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Registro Completo |
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Biblioteca(s): |
Embrapa Gado de Leite. |
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Data corrente: |
04/06/2014 |
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Data da última atualização: |
06/02/2024 |
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Tipo da produção científica: |
Artigo em Periódico Indexado |
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Autoria: |
NEVES, H. H.; CARVALHEIRO, R.; O'BRIEN, A. M.; UTSUNOMIYA, Y. T.; CARMO, A. S. do; SCHENKEL, F. S.; SÖLKNER, J.; MCEWAN, J. C.; VAN TASSELL, C. P.; COLE, J. B.; SILVA, M. V. G. B.; QUEIROZ, S. A.; SONSTEGARD, T. S.; GARCIA, J. F. |
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Afiliação: |
Haroldo HR Neves; Roberto Carvalheiro; Ana M Pérez O'Brien; Yuri T Utsunomiya; Adriana S. do Carmo; Flávio S Schenkel; Johann Sölkner; John C McEwan; Curtis P Van Tassell; John B Cole; MARCOS VINICIUS GUALBERTO B SILVA, CNPGL; Sandra A Queiroz; Tad S Sonstegard; José Fernando Garcia. |
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Título: |
Accuracy of genomic predictions in Bos indicus (Nellore) cattle. |
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Ano de publicação: |
2014 |
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Fonte/Imprenta: |
Genetics Selection Evolution, v. 46, article 17, 2014. |
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DOI: |
https://doi.org/10.1186/1297-9686-46-17 |
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Idioma: |
Inglês |
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Conteúdo: |
Background- Nellore cattle play an important role in beef production in tropical systems and there is great interest in determining if genomic selection can contribute to accelerate genetic improvement of production and fertility in this breed. We present the first results of the implementation of genomic prediction in a Bos indicus (Nellore) population. Methods - Influential bulls were genotyped with the Illumina Bovine HD chip in order to assess genomic predictive ability for weight and carcass traits, gestation length, scrotal circumference and two selection indices. 685 samples and 320 238 single nucleotide polymorphisms (SNPs) were used in the analyses. A forward-prediction scheme was adopted to predict the genomic breeding values (DGV). In the training step, the estimated breeding values (EBV) of bulls were deregressed (dEBV) and used as pseudo-phenotypes to estimate marker effects using four methods: genomic BLUP with or without a residual polygenic effect (GBLUP20 and GBLUP0, respectively), a mixture model (Bayes C) and Bayesian LASSO (BLASSO). Empirical accuracies of the resulting genomic predictions were assessed based on the correlation between DGV and dEBV for the testing group. Results - Accuracies of genomic predictions ranged from 0.17 (navel at weaning) to 0.74 (finishing precocity). Across traits, Bayesian regression models (Bayes C and BLASSO) were more accurate than GBLUP. The average empirical accuracies were 0.39 (GBLUP0), 0.40 (GBLUP20) and 0.44 (Bayes C and BLASSO). Bayes C and BLASSO tended to produce deflated predictions (i.e. slope of the regression of dEBV on DGV greater than 1). Further analyses suggested that higher-than-expected accuracies were observed for traits for which EBV means differed significantly between two breeding subgroups that were identified in a principal component analysis based on genomic relationships. Conclusions -Bayesian regression models are of interest for future applications of genomic selection in this population, but further improvements are needed to reduce deflation of their predictions. Recurrent updates of the training population would be required to enable accurate prediction of the genetic merit of young animals. The technical feasibility of applying genomic prediction in a Bos indicus (Nellore) population was demonstrated. Further research is needed to permit cost-effective selection decisions using genomic information. MenosBackground- Nellore cattle play an important role in beef production in tropical systems and there is great interest in determining if genomic selection can contribute to accelerate genetic improvement of production and fertility in this breed. We present the first results of the implementation of genomic prediction in a Bos indicus (Nellore) population. Methods - Influential bulls were genotyped with the Illumina Bovine HD chip in order to assess genomic predictive ability for weight and carcass traits, gestation length, scrotal circumference and two selection indices. 