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 | Acesso ao texto completo restrito à biblioteca da Embrapa Arroz e Feijão. Para informações adicionais entre em contato com cnpaf.biblioteca@embrapa.br. |
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Registro Completo |
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Biblioteca(s): |
Embrapa Arroz e Feijão. |
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Data corrente: |
03/03/2017 |
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Data da última atualização: |
04/10/2021 |
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Tipo da produção científica: |
Artigo em Periódico Indexado |
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Autoria: |
VALDISSER, P. A. M. R.; PAPPAS JUNIOR, G. J.; MENEZES, I. P. P. de; MÜLLER, B. S. F.; PEREIRA, W. J.; NARCISO, M. G.; BRONDANI, C.; SOUZA, T. L. P. O.; BORBA, T. C. O.; VIANELLO, R. P. |
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Afiliação: |
PAULA ARIELLE M RIBEIRO VALDISSER, CNPAF; GEORGIOS J. PAPPAS JUNIOR, UNB; IVANDILSON P. P. DE MENEZES, INSTITUTO FEDERAL GOIANO, Urutaí-GO; BARBARA S. F. MULLER, UNB; WENDELL J. PEREIRA, UFG; MARCELO GONCALVES NARCISO, CNPAF; CLAUDIO BRONDANI, CNPAF; THIAGO LIVIO PESSOA OLIV DE SOUZA, CNPAF; TEREZA CRISTINA DE OLIVEIRA BORBA, CNPAF; ROSANA PEREIRA VIANELLO, CNPAF. |
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Título: |
SNP discovery in common bean by restriction-associated DNA (RAD) sequencing for genetic diversity and population structure analysis. |
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Ano de publicação: |
2016 |
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Fonte/Imprenta: |
Molecular Genetics and Genomics, v. 291, n. 3, p. 1277-1291, June 2016. |
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ISSN: |
1617-4623 |
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DOI: |
10.1007/s00438-016-1182-3 |
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Idioma: |
Inglês |
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Conteúdo: |
Researchers have made great advances into the development and application of genomic approaches for common beans, creating opportunities to driving more real and applicable strategies for sustainable management of the genetic resource towards plant breeding. This work provides useful polymorphic single-nucleotide polymorphisms (SNPs) for high-throughput common bean genotyping developed by RAD (restriction site-associated DNA) sequencing. The RAD tags were generated from DNA pooled from 12 common bean genotypes, including breeding lines of different gene pools and market classes. The aligned sequences identified 23,748 putative RAD-SNPs, of which 3357 were adequate for genotyping; 1032 RADSNPs with the highest ADT (assay design tool) score are presented in this article. The RAD-SNPs were structurally annotated in different coding (47.00 %) and non-coding (53.00 %) sequence components of genes. A subset of 384 RAD-SNPs with broad genome distribution was used to genotype a diverse panel of 95 common bean germplasms and revealed a successful amplification rate of 96.6 %, showing 73 % of polymorphic SNPs within the Andean group and 83 % in the Mesoamerican group. A slightly increased He (0.161, n = 21) value was estimated for the Andean gene pool, compared to the Mesoamerican group (0.156, n = 74). For the linkage disequilibrium (LD) analysis, from a group of 580 SNPs (289 RAD-SNPs and 291 BARC-SNPs) genotyped for the same set of genotypes, 70.2 % were in LD, decreasing to 0.10 %in the Andean group and 0.77 % in the Mesoamerican group. Haplotype patterns spanning 310 Mb of the genome (60 %) were characterized in samples from different origins. However, the haplotype frameworks were under-represented for the Andean (7.85 %) and Mesoamerican (5.55 %) gene pools separately. In conclusion, RAD sequencing allowed the discovery of hundreds of useful SNPs for broad genetic analysis of common bean germplasm. From now, this approach provides an excellent panel of molecular tools for whole genome analysis, allowing integrating and better exploring the common bean breeding practices. MenosResearchers have made great advances into the development and application of genomic approaches for common beans, creating opportunities to driving more real and applicable strategies for sustainable management of the genetic resource towards plant breeding. This work provides useful polymorphic single-nucleotide polymorphisms (SNPs) for high-throughput common bean genotyping developed by RAD (restriction site-associated DNA) sequencing. The RAD tags were generated from DNA pooled from 12 common bean genotypes, including breeding lines of different gene pools and market classes. The aligned sequences identified 23,748 putative RAD-SNPs, of which 3357 were adequate for genotyping; 1032 RADSNPs with the highest ADT (assay design tool) score are presented in this article. The RAD-SNPs were structurally annotated in different coding (47.00 %) and non-coding (53.00 %) sequence components of genes. A subset of 384 RAD-SNPs with broad genome distribution was used to genotype a diverse panel of 95 common bean germplasms and revealed a successful amplification rate of 96.6 %, showing 73 % of polymorphic SNPs within the Andean group and 83 % in the Mesoamerican group. A slightly increased He (0.161, n = 21) value was estimated for the Andean gene pool, compared to the Mesoamerican group (0.156, n = 74). For the linkage disequilibrium (LD) analysis, from a group of 580 SNPs (289 RAD-SNPs and 291 BARC-SNPs) genotyped for the same set of genotypes, 70.2 % were in LD, decreasing to 0.10 %... Mostrar Tudo |
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Thesagro: |
DNA; Feijão; Phaseolus vulgaris. |
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Thesaurus Nal: |
Beans; Fabaceae; Genetic variation; Haplotypes; Linkage disequilibrium; Single nucleotide polymorphism. |
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Categoria do assunto: |
S Ciências Biológicas |
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Marc: |
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022 $a1617-4623
024 7 $a10.1007/s00438-016-1182-3$2DOI
100 1 $aVALDISSER, P. A. M. R.
