese, Southeast Asian, European and American cattle breeds with 115 alleles showed 14 were unique to Sudanese breeds. Gene frequency distributions of Baggara cattle showed an even distribution suggesting balancing selection, while the selection index (ω) revealed the presence of diversifying selection in several amino acid sites along the BoLA-DRB3 exon 2 of these native breeds. The results of several PCA were in agreement with clustering patterns observed on the neighbor joining (NJ) trees. These results provide insight into their high survival rate for different tropical diseases and their reproductive capacity in Sudan’s harsh environment. Instituto de Genética Veterinaria |
description |
Autochthonous Sudanese cattle breeds, namely Baggara for beef and Butana and Kenana for dairy, are characterized by their adaptive characteristics and high performance in hot and dry agroecosystems. They are thus used largely by nomadic and semi-nomadic pastoralists. We analyzed the diversity and genetic structure of the BoLA-DRB3 gene, a genetic locus linked to the immune response, for the indigenous cattle of Sudan and in the context of the global cattle repository. Blood samples (n = 225) were taken from three indigenous breeds (Baggara; n = 113, Butana; n = 60 and Kenana; n = 52) distributed across six regions of Sudan. Nucleotide sequences were genotyped using the sequence-based typing method. We describe 53 alleles, including seven novel alleles. Principal component analysis (PCA) of the protein pockets implicated in the antigen-binding function of the MHC complex revealed that pockets 4 and 9 (respectively) differentiate Kenana-Baggara and Kenana-Butana breeds from other breeds. Venn analysis of Sudanese, Southeast Asian, European and American cattle breeds with 115 alleles showed 14 were unique to Sudanese breeds. Gene frequency distributions of Baggara cattle showed an even distribution suggesting balancing selection, while the selection index (ω) revealed the presence of diversifying selection in several amino acid sites along the BoLA-DRB3 exon 2 of these native breeds. The results of several PCA were in agreement with clustering patterns observed on the neighbor joining (NJ) trees. These results provide insight into their high survival rate for different tropical diseases and their reproductive capacity in Sudan’s harsh environment. |
publishDate |
2021 |
dc.date.none.fl_str_mv |
2021 |
dc.type.none.fl_str_mv |
info:eu-repo/semantics/article info:eu-repo/semantics/publishedVersion Articulo 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://sedici.unlp.edu.ar/handle/10915/130027 |
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dc.language.none.fl_str_mv |
eng |
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eng |
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info:eu-repo/semantics/altIdentifier/issn/2045-2322 info:eu-repo/semantics/altIdentifier/doi/10.1038/s41598-021-96330-7 |
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info:eu-repo/semantics/openAccess http://creativecommons.org/licenses/by/4.0/ Creative Commons Attribution 4.0 International (CC BY 4.0) |
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openAccess |
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http://creativecommons.org/licenses/by/4.0/ Creative Commons Attribution 4.0 International (CC BY 4.0) |
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