|
|
| Acesso ao texto completo restrito à biblioteca da Embrapa Arroz e Feijão. Para informações adicionais entre em contato com cnpaf.biblioteca@embrapa.br. |
Registro Completo |
Biblioteca(s): |
Embrapa Arroz e Feijão. |
Data corrente: |
03/03/2017 |
Data da última atualização: |
04/10/2021 |
Tipo da produção científica: |
Artigo em Periódico Indexado |
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. |
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. |
Título: |
SNP discovery in common bean by restriction-associated DNA (RAD) sequencing for genetic diversity and population structure analysis. |
Ano de publicação: |
2016 |
Fonte/Imprenta: |
Molecular Genetics and Genomics, v. 291, n. 3, p. 1277-1291, June 2016. |
ISSN: |
1617-4623 |
DOI: |
10.1007/s00438-016-1182-3 |
Idioma: |
Inglês |
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 |
Thesagro: |
DNA; Feijão; Phaseolus vulgaris. |
Thesaurus Nal: |
Beans; Fabaceae; Genetic variation; Haplotypes; Linkage disequilibrium; Single nucleotide polymorphism. |
Categoria do assunto: |
S Ciências Biológicas |
Marc: |
LEADER 03207naa a2200361 a 4500 001 2066055 005 2021-10-04 008 2016 bl uuuu u00u1 u #d 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.
Download
Esconder MarcMostrar Marc Completo |
Registro original: |
Embrapa Arroz e Feijão (CNPAF) |
|
Biblioteca |
ID |
Origem |
Tipo/Formato |
Classificação |
Cutter |
Registro |
Volume |
Status |
URL |
Voltar
|
|
Registros recuperados : 20 | |
2. | | MÜLLER, B. S. F.; PAPPAS JUNIOR, G. J.; PEREIRA, M.; GUIMARÃES, C. M.; ZAMBUZZI-CARVALHO, P. F.; SILVEIRA, R. D. D.; BRONDANI, C.; BRONDANI, R. P. V. Análise de genes diferencialmente expressos em Phaseolus vulgaris sob condições de déficit hídrico. In: CONGRESSO BRASILEIRO DE GENÉTICA, 56., 2010, Guarujá. Resumos... Ribeirão Preto: Sociedade Brasileira de Genética, 2010. p. 259.Tipo: Resumo em Anais de Congresso |
Biblioteca(s): Embrapa Arroz e Feijão. |
| |
3. | | MÜLLER, B. S. F.; GUIMARÃES, C. M.; SILVEIRA, R. D. D.; ABREU, E. M.; SANCHES, B. A.; ZAMBUZZI-CARVALHO, P. F.; BRONDANI, C.; BRONDANI, R. P. V. Desenvolvimento de banco ESTs para feijão comum enriquecido para genes de resposta ao estresse hídrico. In: SEMINÁRIO JOVENS TALENTOS, 4., 2010, Santo Antônio de Goiás. Resumos apresentados. Santo Antônio de Goiás: Embrapa Arroz e Feijão, 2010. p. 13. (Embrapa Arroz e Feijão. Documentos, 257).Tipo: Resumo em Anais de Congresso |
Biblioteca(s): Embrapa Arroz e Feijão. |
| |
4. | | AGUIAR, A. V. de; LOPES, M. T. G.; GAIOTTO, F. A.; BITTENCOURT, F.; DERVINIS, C.; MULLER, B. S. F.; SANTOS, R. F. dos; QUISEN, R. C.; KIRST, M. Transcriptome analysis of Euterpe edulis and identification of microsatellite markers. In: IUFRO GENOMICS & FOREST TREE GENETICS, 2016, Arcachon. Book of abstracts. [S.l.]: IUFRO, 2016. p. 90-91.Tipo: Resumo em Anais de Congresso |
Biblioteca(s): Embrapa Amazônia Ocidental. |
| |
5. | | AGUIAR, A. V. de; LOPES, M. T. G.; GAIOTTO, F. A.; BITTENCOURT, F.; DERVINIS, C.; MULLER, B. S. F.; SANTOS, R. F. dos; QUISEN, R. C.; KIRST, M. Transcriptome analysis of Euterpe edulis and identification of microsatellite markers. In: IUFRO GENOMICS & FOREST TREE GENETICS, 2016, Arcachon. Book of abstracts. [S.l.]: IUFRO, 2016. p. 90-91.Tipo: Resumo em Anais de Congresso |
Biblioteca(s): Embrapa Florestas. |
| |
