| |
|
|
 | Acesso ao texto completo restrito à biblioteca da Embrapa Gado de Leite. Para informações adicionais entre em contato com cnpgl.biblioteca@embrapa.br. |
|
Registro Completo |
|
Biblioteca(s): |
Embrapa Gado de Leite. |
|
Data corrente: |
16/11/2017 |
|
Data da última atualização: |
09/02/2024 |
|
Tipo da produção científica: |
Artigo em Periódico Indexado |
|
Autoria: |
OLIVEIRA JÚNIOR, G. A.; CHUD, T. C. S.; VENTURA, R. V.; GARRICK, D. J.; COLE, J. B.; MUNARI, D. P.; FERRAZ, J. B. S.; MULLART, E.; DeNISE, S.; SMITH, S.; SILVA, M. V. G. B. |
|
Afiliação: |
Gerson A. Oliveira Júnior, USP; Tatiane C. S. Chud, UNESP; Ricardo V. Ventura, University of Guelph, Guelph, Canada; Dorian J. Garrick, Iowa State University, Ames; John B. Cole, United States Department of Agriculture, Agricultural Research Service, Maryland, USA; Danísio Prado Munari, UNESP Jaboticabal; José B. S. Ferraz, USP; Erik Mullart, CRV Holding B. V., Arnhem, 454, the Netherlands; SUE DeNISE, Zoetis, Kalamazoo, MI; SHANNON SMITH, Zoetis, Kalamazoo, MI; MARCOS VINICIUS GUALBERTO B SILVA, CNPGL. |
|
Título: |
Genotype imputation in a tropical crossbred dairy cattle population. |
|
Ano de publicação: |
2017 |
|
Fonte/Imprenta: |
Journal of Dairy Science, v. 100, n. 12, p. 9623-9634, 2017. |
|
DOI: |
https://doi.org/10.3168/jds.2017-12732 |
|
Idioma: |
Inglês |
|
Conteúdo: |
The objective of this study was to investigate different strategies for genotype imputation in a population of crossbred Girolando (Gyr × Holstein) dairy cattle. The data set consisted of 478 Girolando, 583 Gyr, and 1,198 Holstein sires genotyped at high density with the Illumina BovineHD (Illumina, San Diego, CA) panel, which includes ∼777K markers. The accuracy of imputation from low (20K) and medium densities (50K and 70K) to the HD panel density and from low to 50K density were investigated. Seven scenarios using different reference populations (RPop) considering Girolando, Gyr, and Holstein breeds separately or combinations of animals of these breeds were tested for imputing genotypes of 166 randomly chosen Girolando animals. The population genotype imputation were performed using FImpute. Imputation accuracy was measured as the correlation between observed and imputed genotypes (CORR) and also as the proportion of genotypes that were imputed correctly (CR). This is the first paper on imputation accuracy in a Girolando population. The sample-specific imputation accuracies ranged from 0.38 to 0.97 (CORR) and from 0.49 to 0.96 (CR) imputing from low and medium densities to HD, and 0.41 to 0.95 (CORR) and from 0.50 to 0.94 (CR) for imputation from 20K to 50K. The CORRanim exceeded 0.96 (for 50K and 70K panels) when only Girolando animals were included in RPop (S1). We found smaller CORRanim when Gyr (S2) was used instead of Holstein (S3) as RPop. The same behavior was observed between S4 (Gyr + Girolando) and S5 (Holstein + Girolando) because the target animals were more related to the Holstein population than to the Gyr population. The highest imputation accuracies were observed for scenarios including Girolando animals in the reference population, whereas using only Gyr animals resulted in low imputation accuracies, suggesting that the haplotypes segregating in the Girolando population had a greater effect on accuracy than the purebred haplotypes. All chromosomes had similar imputation accuracies (CORRsnp) within each scenario. Crossbred animals (Girolando) must be included in the reference population to provide the best imputation accuracies. MenosThe objective of this study was to investigate different strategies for genotype imputation in a population of crossbred Girolando (Gyr × Holstein) dairy cattle. The data set consisted of 478 Girolando, 583 Gyr, and 1,198 Holstein sires genotyped at high density with the Illumina BovineHD (Illumina, San Diego, CA) panel, which includes ∼777K markers. The accuracy of imputation from low (20K) and medium densities (50K and 70K) to the HD panel density and from low to 