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 | Acesso ao texto completo restrito à biblioteca da Embrapa Pecuária Sul. Para informações adicionais entre em contato com cppsul.biblioteca@embrapa.br. |
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Registro Completo |
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Biblioteca(s): |
Embrapa Pecuária Sul. |
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Data corrente: |
08/10/2020 |
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Data da última atualização: |
08/10/2020 |
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Tipo da produção científica: |
Artigo em Periódico Indexado |
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Autoria: |
CAMPOS, G. S.; SOLLERO, B. P.; REIMANN, F. A.; JUNQUEIRA, V. S.; CARDOSO, L. L.; YOKOO, M. J. I.; BOLIGON, A. A.; BRACCINI, J.; CARDOSO, F. F. |
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Afiliação: |
Gabriel Soares Campos, UFPEL; BRUNA PENA SOLLERO, CPPSUL; Fernando Antonio Reimann, UFPEL; Vinicius Silva Junqueira, UFV; Leandro Lunardini Cardoso, UFPEL; MARCOS JUN ITI YOKOO, CPPSUL; Arione Augusti Boligon, UFPEL; José Braccini, UFRGS; FERNANDO FLORES CARDOSO, CPPSUL. |
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Título: |
Tag-SNP selection using Bayesian genomewide association study for growth traits in Hereford and Braford cattle. |
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Ano de publicação: |
2020 |
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Fonte/Imprenta: |
Journal of Animal Breeding and Genetics, v. 137, n. 5, p. 449-467, Sept. 2020. |
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DOI: |
https://doi.org/10.1111/jbg.12458 |
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Idioma: |
Inglês |
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Conteúdo: |
The aim of this study was to perform a Bayesian genomewide association study (GWAS) to identify genomic regions associated with growth traits in Hereford and Braford cattle, and to select Tag‐SNPs to represent these regions in low‐density panels useful for genomic predictions. In addition, we propose candidate genes through functional enrichment analysis associated with growth traits using Medical Subject Headings (MeSH). Phenotypic data from 126,290 animals and genotypes for 131 sires and 3,545 animals were used. The Tag‐SNPs were selected with BayesB (π = 0.995) method to compose low‐density panels. The number of Tag‐single nucleotide polymorphism (SNP) ranged between 79 and 103 SNP for the growth traits at weaning and between 78 and 100 SNP for the yearling growth traits. The average proportion of variance explained by Tag‐SNP with BayesA was 0.29, 0.23, 0.32 and 0.19 for birthweight (BW), weaning weight (WW205), yearling weight (YW550) and postweaning gain (PWG345), respectively. For Tag‐SNP with BayesA method accuracy values ranged from 0.13 to 0.30 for k‐means and from 0.30 to 0.65 for random clustering of animals to compose reference and validation groups. Although genomic prediction accuracies were higher with the full marker panel, predictions with low‐density panels retained on average 76% of the accuracy obtained with BayesB with full markers for growth traits. The MeSH analysis was able to translate genomic information providing biological meanings of more specific gene products related to the growth traits. The proposed Tag‐SNP panels may be useful for future fine mapping studies and for lower‐cost commercial genomic prediction applications. MenosThe aim of this study was to perform a Bayesian genomewide association study (GWAS) to identify genomic regions associated with growth traits in Hereford and Braford cattle, and to select Tag‐SNPs to represent these regions in low‐density panels useful for genomic predictions. In addition, we propose candidate genes through functional enrichment analysis associated with growth traits using Medical Subject Headings (MeSH). Phenotypic data from 126,290 animals and genotypes for 131 sires and 3,545 animals were used. The Tag‐SNPs were selected with BayesB (π = 0.995) method to compose low‐density panels. The number of Tag‐single nucleotide polymorphism (SNP) ranged between 79 and 103 SNP for the growth traits at weaning and between 78 and 100 SNP for the yearling growth traits. The average proportion of variance explained by Tag‐SNP with BayesA was 0.29, 0.23, 0.32 and 0.19 for birthweight (BW), weaning weight (WW205), yearling weight (YW550) and postweaning gain (PWG345), respectively. For Tag‐SNP with BayesA method accuracy values ranged from 0.13 to 0.30 for k‐means and from 0.30 to 0.65 for random clustering of animals to compose reference and validation groups. Although genomic prediction accuracies were higher with the full marker panel, predictions with low‐density panels retained on average 76% of the accuracy obtained with BayesB with full markers for growth traits. The MeSH analysis was able to translate genom... Mostrar Tudo |
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Palavras-Chave: |
Gado Braford. |
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Thesagro: |
Gado de Corte; Gado Hereford; Seleção. |
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Categoria do assunto: |
-- |
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Marc: |
LEADER 02608naa a2200277 a 4500
001 2125369
005 2020-10-08
008 2020 bl uuuu u00u1 u #d
024 7 $ahttps://doi.org/10.1111/jbg.12458$2DOI
100 1 $aCAMPOS, G. S.
