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Registro Completo |
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Biblioteca(s): |
Biblioteca Rui Tendinha. |
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Data corrente: |
08/08/2019 |
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Data da última atualização: |
08/08/2019 |
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Tipo da produção científica: |
Artigo em Periódico Indexado |
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Autoria: |
FERRÃO, L. F. V.; CAIXETA, E. T.; CRUZ, C. D.; SOUZA, F. de F.; FERRÃO, M. A. G.; ZAMBOLIM, Z.; SAKIYAMA, N. S. |
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Afiliação: |
Luís Felipe V. Ferrão, UFV; Eveline T. Caixeta, Embrapa Cafe; Cosme D. Cruz, UFV; Flávio F. de Souza, Embrapa Rondônia; Maria Amélia Gava Ferrão, Incaper/Embrapa Café; Laércio Zambolim, UFV; Ney S. Sakiyama, UFV. |
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Título: |
The effects of encoding data in diversity studies and the applicability of the weighting index approach for data analysis from different molecular markers. |
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Ano de publicação: |
2014 |
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Fonte/Imprenta: |
Plant Systematics and Evolution, New York v. 300, p.1649-1661, feb. 2014. |
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DOI: |
10.1007/s00606-014-09903 |
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Idioma: |
Português |
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Conteúdo: |
The use of molecular markers to study genetic diversity represents a breakthrough in this area, because of the increase in polymorphism levels and phenotypic neutrality. Codominant markers, such as microsatellites (SSR), are sensitive enough to distinguish the heterozygotes in genetic studies. Despite this advantage, there are some studies that ignore this feature and work with encoded data because of the simplicity of the evaluation, existence of polyploids and need for the combined analysis of different types of molecular markers. Thus, our study aims to investigate the consequences of these encodings on simulated and real data. In addition, we suggest an alternative analysis for genetic evaluations using different molecular markers. For the simulated data, we proposed the following two scenarios: the first uses SNP markers, and the second SSR markers. For real data, we used the SSR genotyping data from Coffea canephora accessions maintained in the Embrapa Germplasm Collection. The genetic diversity was studied using cluster analysis, the dissimilarity index, and the Bayesian approach implemented in the STRUCTURE software. For the simulated data, we observed a loss of genetic information to the encoded data in both scenarios. The same result was observed in the coffee studies. This loss of information was discussed in the context of a plantbreeding program, and the consequences were weighted to germplasm evaluations and the selection of parents for hybridization. In the studies that involved different types of markers, an alternative to the combined analysis is discussed, where the informativeness, coverage and quality of markers are weighted in the genetic diversity studies. MenosThe use of molecular markers to study genetic diversity represents a breakthrough in this area, because of the increase in polymorphism levels and phenotypic neutrality. Codominant markers, such as microsatellites (SSR), are sensitive enough to distinguish the heterozygotes in genetic studies. Despite this advantage, there are some studies that ignore this feature and work with encoded data because of the simplicity of the evaluation, existence of polyploids and need for the combined analysis of different types of molecular markers. Thus, our study aims to investigate the consequences of these encodings on simulated and real data. In addition, we suggest an alternative analysis for genetic evaluations using different molecular markers. For the simulated data, we proposed the following two scenarios: the first uses SNP markers, and the second SSR markers. For real data, we used the SSR genotyping data from Coffea canephora accessions maintained in the Embrapa Germplasm Collection. The genetic diversity was studied using cluster analysis, the dissimilarity index, and the Bayesian approach implemented in the STRUCTURE software. For the simulated data, we observed a loss of genetic information to the encoded data in both scenarios. The same result was observed in the coffee studies. This loss of information was discussed in the context of a plantbreeding program, and the consequences were weighted to germplasm evaluations and the selection of parents for hybridization. In the st... Mostrar Tudo |
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Palavras-Chave: |
Café canéfora; Café conilon; Codominant markers; Coffee; Diversidade genética; Dominant markers Germplasm; Marcadores dominantes; SSR STRUCTURE. |
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Thesagro: |
Café; Coffea Canephora; Marcador molecular. |
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Categoria do assunto: |
-- |
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URL: |
https://biblioteca.incaper.es.gov.br/digital/bitstream/123456789/3664/1/the-effects-enconding-ferrao.pdf
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Marc: |
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008 2014 bl uuuu u00u1 u #d
024 7 $a10.1007/s00606-014-09903$2DOI
100 1 $aFERRÃO, L. F. V.
