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 | Acesso ao texto completo restrito à biblioteca da Embrapa Gado de Leite. Para informações adicionais entre em contato com cnpgl.biblioteca@embrapa.br. |
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Registro Completo |
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Biblioteca(s): |
Embrapa Gado de Leite. |
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Data corrente: |
16/11/2017 |
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Data da última atualização: |
09/02/2024 |
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Tipo da produção científica: |
Artigo em Periódico Indexado |
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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. |
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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. |
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Título: |
Genotype imputation in a tropical crossbred dairy cattle population. |
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Ano de publicação: |
2017 |
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Fonte/Imprenta: |
Journal of Dairy Science, v. 100, n. 12, p. 9623-9634, 2017. |
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DOI: |
https://doi.org/10.3168/jds.2017-12732 |
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Idioma: |
Inglês |
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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 |
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Palavras-Chave: |
Impute. |
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Thesaurus Nal: |
genotype; single nucleotide polymorphism. |
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Categoria do assunto: |
G Melhoramento Genético |
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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.
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Registro original: |
Embrapa Gado de Leite (CNPGL) |
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Registro Completo
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Biblioteca(s): |
Embrapa Cerrados. |
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Data corrente: |
12/12/2022 |
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Data da última atualização: |
12/12/2022 |
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Tipo da produção científica: |
Artigo em Periódico Indexado |
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Circulação/Nível: |
B - 3 |
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Autoria: |
CONCEIÇÃO, L. T.; SILVA, G. N.; HOLSBACK, H. M.; OLIVEIRA, C. de F.; MARCANTE, N. C.; MARTINS, E. de S.; SANTOS, F. L. de S.; SANTOS, E. F. |
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Afiliação: |
LUCAS TERTO CONCEIÇAO; GUTIERRES NELSON SILVA; HEVERTON MANOEL SILVA HOLSBACK; CAROLINE DE FIGUEIREDO OLIVEIRA; NERICLENES CHAVES MARCANTE; EDER DE SOUZA MARTINS, CPAC; FABIO LUÍS DE SOUZA SANTOS; ELCIO FERREIRA SANTOS. |
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Título: |
Potential of basalt dust to improve soil fertility and crop nutrition. |
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Ano de publicação: |
2022 |
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Fonte/Imprenta: |
Journal of Agriculture and Food Research, v. 10, 2022. |
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Páginas: |
8 p. |
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Idioma: |
Inglês |
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Conteúdo: |
The search for higher yields, lower production costs, and increased sustainability in agriculture implies opti- mizing crop nutritional management. In this sense, basalt dust has shown potential to improve soil fertility and crop nutrition. Thus, the goal was to evaluate the potential use of basalt dust in a controlled environment. First, an experiment was carried out on soils with contrasting textures (sandy and medium) under a random design, with four replications. These soils were incubated with basalt dust doses for 90 days, and later analyzed for chemical properties. Then, after soil incubation, four experiments were carried out in a pot system, where maize and bean plants were grown, with four replications. Plant shoots were evaluated for dry weight and macro- and micronutrient accumulations. The results of the incubation test showed that basalt dust increased available phosphorus, potassium, calcium, and magnesium levels in the soil about twenty, ten, fifteen, and thirteen times higher than those without the basalt dust, respectively. Maize and bean plants grown in soils enriched with basalt dust showed macro and micronutrient accumulations, up to five times higher than plants without the use of basalt dust. These results showed the usefulness of basalt dust in aiding nutritional management in agriculture |
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Palavras-Chave: |
Pó de rocha; Remineralizador. |
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Thesagro: |
Agricultura; Rocha. |
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Categoria do assunto: |
-- |
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Marc: |
LEADER 02069naa a2200265 a 4500
001 2149515
005 2022-12-12
008 2022 bl uuuu u00u1 u #d
100 1 $aCONCEIÇÃO, L. T.
245 $aPotential of basalt dust to improve soil fertility and crop nutrition.$h[electronic resource]
260 $c2022
300 $a8 p.
520 $aThe search for higher yields, lower production costs, and increased sustainability in agriculture implies opti- mizing crop nutritional management. In this sense, basalt dust has shown potential to improve soil fertility and crop nutrition. Thus, the goal was to evaluate the potential use of basalt dust in a controlled environment. First, an experiment was carried out on soils with contrasting textures (sandy and medium) under a random design, with four replications. These soils were incubated with basalt dust doses for 90 days, and later analyzed for chemical properties. Then, after soil incubation, four experiments were carried out in a pot system, where maize and bean plants were grown, with four replications. Plant shoots were evaluated for dry weight and macro- and micronutrient accumulations. The results of the incubation test showed that basalt dust increased available phosphorus, potassium, calcium, and magnesium levels in the soil about twenty, ten, fifteen, and thirteen times higher than those without the basalt dust, respectively. Maize and bean plants grown in soils enriched with basalt dust showed macro and micronutrient accumulations, up to five times higher than plants without the use of basalt dust. These results showed the usefulness of basalt dust in aiding nutritional management in agriculture
650 $aAgricultura
650 $aRocha
653 $aPó de rocha
653 $aRemineralizador
700 1 $aSILVA, G. N.
700 1 $aHOLSBACK, H. M.
700 1 $aOLIVEIRA, C. de F.
700 1 $aMARCANTE, N. C.
700 1 $aMARTINS, E. de S.
700 1 $aSANTOS, F. L. de S.
700 1 $aSANTOS, E. F.
773 $tJournal of Agriculture and Food Research$gv. 10, 2022.
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