50K density were investigated. Seven scenarios using different reference populations (RPop) considering Girolando, Gyr, and Holstein breeds separately or combinations of animals of these breeds were tested for imputing genotypes of 166 randomly chosen Girolando animals. The population genotype imputation were performed using FImpute. Imputation accuracy was measured as the correlation between observed and imputed genotypes (CORR) and also as the proportion of genotypes that were imputed correctly (CR). This is the first paper on imputation accuracy in a Girolando population. The sample-specific imputation accuracies ranged from 0.38 to 0.97 (CORR) and from 0.49 to 0.96 (CR) imputing from low and medium densities to HD, and 0.41 to 0.95 (CORR) and from 0.50 to 0.94 (CR) for imputation from 20K to 50K. The CORRanim exceeded 0.96 (for 50K and 70K panels) when only Girolando animals were included in RPop (S1). We found smaller CORRanim when Gyr (S2) was used instead of Holstein (S3) as RPop. The same behavior was obse... Mostrar Tudo |
|
Palavras-Chave: |
Impute. |
|
Thesaurus Nal: |
genotype; single nucleotide polymorphism. |
|
Categoria do assunto: |
G Melhoramento Genético |
|
Marc: |
LEADER 03028naa a2200289 a 4500
001 2079937
005 2024-02-09
008 2017 bl uuuu u00u1 u #d
024 7 $ahttps://doi.org/10.3168/jds.2017-12732$2DOI
100 1 $aOLIVEIRA JÚNIOR, G. A.
245 $aGenotype imputation in a tropical crossbred dairy cattle population.$h[electronic resource]
260 $c2017
520 $aThe objective of this study was to investigate different strategies for genotype imputation in a population of crossbred Girolando (Gyr × Holstein) dairy cattle. The data set consisted of 478 Girolando, 583 Gyr, and 1,198 Holstein sires genotyped at high density with the Illumina BovineHD (Illumina, San Diego, CA) panel, which includes ∼777K markers. The accuracy of imputation from low (20K) and medium densities (50K and 70K) to the HD panel density and from low to 50K density were investigated. Seven scenarios using different reference populations (RPop) considering Girolando, Gyr, and Holstein breeds separately or combinations of animals of these breeds were tested for imputing genotypes of 166 randomly chosen Girolando animals. The population genotype imputation were performed using FImpute. Imputation accuracy was measured as the correlation between observed and imputed genotypes (CORR) and also as the proportion of genotypes that were imputed correctly (CR). This is the first paper on imputation accuracy in a Girolando population. The sample-specific imputation accuracies ranged from 0.38 to 0.97 (CORR) and from 0.49 to 0.96 (CR) imputing from low and medium densities to HD, and 0.41 to 0.95 (CORR) and from 0.50 to 0.94 (CR) for imputation from 20K to 50K. The CORRanim exceeded 0.96 (for 50K and 70K panels) when only Girolando animals were included in RPop (S1). We found smaller CORRanim when Gyr (S2) was used instead of Holstein (S3) as RPop. The same behavior was observed between S4 (Gyr + Girolando) and S5 (Holstein + Girolando) because the target animals were more related to the Holstein population than to the Gyr population. The highest imputation accuracies were observed for scenarios including Girolando animals in the reference population, whereas using only Gyr animals resulted in low imputation accuracies, suggesting that the haplotypes segregating in the Girolando population had a greater effect on accuracy than the purebred haplotypes. All chromosomes had similar imputation accuracies (CORRsnp) within each scenario. Crossbred animals (Girolando) must be included in the reference population to provide the best imputation accuracies.
650 $agenotype
650 $asingle nucleotide polymorphism
653 $aImpute
700 1 $aCHUD, T. C. S.
700 1 $aVENTURA, R. V.
700 1 $aGARRICK, D. J.
700 1 $aCOLE, J. B.
700 1 $aMUNARI, D. P.
700 1 $aFERRAZ, J. B. S.
700 1 $aMULLART, E.
700 1 $aDeNISE, S.
700 1 $aSMITH, S.
700 1 $aSILVA, M. V. G. B.
773 $tJournal of Dairy Science$gv. 100, n. 12, p. 9623-9634, 2017.