245 $aSNP discovery in common bean by restriction-associated DNA (RAD) sequencing for genetic diversity and population structure analysis.$h[electronic resource]
260 $c2016
520 $aResearchers have made great advances into the development and application of genomic approaches for common beans, creating opportunities to driving more real and applicable strategies for sustainable management of the genetic resource towards plant breeding. This work provides useful polymorphic single-nucleotide polymorphisms (SNPs) for high-throughput common bean genotyping developed by RAD (restriction site-associated DNA) sequencing. The RAD tags were generated from DNA pooled from 12 common bean genotypes, including breeding lines of different gene pools and market classes. The aligned sequences identified 23,748 putative RAD-SNPs, of which 3357 were adequate for genotyping; 1032 RADSNPs with the highest ADT (assay design tool) score are presented in this article. The RAD-SNPs were structurally annotated in different coding (47.00 %) and non-coding (53.00 %) sequence components of genes. A subset of 384 RAD-SNPs with broad genome distribution was used to genotype a diverse panel of 95 common bean germplasms and revealed a successful amplification rate of 96.6 %, showing 73 % of polymorphic SNPs within the Andean group and 83 % in the Mesoamerican group. A slightly increased He (0.161, n = 21) value was estimated for the Andean gene pool, compared to the Mesoamerican group (0.156, n = 74). For the linkage disequilibrium (LD) analysis, from a group of 580 SNPs (289 RAD-SNPs and 291 BARC-SNPs) genotyped for the same set of genotypes, 70.2 % were in LD, decreasing to 0.10 %in the Andean group and 0.77 % in the Mesoamerican group. Haplotype patterns spanning 310 Mb of the genome (60 %) were characterized in samples from different origins. However, the haplotype frameworks were under-represented for the Andean (7.85 %) and Mesoamerican (5.55 %) gene pools separately. In conclusion, RAD sequencing allowed the discovery of hundreds of useful SNPs for broad genetic analysis of common bean germplasm. From now, this approach provides an excellent panel of molecular tools for whole genome analysis, allowing integrating and better exploring the common bean breeding practices.
650 $aBeans
650 $aFabaceae
650 $aGenetic variation
650 $aHaplotypes
650 $aLinkage disequilibrium
650 $aSingle nucleotide polymorphism
650 $aDNA
650 $aFeijão
650 $aPhaseolus vulgaris
700 1 $aPAPPAS JUNIOR, G. J.
700 1 $aMENEZES, I. P. P. de
700 1 $aMÜLLER, B. S. F.
700 1 $aPEREIRA, W. J.
700 1 $aNARCISO, M. G.
700 1 $aBRONDANI, C.
700 1 $aSOUZA, T. L. P. O.
700 1 $aBORBA, T. C. O.
700 1 $aVIANELLO, R. P.
773 $tMolecular Genetics and Genomics$gv. 291, n. 3, p. 1277-1291, June 2016.
