Identification of copy number variations in the genome of Dairy Gir cattle

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Autor(es): dc.contributorUniversidade Estadual Paulista (UNESP)-
Autor(es): dc.contributorUniv Guelph-
Autor(es): dc.contributorMichigan State Univ-
Autor(es): dc.contributorUniversidade Federal de Goiás (UFG)-
Autor(es): dc.contributorEmpresa Brasileira de Pesquisa Agropecuária (EMBRAPA)-
Autor(es): dc.creatorBraga, Larissa G.-
Autor(es): dc.creatorChud, Tatiane C. S.-
Autor(es): dc.creatorWatanabe, Rafael N.-
Autor(es): dc.creatorSavegnago, Rodrigo P.-
Autor(es): dc.creatorSena, Thomaz M.-
Autor(es): dc.creatorCarmo, Adriana S. do-
Autor(es): dc.creatorMachado, Marco A.-
Autor(es): dc.creatorPanetto, Joao Claudio do C.-
Autor(es): dc.creatorSilva, Marcos Vinicius G. B. da-
Autor(es): dc.creatorMunari, Danisio P.-
Data de aceite: dc.date.accessioned2025-08-21T16:38:52Z-
Data de disponibilização: dc.date.available2025-08-21T16:38:52Z-
Data de envio: dc.date.issued2023-07-29-
Data de envio: dc.date.issued2023-07-29-
Data de envio: dc.date.issued2023-04-10-
Fonte completa do material: dc.identifierhttp://dx.doi.org/10.1371/journal.pone.0284085-
Fonte completa do material: dc.identifierhttp://hdl.handle.net/11449/245623-
Fonte: dc.identifier.urihttp://educapes.capes.gov.br/handle/11449/245623-
Descrição: dc.descriptionStudying structural variants that can control complex traits is relevant for dairy cattle production, especially for animals that are tolerant to breeding conditions in the tropics, such as the Dairy Gir cattle. This study identified and characterized high confidence copy number variation regions (CNVR) in the Gir breed genome. A total of 38 animals were whole-genome sequenced, and 566 individuals were genotyped with a high-density SNP panel, among which 36 animals had both sequencing and SNP genotyping data available. Two sets of high confidence CNVR were established: one based on common CNV identified in the studied population (CNVR_POP), and another with CNV identified in sires with both sequence and SNP genotyping data available (CNVR_ANI). We found 10 CNVR_POP and 45 CNVR_ANI, which covered 1.05 Mb and 4.4 Mb of the bovine genome, respectively. Merging these CNV sets for functional analysis resulted in 48 unique high confidence CNVR. The overlapping genes were previously related to embryonic mortality, environmental adaptation, evolutionary process, immune response, longevity, mammary gland, resistance to gastrointestinal parasites, and stimuli recognition, among others. Our results contribute to a better understanding of the Gir breed genome. Moreover, the CNV identified in this study can potentially affect genes related to complex traits, such as production, health, and reproduction.-
Descrição: dc.descriptionCoordenação de Aperfeiçoamento de Pessoa de Nível Superior (CAPES)-
Descrição: dc.descriptionNational Council for Scientific and Technological Development-
Descrição: dc.descriptionEmbrapa (Brazil)-
Descrição: dc.descriptionConselho Nacional de Desenvolvimento Científico e Tecnológico (CNPq)-
Descrição: dc.descriptionUniv Estadual Paulista, Dept Engn & Ciencias Exatas, Jaboticabal, SP, Brazil-
Descrição: dc.descriptionUniv Guelph, Ctr Genet Improvement Livestock, Dept Anim Biosci, Guelph, ON, Canada-
Descrição: dc.descriptionMichigan State Univ, Dept Anim Sci, E Lansing, MI USA-
Descrição: dc.descriptionUniv Fed Goias, Dept Zootecnia, Goiania, GO, Brazil-
Descrição: dc.descriptionEmbrapa Gado Leite, Juiz De Fora, MG, Brazil-
Descrição: dc.descriptionUniv Estadual Paulista, Dept Engn & Ciencias Exatas, Jaboticabal, SP, Brazil-
Descrição: dc.descriptionCAPES: 001-
Descrição: dc.descriptionNational Council for Scientific and Technological Development: CNPq 431629/2016-1-
Descrição: dc.descriptionEmbrapa (Brazil): SEG 02.13.05.011.00.00-
Descrição: dc.descriptionCNPq: 310199/20158-
Descrição: dc.descriptionCNPq: PPM00606/16-
Formato: dc.format19-
Idioma: dc.languageen-
Publicador: dc.publisherPublic Library Science-
Relação: dc.relationPlos One-
???dc.source???: dc.sourceWeb of Science-
Título: dc.titleIdentification of copy number variations in the genome of Dairy Gir cattle-
Tipo de arquivo: dc.typelivro digital-
Aparece nas coleções:Repositório Institucional - Unesp

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