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Registro Completo |
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Biblioteca(s): |
Embrapa Gado de Leite. |
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Data corrente: |
03/06/2023 |
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Data da última atualização: |
07/06/2023 |
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Tipo da produção científica: |
Artigo em Periódico Indexado |
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Autoria: |
BRAGA, L. G.; CHUD, T. C. S.; WATANABE, R. N.; SAVEGNAGO, R. P.; SENA, T. M.; CARMO, A. S. do; MACHADO, M. A.; PANETTO, J. C. do C.; SILVA, M. V. G. B.; MUNARI, D. P. |
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Afiliação: |
LARISSA G. BRAGA, Universidade Estadual Paulista; TATIANE C. S. CHUD, University of Guelph; RAFAEL N. WATANABE, Universidade Estadual Paulista; RODRIGO P. SAVEGNAGO, Michigan State University; THOMAZ M. SENA, Universidade Estadual Paulista; ADRIANA S. DO CARMO, Universidade Federal de Goiás; MARCO ANTONIO MACHADO, CNPGL; JOAO CLAUDIO DO CARMO PANETTO, CNPGL; MARCOS VINICIUS GUALBERTO B SILVA, CNPGL; DANISIO P. MUNARI, Universidade Estadual Paulista. |
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Título: |
Identification of copy number variations in the genome of Dairy Gir cattle. |
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Ano de publicação: |
2023 |
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Fonte/Imprenta: |
PLoS ONE, v. 18, n. 4, e0284085, 2023. |
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DOI: |
https://doi.org/10.1371/journal.pone.0284085 |
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Idioma: |
Inglês |
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Conteúdo: |
Studying 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. |
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Thesagro: |
Gado Leiteiro; Genoma. |
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Categoria do assunto: |
-- |
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URL: |
https://ainfo.cnptia.embrapa.br/digital/bitstream/doc/1154204/1/Identification-of-copy-number-variations-in-the-genome.pdf
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Marc: |
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024 7 $ahttps://doi.org/10.1371/journal.pone.0284085$2DOI
100 1 $aBRAGA, L. G.
245 $aIdentification of copy number variations in the genome of Dairy Gir cattle.$h[electronic resource]
260 $c2023
520 $aStudying 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.
650 $aGado Leiteiro
650 $aGenoma
700 1 $aCHUD, T. C. S.
700 1 $aWATANABE, R. N.
700 1 $aSAVEGNAGO, R. P.
700 1 $aSENA, T. M.
700 1 $aCARMO, A. S. do
700 1 $aMACHADO, M. A.
700 1 $aPANETTO, J. C. do C.
700 1 $aSILVA, M. V. G. B.
700 1 $aMUNARI, D. P.
773 $tPLoS ONE$gv. 18, n. 4, e0284085, 2023.
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Registro original: |
Embrapa Gado de Leite (CNPGL) |
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| 1. |  | BRAGA, L. G.; CHUD, T. C. S.; WATANABE, R. N.; SAVEGNAGO, R. P.; SENA, T. M.; CARMO, A. S. do; MACHADO, M. A.; PANETTO, J. C. do C.; SILVA, M. V. G. B.; MUNARI, D. P. Identification of copy number variations in the genome of Dairy Gir cattle. PLoS ONE, v. 18, n. 4, e0284085, 2023.| Tipo: Artigo em Periódico Indexado | Circulação/Nível: A - 1 |
| Biblioteca(s): Embrapa Gado de Leite. |
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