685 samples and 320 238 single nucleotide polymorphisms (SNPs) were used in the analyses. A forward-prediction scheme was adopted to predict the genomic breeding values (DGV). In the training step, the estimated breeding values (EBV) of bulls were deregressed (dEBV) and used as pseudo-phenotypes to estimate marker effects using four methods: genomic BLUP with or without a residual polygenic effect (GBLUP20 and GBLUP0, respectively), a mixture model (Bayes C) and Bayesian LASSO (BLASSO). Empirical accuracies of the resulting genomic predictions were assessed based on the correlation between DGV and dEBV for the testing group. Results - Accuracies of genomic predictions ranged from 0.17 (navel at weaning) to 0.74 (finishing precocity). Across traits, Bayesian regression models (Bayes C and BLASSO) were more accurate than GBLUP. The average empirical accuracies were 0.39 (GBLUP0), 0.40 (GBLUP20) and 0.44 (Bayes ... Mostrar Tudo |
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Palavras-Chave: |
Genomic selection; Nellore cattle. |
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Categoria do assunto: |
G Melhoramento Genético |
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URL: |
https://ainfo.cnptia.embrapa.br/digital/bitstream/item/116427/1/Cnpgl-2014-Genetics-Selection-Evolution-Accuracy-of-genomic.pdf
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Marc: |
LEADER 03329naa a2200313 a 4500
001 1987574
005 2024-02-06
008 2014 bl uuuu u00u1 u #d
024 7 $ahttps://doi.org/10.1186/1297-9686-46-17$2DOI
100 1 $aNEVES, H. H.
245 $aAccuracy of genomic predictions in Bos indicus (Nellore) cattle.$h[electronic resource]
260 $c2014
520 $aBackground- Nellore cattle play an important role in beef production in tropical systems and there is great interest in determining if genomic selection can contribute to accelerate genetic improvement of production and fertility in this breed. We present the first results of the implementation of genomic prediction in a Bos indicus (Nellore) population. Methods - Influential bulls were genotyped with the Illumina Bovine HD chip in order to assess genomic predictive ability for weight and carcass traits, gestation length, scrotal circumference and two selection indices. 685 samples and 320 238 single nucleotide polymorphisms (SNPs) were used in the analyses. A forward-prediction scheme was adopted to predict the genomic breeding values (DGV). In the training step, the estimated breeding values (EBV) of bulls were deregressed (dEBV) and used as pseudo-phenotypes to estimate marker effects using four methods: genomic BLUP with or without a residual polygenic effect (GBLUP20 and GBLUP0, respectively), a mixture model (Bayes C) and Bayesian LASSO (BLASSO). Empirical accuracies of the resulting genomic predictions were assessed based on the correlation between DGV and dEBV for the testing group. Results - Accuracies of genomic predictions ranged from 0.17 (navel at weaning) to 0.74 (finishing precocity). Across traits, Bayesian regression models (Bayes C and BLASSO) were more accurate than GBLUP. The average empirical accuracies were 0.39 (GBLUP0), 0.40 (GBLUP20) and 0.44 (Bayes C and BLASSO). Bayes C and BLASSO tended to produce deflated predictions (i.e. slope of the regression of dEBV on DGV greater than 1). Further analyses suggested that higher-than-expected accuracies were observed for traits for which EBV means differed significantly between two breeding subgroups that were identified in a principal component analysis based on genomic relationships. Conclusions -Bayesian regression models are of interest for future applications of genomic selection in this population, but further improvements are needed to reduce deflation of their predictions. Recurrent updates of the training population would be required to enable accurate prediction of the genetic merit of young animals. The technical feasibility of applying genomic prediction in a Bos indicus (Nellore) population was demonstrated. Further research is needed to permit cost-effective selection decisions using genomic information.
653 $aGenomic selection
653 $aNellore cattle
700 1 $aCARVALHEIRO, R.
