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Registro Completo |
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Biblioteca(s): |
Embrapa Florestas; Embrapa Mandioca e Fruticultura. |
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Data corrente: |
28/12/2016 |
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Data da última atualização: |
03/01/2018 |
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Tipo da produção científica: |
Artigo em Periódico Indexado |
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Autoria: |
AZEVEDO, C. F.; RESENDE, M. D. V. de; SILVA, F. F.; VIANA, J. M. S.; VALENTE, M. S. F.; RESENDE JUNIOR, M. F. R.; OLIVEIRA, E. J. de. |
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Afiliação: |
C. F. Azevedo, Departamento de Estatística, Universidade Federal de Viçosa; MARCOS DEON VILELA DE RESENDE, CNPF; F. F. Silva, Departamento de Zootecnia, Universidade Federal de Viçosa; J. M. S. Viana, Departamento de Biologia Geral, Universidade Federal de Viçosa; M. S. F. Valente, Departamento de Biologia Geral, Universidade Federal de Viçosa; M. F. R. Resende Junior, RAPID Genomics, Florida; EDER JORGE DE OLIVEIRA, CNPMF. |
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Título: |
New accuracy estimators for genomic selection with application in a cassava (Manihot esculenta) breeding program. |
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Ano de publicação: |
2016 |
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Fonte/Imprenta: |
Genetics and Molecular Research, v. 15, n. 4, gmr.15048838, Oct. 2016. |
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DOI: |
10.4238/gmr.15048838 |
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Idioma: |
Inglês |
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Conteúdo: |
ABSTRACT. Genomic selection is the main force driving applied breeding programs and accuracy is the main measure for evaluating its efficiency. The traditional estimator (TE) of experimental accuracy is not fully adequate. This study proposes and evaluates the performance and efficiency of two new accuracy estimators, called regularized estimator (RE) and hybrid estimator (HE), which were applied to a practical cassava breeding program and also to simulated data. The simulation study considered two individual narrow sense heritability levels and two genetic architectures for traits. TE, RE, and HE were compared under four validation procedures: without validation (WV),
independent validation, ten-fold validation through jacknife allowing
different markers, and with the same markers selected in each cycle.
RE presented accuracies closer to the parametric ones and less biased
and more precise ones than TE. HE proved to be very effective in the
WV procedure. The estimators were applied to five traits evaluated in
a cassava experiment, including 358 clones genotyped for 390 SNPs.
Accuracies ranged from 0.67 to 1.12 with TE and from 0.22 to 0.51
with RE. These results indicated that TE overestimated the accuracy
and led to one accuracy estimate (1.12) higher than one, which is
outside of the parameter space. Use of RE turned the accuracy into the
parameter space. Cassava breeding programs can be more realistically
implemented using the new estimators proposed in this study, providing
less risky practical inferences. MenosABSTRACT. Genomic selection is the main force driving applied breeding programs and accuracy is the main measure for evaluating its efficiency. The traditional estimator (TE) of experimental accuracy is not fully adequate. This study proposes and evaluates the performance and efficiency of two new accuracy estimators, called regularized estimator (RE) and hybrid estimator (HE), which were applied to a practical cassava breeding program and also to simulated data. The simulation study considered two individual narrow sense heritability levels and two genetic architectures for traits. TE, RE, and HE were compared under four validation procedures: without validation (WV),
independent validation, ten-fold validation through jacknife allowing
different markers, and with the same markers selected in each cycle.
RE presented accuracies closer to the parametric ones and less biased
and more precise ones than TE. HE proved to be very effective in the
WV procedure. The estimators were applied to five traits evaluated in
a cassava experiment, including 358 clones genotyped for 390 SNPs.
Accuracies ranged from 0.67 to 1.12 with TE and from 0.22 to 0.51
with RE. These results indicated that TE overestimated the accuracy
and led to one accuracy estimate (1.12) higher than one, which is
outside of the parameter space. Use of RE turned the accuracy into the
parameter space. Cassava breeding programs can be more realistically
implemented using the new estimators proposed in this study, provi... Mostrar Tudo |
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Palavras-Chave: |
Accuracy estimator; Cross-validation; Genomic prediction; Mnadioca; Seleção genômica. |
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Thesagro: |
Mandioca; Manihot esculenta; Melhoramento vegetal. |
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Thesaurus Nal: |
Cassava; Plant breeding. |
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Categoria do assunto: |
G Melhoramento Genético |
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URL: |
https://ainfo.cnptia.embrapa.br/digital/bitstream/item/161813/1/2016-M.Deon-GMR-NewAccuracy.pdf
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Marc: |
LEADER 02532naa a2200325 a 4500
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005 2018-01-03
008 2016 bl uuuu u00u1 u #d
024 7 $a10.4238/gmr.15048838$2DOI
100 1 $aAZEVEDO, C. F.
245 $aNew accuracy estimators for genomic selection with application in a cassava (Manihot esculenta) breeding program.$h[electronic resource]
260 $c2016
520 $aABSTRACT. Genomic selection is the main force driving applied breeding programs and accuracy is the main measure for evaluating its efficiency. The traditional estimator (TE) of experimental accuracy is not fully adequate. This study proposes and evaluates the performance and efficiency of two new accuracy estimators, called regularized estimator (RE) and hybrid estimator (HE), which were applied to a practical cassava breeding program and also to simulated data. The simulation study considered two individual narrow sense heritability levels and two genetic architectures for traits. TE, RE, and HE were compared under four validation procedures: without validation (WV), independent validation, ten-fold validation through jacknife allowing different markers, and with the same markers selected in each cycle. RE presented accuracies closer to the parametric ones and less biased and more precise ones than TE. HE proved to be very effective in the WV procedure. The estimators were applied to five traits evaluated in a cassava experiment, including 358 clones genotyped for 390 SNPs. Accuracies ranged from 0.67 to 1.12 with TE and from 0.22 to 0.51 with RE. These results indicated that TE overestimated the accuracy and led to one accuracy estimate (1.12) higher than one, which is outside of the parameter space. Use of RE turned the accuracy into the parameter space. Cassava breeding programs can be more realistically implemented using the new estimators proposed in this study, providing less risky practical inferences.
650 $aCassava
650 $aPlant breeding
650 $aMandioca
650 $aManihot esculenta
650 $aMelhoramento vegetal
653 $aAccuracy estimator
653 $aCross-validation
653 $aGenomic prediction
653 $aMnadioca
653 $aSeleção genômica
700 1 $aRESENDE, M. D. V. de
700 1 $aSILVA, F. F.
700 1 $aVIANA, J. M. S.
700 1 $aVALENTE, M. S. F.
700 1 $aRESENDE JUNIOR, M. F. R.
700 1 $aOLIVEIRA, E. J. de
773 $tGenetics and Molecular Research$gv. 15, n. 4, gmr.15048838, Oct. 2016.
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Registro original: |
Embrapa Florestas (CNPF) |
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| 1. |  | AZEVEDO, C. F.; RESENDE, M. D. V. de; SILVA, F. F.; VIANA, J. M. S.; VALENTE, M. S. F.; RESENDE JUNIOR, M. F. R.; OLIVEIRA, E. J. de. New accuracy estimators for genomic selection with application in a cassava (Manihot esculenta) breeding program. Genetics and Molecular Research, v. 15, n. 4, gmr.15048838, Oct. 2016.| Tipo: Artigo em Periódico Indexado | Circulação/Nível: A - 1 |
| Biblioteca(s): Embrapa Florestas; Embrapa Mandioca e Fruticultura. |
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