245 $aThe effects of encoding data in diversity studies and the applicability of the weighting index approach for data analysis from different molecular markers.$h[electronic resource]
260 $c2014
520 $aThe use of molecular markers to study genetic diversity represents a breakthrough in this area, because of the increase in polymorphism levels and phenotypic neutrality. Codominant markers, such as microsatellites (SSR), are sensitive enough to distinguish the heterozygotes in genetic studies. Despite this advantage, there are some studies that ignore this feature and work with encoded data because of the simplicity of the evaluation, existence of polyploids and need for the combined analysis of different types of molecular markers. Thus, our study aims to investigate the consequences of these encodings on simulated and real data. In addition, we suggest an alternative analysis for genetic evaluations using different molecular markers. For the simulated data, we proposed the following two scenarios: the first uses SNP markers, and the second SSR markers. For real data, we used the SSR genotyping data from Coffea canephora accessions maintained in the Embrapa Germplasm Collection. The genetic diversity was studied using cluster analysis, the dissimilarity index, and the Bayesian approach implemented in the STRUCTURE software. For the simulated data, we observed a loss of genetic information to the encoded data in both scenarios. The same result was observed in the coffee studies. This loss of information was discussed in the context of a plantbreeding program, and the consequences were weighted to germplasm evaluations and the selection of parents for hybridization. In the studies that involved different types of markers, an alternative to the combined analysis is discussed, where the informativeness, coverage and quality of markers are weighted in the genetic diversity studies.
650 $aCafé
650 $aCoffea Canephora
650 $aMarcador molecular
653 $aCafé canéfora
653 $aCafé conilon
653 $aCodominant markers
653 $aCoffee
653 $aDiversidade genética
653 $aDominant markers Germplasm
653 $aMarcadores dominantes
653 $aSSR STRUCTURE
700 1 $aCAIXETA, E. T.
700 1 $aCRUZ, C. D.
700 1 $aSOUZA, F. de F.
700 1 $aFERRÃO, M. A. G.
700 1 $aZAMBOLIM, Z.
700 1 $aSAKIYAMA, N. S.
773 $tPlant Systematics and Evolution, New York$gv. 300, p.1649-1661, feb. 2014.
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Registro original: |
Biblioteca Rui Tendinha (BRT) |
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Biblioteca |
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Origem |
Tipo/Formato |
Classificação |
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| Registros recuperados : 31 | |
| 21. |  | FERRÃO, R. G.; FERRÃO, M. A. G.; FONSECA, A. F. A. da.; CRUZ, C. D.; CECON, P. R.; CRESCENCIO, P. C. S. Genetic divergence in clones of Coffea canephora variety conilon by different methods of multivariate analysis. In: 22nd International Conference on Coffee Science, ASIC 2008, Campinas, SP, Brazil, 14-19 September, 2008.| Tipo: Publicação em Anais de Congresso |
| Biblioteca(s): Biblioteca Rui Tendinha. |
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| 22. | | FERRÃO, L. F. V.; CAIXETA, E. T.; CRUZ, C. D.; SOUZA, F. de F.; FERRÃO, M. A. G.; ZAMBOLIM, Z.; SAKIYAMA, N. S. The effects of encoding data in diversity studies and the applicability of the weighting index approach for data analysis from different molecular markers. Plant Systematics and Evolution, New York v. 300, p.1649-1661, feb. 2014.| Tipo: Artigo em Periódico Indexado | Circulação/Nível: A - 1 |
| Biblioteca(s): Biblioteca Rui Tendinha. |
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| 23. | | FONSECA, A. F. A. da.; SEDIYAMA, T.; CRUZ, C. D.; SAKIYAMA, N. S.; FERRÃO, R. G.; FERRÃO, M. A. G.; BRAGANÇA, S. M. Discriminant analysis for the classification and clustering of robusta coffee genotypes. Crop Breeding and Applied Biotechnology, v. 4, n. 3, p. 285-289, 2004.| Tipo: Artigo em Periódico Indexado | Circulação/Nível: - - - |