700 1 $aO'BRIEN, A. M.
700 1 $aUTSUNOMIYA, Y. T.
700 1 $aCARMO, A. S. do
700 1 $aSCHENKEL, F. S.
700 1 $aSÖLKNER, J.
700 1 $aMCEWAN, J. C.
700 1 $aVAN TASSELL, C. P.
700 1 $aCOLE, J. B.
700 1 $aSILVA, M. V. G. B.
700 1 $aQUEIROZ, S. A.
700 1 $aSONSTEGARD, T. S.
700 1 $aGARCIA, J. F.
773 $tGenetics Selection Evolution$gv. 46, article 17, 2014.
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Registro original: |
Embrapa Gado de Leite (CNPGL) |
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| 127. |  | COBUCCI, T.; SILVA, J. B.; PRATES, H. T. Carryover effect of fomesafen, applied on edible bean, on sucessional maize. Planta Daninha, Campinas, v. 15, n. 2, p. 180-189, 1997.| Tipo: Artigo em Periódico Indexado |
| Biblioteca(s): Embrapa Milho e Sorgo. |
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| 128. | | SILVA, J. B. N. da; CARVALHO, J. O. P. de. Estrutura das populações de Abius em uma área de preservação permanente na fazenda Rio Capim, Paragominas - Pará. In: SEMINÁRIO DE INICIAÇÃO CIENTÍFICA DA UFRA, 2.; SEMINÁRIO DE INICIAÇÃO CIENTÍFICA DA EMBRAPA AMAZÔNIA ORIENTAL (AVALIAÇÃO-2004), 8., 2005, Belém, PA. Ciência e tecnologia com inclusão social: anais. Belém, PA: UFRA: Embrapa Amazônia Oriental, 2005. 1 CD-ROM.| Tipo: Resumo em Anais de Congresso |
| Biblioteca(s): Embrapa Amazônia Oriental. |
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| 132. | | SILVA, J. B. da; CARRÃO-PANIZZI, M. C. Evaluation of soybean genotypes for consumption in natura as edamame. In: WORLD SOYBEAN RESEARCH CONFERENCE, 7.; INTERNATIONAL SOYBEAN PROCESSING AND UTILIZATION CONFERENCE, 4.; CONGRESSO BRASILEIRO DE SOJA, 3., 2004, Foz do Iguassu. Abstracts of contributed papers and posters. Londrina: Embrapa Soybean, 2004. p. 66. (Embrapa Soja. Documentos, 228). Editado por Flávio Moscardi, Clara Beatriz Hoffmann-Campo, Odilon Ferreira Saraiva, Paulo Roberto Galerani, Francisco Carlos Krzyzanowski, Mercedes Concordia Carrão-Panizzi.| Biblioteca(s): Embrapa Soja. |
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| 133. | | NASCIMENTO, W. M.; SILVA, J. B. C.; CARRIJO, O. A. Germinação de sementes de hortaliças em diferentes substratos para a produção de mudas. Horticultura Brasileira, Brasília, v. 21, n. 2, jul. 2003. Suplemento 2. Trabalho apresentado no 43º Congresso Brasileiro de Olericultura, 2003. Publicado também como resumo em: Horticultura Brasileira, Brasília, v. 21, n. 2, p. 311, jul. 2003. Suplemento 1.| Biblioteca(s): Embrapa Hortaliças. |
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| 139. | | SILVA, J. B. C. da; VIEIRA, J. V. Cortadora horizontal: equipamento para corte de cenoura para processamento. Horticultura Brasileira, Brasília, DF, v. 24, n. 1, jul. 2006. Suplemento 1. Resumo 324. Trabalho apresentado no 46. Congresso Brasileiro de Olericultura, Goiânia, 2006. Publicado também como resumo expandido na Horticultura Brasileira, Brasília, DF, v. 24, n. 2, p. 1287, jul. 2006. Suplemento 2. CD-ROM.| Biblioteca(s): Embrapa Hortaliças. |
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