245 $aTag-SNP selection using Bayesian genomewide association study for growth traits in Hereford and Braford cattle.$h[electronic resource]
260 $c2020
520 $aThe aim of this study was to perform a Bayesian genomewide association study (GWAS) to identify genomic regions associated with growth traits in Hereford and Braford cattle, and to select Tag‐SNPs to represent these regions in low‐density panels useful for genomic predictions. In addition, we propose candidate genes through functional enrichment analysis associated with growth traits using Medical Subject Headings (MeSH). Phenotypic data from 126,290 animals and genotypes for 131 sires and 3,545 animals were used. The Tag‐SNPs were selected with BayesB (π = 0.995) method to compose low‐density panels. The number of Tag‐single nucleotide polymorphism (SNP) ranged between 79 and 103 SNP for the growth traits at weaning and between 78 and 100 SNP for the yearling growth traits. The average proportion of variance explained by Tag‐SNP with BayesA was 0.29, 0.23, 0.32 and 0.19 for birthweight (BW), weaning weight (WW205), yearling weight (YW550) and postweaning gain (PWG345), respectively. For Tag‐SNP with BayesA method accuracy values ranged from 0.13 to 0.30 for k‐means and from 0.30 to 0.65 for random clustering of animals to compose reference and validation groups. Although genomic prediction accuracies were higher with the full marker panel, predictions with low‐density panels retained on average 76% of the accuracy obtained with BayesB with full markers for growth traits. The MeSH analysis was able to translate genomic information providing biological meanings of more specific gene products related to the growth traits. The proposed Tag‐SNP panels may be useful for future fine mapping studies and for lower‐cost commercial genomic prediction applications.
650 $aGado de Corte
650 $aGado Hereford
650 $aSeleção
653 $aGado Braford
700 1 $aSOLLERO, B. P.
700 1 $aREIMANN, F. A.
700 1 $aJUNQUEIRA, V. S.
700 1 $aCARDOSO, L. L.
700 1 $aYOKOO, M. J. I.
700 1 $aBOLIGON, A. A.
700 1 $aBRACCINI, J.
700 1 $aCARDOSO, F. F.
773 $tJournal of Animal Breeding and Genetics$gv. 137, n. 5, p. 449-467, Sept. 2020.