| Biblioteca(s): Biblioteca Rui Tendinha. |
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| 24. | | FERRÃO, R. G.; FERRÃO, M. A. G.; FONSECA, A. F. A. da.; CRUZ, C. D.; CECON, P. R.; CARNEIRO, P. C. S.; FERREIRA, A.; SILVA, M. F. da. Correlações entre características de clones de café conilon. In: SIMPÓSIO DE PESQUISA DOS CAFÉS DO BRASIL, 5., 2007, Águas de Lindóia, SP. Anais... Brasília, DF: Embrapa Café, 2007. 5p.| Tipo: Publicação em Anais de Congresso |
| Biblioteca(s): Biblioteca Rui Tendinha. |
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| 25. | | TOMAZ, M. A.; FERRARI, R. B.; CRUZ, C. D.; MARTINEZ, H. E. P.; FONSECA, A. F. A. da.; SAKIYAMA, N. S. Crescimento de raiz e parte aérea de cafeeiros enxertados cultivados em vaso. Revista Ceres, Viçosa, v. 53, n. 308, p.507-512, 2006. p.507-512| Biblioteca(s): Biblioteca Rui Tendinha. |
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| 26. | | TOMAZ, M. A.; FERRARI, R. B.; CRUZ, C. D.; MARTINEZ, H. E. P.; FONSECA, A. F. A. da.; PEREIRA, A. A.; SAKIYAMA, N. S. Crescimento de raiz e parte aérea de plantas de cafeeiro enxertadas, cultivadas em vaso. In: SIMPÓSIO DE PESQUISA DOS CAFÉS DO BRASIL, 4., 2005, Londrina. Anais... Brasília, DF: Embrapa Café, 2005| Tipo: Publicação em Anais de Congresso |
| Biblioteca(s): Biblioteca Rui Tendinha. |
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| 27. | | FERREIRA, A.; CECON, P. R.; CRUZ, C. D.; FERRÃO, R. G.; SILVA, M. F. da; FONSECA, A. F. A. da.; FERRÃO, M. A. G. Prediction of selection gains in Coffea canephora based on factorial scores. Crop Breeding in Applied Biotechnology, Viçosa, MG v. 4, n. 3, p. 298-304, Sept. 2004.| Tipo: Artigo em Periódico Indexado | Circulação/Nível: - - - |
| Biblioteca(s): Biblioteca Rui Tendinha. |
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| 28. | | FONSECA, A. F. A. da.; SEDIYAMA, T.; CRUZ, C. D.; SAKIYAMA, N. S.; FERRÃO, R. G.; FERRÃO, M. A. G.; BRAGANÇA, S. M. Repeatability and number of harvests required for selection in robusta coffee. Crop Breeding in Applied Biotechnology, Viçosa, MG, v. 4, n. 3, p. 325-329, Sept. 2004| Tipo: Artigo em Periódico Indexado | Circulação/Nível: - - - |
| Biblioteca(s): Biblioteca Rui Tendinha. |
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| 29. | | FERREIRA, A.; CECON, P.R.; CRUZ, C.D.; FERRÃO, R. G.; SILVA, M.F.; FONSECA, A. F. A. da.; FERRÃO, R. G. Seleção simultânea de Coffea canephora por meio da combinação de análise de fatores e Ãndices de seleção. Pesquisa Agropecuária Brasileira, BrasÃlia v.40, n. 12, p. 1189-1195, dez. 2005.| Tipo: Artigo em Periódico Indexado | Circulação/Nível: - - - |
| Biblioteca(s): Biblioteca Rui Tendinha. |
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| 30. | | FERRÃO, R. G.; FERREIRA, A.; CRUZ, C. D.; CECON, P. R.; FERRÃO, M. A. G.; FONSECA, A. F. A. da.; CARNEIRO, P. C. de S.; SILVA, M. F. da Inter-trait relations for direct and indirect selection in coffee. Crop Breending and Applied Biotechnology, v8, n.4, p.271-278, 2008. 271-278| Tipo: Artigo em Periódico Indexado | Circulação/Nível: - - - |
| Biblioteca(s): Biblioteca Rui Tendinha. |
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| 31. | | FERRÃO, R. G.; CRUZ, C. D.; FERREIRA, A.; CECON, P. R.; FERRÃO, M. A. G.; FONSECA, A. F. A. da.; CARNEIRO, P. C de S.; SILVA, M. F. da. Parâmetros genéticos em café Conilon. Pesquisa Agropecuária Brasileira, Brasília, DF v.43, n.1, p.61-69, jan. 2008. 61-69| Tipo: Artigo em Periódico Indexado | Circulação/Nível: - - - |
| Biblioteca(s): Biblioteca Rui Tendinha. |
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| Registros recuperados : 31 | |
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