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Registro original: |
Embrapa Arroz e Feijão (CNPAF) |
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| Registros recuperados : 86 | |
| 4. |  | FRONZA, V.; ARANTES, N. E.; MELO, C. L. P.; ZITO, R. K.; ZANETTI, A. L. Extensão de indicação da cultivar de soja BRS Favorita RR para os estados de São Paulo (Região Norte) e de Mato Grosso do Sul. In: REUNIÃO DE PESQUISA DE SOJA DA REGIÃO CENTRAL DO BRASIL, 32., 2011, São Pedro, SP. Resumos expandidos... Londrina: Embrapa Soja, 2011. p. 278-279. Editado por Adilson de Oliveira Junior, Odilon Ferreira Saraiva, Regina Maria Villas Bôas de Campos Leite.| Tipo: Artigo em Anais de Congresso |
| Biblioteca(s): Embrapa Soja. |
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| 11. | | FOLONI, J. S. S.; HENNING, F. A.; MERTZ-HENNING, L. M.; PIPOLO, A. E.; MELO, C. L. P. de. Lactofem e etefom como reguladores de crescimento de cultivares de soja. In: REUNIÃO DE PESQUISA DE SOJA, 35., Londrina, 2016. Resumos expandidos... Londrina: Embrapa Soja, 2016. p. 42-45. (Embrapa Soja. Documentos, 372).| Tipo: Artigo em Anais de Congresso |
| Biblioteca(s): Embrapa Soja. |
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| 12. | | OLIVEIRA, A. de; BALBINOT JUNIOR, A. A.; MELO, C. L. P. de; SEIXAS, C. D. S.; LIMA, D. de; FOLONI, J. S. S.; NEUMAIER, N.; ABDELNOOR, R. Abortamento de vagens da soja tem origem desconhecida e preocupa produtores. Campo & Negócios, Grãos, Uberlândia, v. 16, n. 180, p. 30-31, mar. 2018.| Tipo: Artigo de Divulgação na Mídia |
| Biblioteca(s): Embrapa Soja. |
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| 13. | | CARANHATO, A. L. H.; BARBOSA, D. de A.; FUHRMANN, M. B.; MARINHO, J. P.; MARIN, S. R. R.; MELO, C. L. P. de; NEPOMUCENO, A. L. Avaliação da segregação de híbridos de soja com uma linhagem geneticamente modificada tolerante à seca. In: CONGRESSO BRASILEIRO DE MELHORAMENTO DE PLANTAS, 9., 2017, Foz do Iguaçu. Melhoramento de plantas: projetando o futuro: anais. Maringá: SBMP, 2017. v. 1. E-book. p. 160.| Tipo: Resumo em Anais de Congresso |
| Biblioteca(s): Embrapa Soja. |
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| 16. | | DI PRADO, P.; FARIA, L.; ALMEIDA, V.; MELO, C.; COSTA, A.; CARVALHO, H.; MARTINS, M.; PEREIRA FILHO, I.; SOUZA, T.; MELO, P.; MELO, L.; PEREIRA, H. Cultivares de feijoeiro-comum com altos teores de ferro, zinco e proteína. In: CONGRESSO BRASILEIRO DE MELHORAMENTO DE PLANTAS, 9., 2017, Foz do Iguaçu. Melhoramento de plantas: projetando o futuro. Foz do Iguaçu: SBMP, 2017. p. 243.| Tipo: Resumo em Anais de Congresso |
| Biblioteca(s): Embrapa Arroz e Feijão; Embrapa Milho e Sorgo; Embrapa Soja. |
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| 17. | | LIMA, D. de; MOREIRA, J. U. V.; MELO, C. L. P. de; SILVA FILHO, P. M. da; PIPOLO, A. E.; FOLONI, J. S. S. Cultivares. In: OLIVEIRA, A. B. de; LEITE, R. M. V. B. de C.; SEIXAS, C. D. S.; KERN, H. S. Soja: o produtor pergunta, a Embrapa responde. Brasília, DF: Embrapa, 2019. (Coleção 500 perguntas, 500 respostas). p. 59-69.| Tipo: Capítulo em Livro Técnico-Científico |
| Biblioteca(s): Embrapa Soja. |
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| 18. | | OLIVEIRA, M. F. de; DALL'AGNOL, A.; MOREIRA, J. U. V.; PIPOLO, A. E.; MELO, C. L. P. de; ARIAS, C. A. A. Genética e melhoramento. In: OLIVEIRA, A. B. de; LEITE, R. M. V. B. de C.; SEIXAS, C. D. S.; KERN, H. S. Soja: o produtor pergunta, a Embrapa responde. Brasília, DF: Embrapa, 2019. (Coleção 500 perguntas, 500 respostas). p. 49-57.| Tipo: Capítulo em Livro Técnico-Científico |
| Biblioteca(s): Embrapa Soja. |
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| 19. | | CORRÊA, A. M.; PEREIRA, M. I. S.; ABREU, H. K. A. de; SHARON, R.; MELO, C. L. P. de; ITO, M. A.; TEODORO, P. E.; BHERING, L. L. Selection of common bean genotypes for the Cerrado/Pantanal ecotone via mixed models and multivariate analysis. Genetics and Molecular Research, v. 15, n. 4, 9 p., Oct. 2016.| Tipo: Artigo em Periódico Indexado | Circulação/Nível: A - 1 |
| Biblioteca(s): Embrapa Soja. |
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| 20. | | SILVA JUNIOR, O. B.; SÁ, M. E. L.; PESSOA-FILHO, M.; MELO, C. L. P. de; ARIAS, C. A. A.; GRATTAPAGLIA, D.; RECH, E. L. Reference grade genome sequence assembly for a Brazilian soybean germplasm. In: CONGRESSO BRASILEIRO DE MELHORAMENTO DE PLANTAS, 10., 2019, Águas de Lindóia. Tema: Pesquisa e Inovação para o Desenvolvimento da Sociedade: resumos dos trabalhos. [S.l.]: Sociedade Brasileira de Melhoramento de Plantas, 2019. p. 64| Tipo: Resumo em Anais de Congresso |
| Biblioteca(s): Embrapa Soja. |
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| Registros recuperados : 86 | |
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