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Registro original: |
Embrapa Pecuária Sul (CPPSUL) |
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Registro Completo
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Biblioteca(s): |
Embrapa Mandioca e Fruticultura. |
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Data corrente: |
07/12/2016 |
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Data da última atualização: |
08/12/2016 |
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Tipo da produção científica: |
Artigo em Periódico Indexado |
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Circulação/Nível: |
A - 1 |
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Autoria: |
RANULFI, A. C.; CARDINALI, M. C. B.; KUBOTA, T. M. K.; ASTUA, J. de F.; FERREIRA, E. J.; BELLETE, B. S.; SILVA, M. F. G. F.; BOAS, P. R. V.; MAGALHÃES, A. B.; PEREIRA, D. M. B. |
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Afiliação: |
ANIELLE C. RANULFI, University of São Paulo; MARCELO C.B. CARDINALI; THIAGO M.K. KUBOTA, University of São Paulo; JULIANA DE FREITAS ASTUA, CNPMF; EDNALDO JOSE FERREIRA, CNPDIA; BARBARA S. BELLETE, University of São Carlos; MARIA FATIMA G.F. DA SILVA, University of São Carlos; PAULINO RIBEIRO VILLAS BOAS, CNPDIA; AIDA B. MAGALHÃES, University of São Paulo; DEBORA MARCONDES BASTOS PEREIRA, CNPDIA. |
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Título: |
Laser-induced fluorescence spectroscopy applied to early diagnosis of citrus Huanglongbing |
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Ano de publicação: |
2016 |
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Fonte/Imprenta: |
Biosystems Engineering, [S.l.], v. 144, p. 133-144, 2016. |
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DOI: |
10.1016/j.biosystemseng.2016.02.010 |
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Idioma: |
Inglês |
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Conteúdo: |
Over the last few years, citrus production has been threatened by diseases and plagues, especially Huanglongbing (HLB). Due to the long asymptomatic period, the most important and efficient tool for HLB management is early detection, which enables fast decisions to protect the farm. In this sense, a new methodology using a portable laser-induced fluorescence spectroscopy (LIFS) system and statistical tools was developed. It is capable of identifying not only symptomatic HLB leaves in the field, but also asymptomatic HLB trees and symptomatic citrus variegated chlorosis (CVC) trees. The differentiation reaches accuracy better than 90% and provides the ability of detecting an asymptomatic diseased tree 21 months before the symptoms appear, results supported by quantitative polymerase chain reaction (qPCR) analysis. |
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Palavras-Chave: |
Huanglongbing; Laser induced fluorescence. |
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Thesaurus NAL: |
early diagnosis. |
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Categoria do assunto: |
-- |
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Marc: |
LEADER 01679naa a2200277 a 4500
001 2058233
005 2016-12-08
008 2016 bl uuuu u00u1 u #d
024 7 $a10.1016/j.biosystemseng.2016.02.010$2DOI
100 1 $aRANULFI, A. C.
245 $aLaser-induced fluorescence spectroscopy applied to early diagnosis of citrus Huanglongbing$h[electronic resource]
260 $c2016
520 $aOver the last few years, citrus production has been threatened by diseases and plagues, especially Huanglongbing (HLB). Due to the long asymptomatic period, the most important and efficient tool for HLB management is early detection, which enables fast decisions to protect the farm. In this sense, a new methodology using a portable laser-induced fluorescence spectroscopy (LIFS) system and statistical tools was developed. It is capable of identifying not only symptomatic HLB leaves in the field, but also asymptomatic HLB trees and symptomatic citrus variegated chlorosis (CVC) trees. The differentiation reaches accuracy better than 90% and provides the ability of detecting an asymptomatic diseased tree 21 months before the symptoms appear, results supported by quantitative polymerase chain reaction (qPCR) analysis.
650 $aearly diagnosis
653 $aHuanglongbing
653 $aLaser induced fluorescence
700 1 $aCARDINALI, M. C. B.
700 1 $aKUBOTA, T. M. K.
700 1 $aASTUA, J. de F.
700 1 $aFERREIRA, E. J.
700 1 $aBELLETE, B. S.
700 1 $aSILVA, M. F. G. F.
700 1 $aBOAS, P. R. V.
700 1 $aMAGALHÃES, A. B.
700 1 $aPEREIRA, D. M. B.
773 $tBiosystems Engineering, [S.l.]$gv. 144, p. 133-144, 2016.
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Embrapa Mandioca e Fruticultura (CNPMF) |
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