Download
Esconder MarcMostrar Marc Completo |
|
Registro original: |
Embrapa Gado de Leite (CNPGL) |
|
|
Biblioteca |
ID |
Origem |
Tipo/Formato |
Classificação |
Cutter |
Registro |
Volume |
Status |
URL |
Voltar
|
|
|
Registro Completo
|
Biblioteca(s): |
Embrapa Soja. |
|
Data corrente: |
06/09/2023 |
|
Data da última atualização: |
16/02/2024 |
|
Tipo da produção científica: |
Artigo em Anais de Congresso |
|
Autoria: |
CRUSIOL, L. G. T.; SIBALDELLI, R. N. R.; NANNI, M. R.; GONÇALVES, J. V. F.; FURLANETTO, R. H.; GONCALVES, S. L.; FOLONI, J. S. S.; MERTZ-HENNING, L. M.; NEPOMUCENO, A. L.; NEUMAIER, N.; FARIAS, J. R. B. |
|
Afiliação: |
L. G. T. CRUSIOL; RUBSON NATAL RIBEIRO SIBALDELLI, CNPSO; M. R. NANNI, UEM; J. V. F. GONÇALVES, UEM; R. H. FURLANETTO, UNIVERSITY OF FLORIDA; SERGIO LUIZ GONCALVES, CNPSO; JOSE SALVADOR SIMONETTO FOLONI, CNPSO; LILIANE MARCIA MERTZ HENNING, CNPSO; ALEXANDRE LIMA NEPOMUCENO, CNPSO; NORMAN NEUMAIER, CNPSO; JOSE RENATO BOUCAS FARIAS, CNPSO. |
|
Título: |
Influência da fenologia e da disponibilidade hídrica na classificação espectral de cultivares de soja. |
|
Ano de publicação: |
2023 |
|
Fonte/Imprenta: |
In: REUNIÃO DE PESQUISA DE SOJA, 38., 2023, Londrina. Resumos expandidos... Londrina: Embrapa Soja, 2023. (Embrapa Soja. Eventos técnicos & científicos, 1). Editado por Fernando Augusto Henning, Regina Maria Villas Bôas de Campos Leite. RPS 2023. |
|
Páginas: |
p. 40-42. |
|
Idioma: |
Português |
|
Thesagro: |
Espectrometria; Fenologia; Soja. |
|
Thesaurus NAL: |
Phenology; Soybeans; Spectral analysis. |
|
Categoria do assunto: |
X Pesquisa, Tecnologia e Engenharia |
|
URL: |
https://ainfo.cnptia.embrapa.br/digital/bitstream/doc/1156472/1/p-40-ETC-1-RPS-2023-res-exp-2-6.pdf
|
|
Marc: |
LEADER 01100nam a2200301 a 4500
001 2156472
005 2024-02-16
008 2023 bl uuuu u00u1 u #d
100 1 $aCRUSIOL, L. G. T.
245 $aInfluência da fenologia e da disponibilidade hídrica na classificação espectral de cultivares de soja.$h[electronic resource]
260 $aIn: REUNIÃO DE PESQUISA DE SOJA, 38., 2023, Londrina. Resumos expandidos... Londrina: Embrapa Soja, 2023. (Embrapa Soja. Eventos técnicos & científicos, 1). Editado por Fernando Augusto Henning, Regina Maria Villas Bôas de Campos Leite. RPS 2023.$c2023
300 $ap. 40-42.
650 $aPhenology
650 $aSoybeans
650 $aSpectral analysis
650 $aEspectrometria
650 $aFenologia
650 $aSoja
700 1 $aSIBALDELLI, R. N. R.
700 1 $aNANNI, M. R.
700 1 $aGONÇALVES, J. V. F.
700 1 $aFURLANETTO, R. H.
700 1 $aGONCALVES, S. L.
700 1 $aFOLONI, J. S. S.
700 1 $aMERTZ-HENNING, L. M.
700 1 $aNEPOMUCENO, A. L.
700 1 $aNEUMAIER, N.
700 1 $aFARIAS, J. R. B.
Download
Esconder MarcMostrar Marc Completo |
|
Registro original: |
Embrapa Soja (CNPSO) |
|
|
Biblioteca |
ID |
Origem |
Tipo/Formato |
Classificação |
Cutter |
Registro |
Volume |
Status |
Fechar
|
| Nenhum registro encontrado para a expressão de busca informada. |
|
|
