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Registro Completo |
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Biblioteca(s): |
Embrapa Café; Embrapa Rondônia; Embrapa Semiárido. |
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Data corrente: |
20/02/2014 |
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Data da última atualização: |
29/09/2020 |
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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.; FERRAO, M. A. G.; ZAMBOLIM, Z.; SAKIYAMA, N. S. |
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Afiliação: |
L. F. V. Ferrão, Universidade Federal de Viçosa; EVELINE TEIXEIRA CAIXETA MOURA, CNPCa; C. D. Cruz, Universidade Federal de Viçosa; FLAVIO DE FRANCA SOUZA, CPATSA; MARIA AMELIA GAVA FERRAO, SAPC; L. Zambolim, Universidade Federal de Viçosa; N. S. Sakiyama, Universidade Federal de Viçosa. |
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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, v. 300, n. 7, p. 1649-1661, 2014. |
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DOI: |
10.1007/s00606-014-09903 |
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Idioma: |
Inglês |
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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: |
F Plantas e Produtos de Origem Vegetal |
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URL: |
https://ainfo.cnptia.embrapa.br/digital/bitstream/item/216289/1/Ferrao-et-al.-2014-1.pdf
https://ainfo.cnptia.embrapa.br/digital/bitstream/item/121101/1/Flavio.cpatsa.2014.pdf
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Marc: |
LEADER 02768naa a2200337 a 4500
001 2125174
005 2020-09-29
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 $aFERRAO, M. A. G.
700 1 $aZAMBOLIM, Z.
700 1 $aSAKIYAMA, N. S.
773 $tPlant Systematics and Evolution$gv. 300, n. 7, p. 1649-1661, 2014.
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Registro original: |
Embrapa Café (CNPCa) |
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Registro Completo
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Biblioteca(s): |
Embrapa Agroindústria de Alimentos. |
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Data corrente: |
16/02/2012 |
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Data da última atualização: |
16/02/2012 |
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Tipo da produção científica: |
Artigo em Anais de Congresso |
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Autoria: |
MONTEIRO, F. S.; VIOTTO, L. A.; CABRAL, L. M. C. |
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Afiliação: |
F. SILVA MONTEIRO, UNICAMP; L. A. VIOTTO, UNICAMP; LOURDES MARIA CORREA CABRAL, CTAA. |
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Título: |
Evaluation of anthocyanin content on blackberry juice (Rubus spp.) processed by microfiltration. |
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Ano de publicação: |
2011 |
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Fonte/Imprenta: |
In: INTERNATIONAL CONGRESS ON ENGINEERING AND FOOD, 11., 2011, Athens. Food process engineering in a changing world: proceedings... Athens: National Technical University of Athens, 2011. |
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Idioma: |
Inglês |
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Palavras-Chave: |
Antocianinas; Suco de amora-preta; Tecnologia de membrana. |
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Thesagro: |
Clarificação. |
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Categoria do assunto: |
X Pesquisa, Tecnologia e Engenharia |
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URL: |
https://ainfo.cnptia.embrapa.br/digital/bitstream/item/54283/1/2011-113.pdf
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Marc: |
LEADER 00667nam a2200169 a 4500
001 1915903
005 2012-02-16
008 2011 bl uuuu u00u1 u #d
100 1 $aMONTEIRO, F. S.
245 $aEvaluation of anthocyanin content on blackberry juice (Rubus spp.) processed by microfiltration.
260 $aIn: INTERNATIONAL CONGRESS ON ENGINEERING AND FOOD, 11., 2011, Athens. Food process engineering in a changing world: proceedings... Athens: National Technical University of Athens$c2011
650 $aClarificação
653 $aAntocianinas
653 $aSuco de amora-preta
653 $aTecnologia de membrana
700 1 $aVIOTTO, L. A.
700 1 $aCABRAL, L. M. C.
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Registro original: |
Embrapa Agroindústria de Alimentos (CTAA) |
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