6. | | MÜLLER, B. S. F.; NEVES, L. G.; RESENDE JÚNIOR, M. F. R.; MUÑOZ, P. R.; KIRST, M.; SANTOS, P. E. T. dos; PALUDZYSZYN FILHO, E.; GRATTAPAGLIA, D. Genomic selection for growth traits in Eucalyptus benthamii and E. pellita populations using a genome-wide Eucalyptus 60K SNPs chip. In: IUFRO TREE BIOTECHNOLOGY CONFERENCE, 2015, Florence. Forests: the importance to the planet and society. [S.l.]: IBBR: ICCOM, 2015.Tipo: Artigo em Anais de Congresso |
Biblioteca(s): Embrapa Recursos Genéticos e Biotecnologia. |
| |
7. | | MÜLLER, B. S. F.; NEVES, L. G.; RESENDE JÚNIOR, M. F. R.; MUÑOZ, P. R.; KIRST, M.; SANTOS, P. E. T. dos; PALUDZYSZYN FILHO, E.; GRATTAPAGLIA, D. Genomic selection for growth traits in Eucalyptus benthamii and E. pellita populations using a genome-wide Eucalyptus 60K SNPs chip. In: IUFRO TREE BIOTECHNOLOGY CONFERENCE, 2015, Florence. Forests: the importance to the planet and society. [S.l.]: IBBR: ICCOM, 2015. Pen-drive.Tipo: Artigo em Anais de Congresso |
Biblioteca(s): Embrapa Florestas. |
| |
8. | | ESTOPA, R. A.; PALUDETO, J. G. Z.; MÜLLER, B. S. F.; OLIVEIRA, R. A. de; AZEVEDO, C. F.; RESENDE, M. D. V. de; TAMBARUSSI, E. V.; GRATTAPAGLIA, D. Genomic prediction of growth and wood quality traits in Eucalyptus benthamii using different genomic models and variable SNP genotyping density. New Forests, 54, 2023.Tipo: Artigo em Periódico Indexado | Circulação/Nível: A - 2 |
Biblioteca(s): Embrapa Café; Embrapa Recursos Genéticos e Biotecnologia. |
| |
9. | | GRATTAPAGLIA, D.; SILVA JUNIOR, O. B. da; RESENDE, R. T.; CAPPA, E. P.; MÜLLER, B. S. F.; TAN, B.; ISIK, F.; RATCLIFFE, B.; EL-KASSABY, Y. A. Quantitative genetics and genomics converge to accelerate forest tree breeding. Frontiers in Plant Science, v. 9, article 1693, 2018. Na publicação: Orzenil B. Silva-Junior.Tipo: Artigo em Periódico Indexado | Circulação/Nível: A - 1 |
Biblioteca(s): Embrapa Recursos Genéticos e Biotecnologia. |
| |
10. | | MÜLLER, B. S. F.; PAPPAS JUNIOR, G. J.; COSTA, M. M. C.; PEREIRA, M.; GUIMARÃES, C. M.; ZAMBUZZI-CARVALHO, P. F.; SILVEIRA, R. D. D.; BRONDANI, C.; BRONDANI, R. P. V. Análise do transcriptoma de Phaseolus vulgaris em resposta ao déficit hídrico. In: CONGRESSO DE PESQUISA, ENSINO E EXTENSÃO, 7., 2010, Goiânia. Conhecimento e desenvolvimento sustentável: anais... Goiânia: UFG, 2010. p. 4248-4252. Conpeex 2010.Tipo: Artigo em Anais de Congresso |
Biblioteca(s): Embrapa Arroz e Feijão. |
| |
11. | | MÜLLER, B. S. F.; NEVES, L. G.; ALMEIDA FILHO, J. E. de; RESENDE JUNIOR, M. F. R.; MUÑOZ, P. R.; SANTOS, P. E. T. dos; PALUDZYSZYN FILHO, E.; KIRST, M.; GRATTAPAGLIA, D. Genomic prediction in contrast to a genome-wide association study in explaining heritable variation of complex growth traits in breeding populations of Eucalyptus. BMC Genomics, v. 18, article 524, 2017. 17 p.Tipo: Artigo em Periódico Indexado | Circulação/Nível: A - 1 |
Biblioteca(s): Embrapa Florestas; Embrapa Recursos Genéticos e Biotecnologia. |
| |
12. | | MULLER, B. S. F.; NEVES, L. G.; LIMA, B. M.; GARCIA, C. C.; MISSIAGGIA, A.; AGUIAR, A. M.; TAKAHASHI, E. K.; SILVA JUNIOR, O. B. da; KIRST, M.; GRATTAPAGLIA, D. Joint GWAS analysis for growth traits across four Eucalyptus breeding populations. In: PLANT AND ANIMAL GENOME CONFERENCE, 25., 2017, San Diego. [Abstracts...]. San Diego, CA: [s.n.], 2017. W338.Tipo: Resumo em Anais de Congresso |
Biblioteca(s): Embrapa Recursos Genéticos e Biotecnologia. |
| |
13. | | MULLER, B. S. F.; ALMEIDA FILHO, J. E. de; LIMA, B. M.; GARCIA, C. C.; MISSIAGGIA, A.; AGUIAR, A. M.; TAKAHASHI, E.; KIRST, M.; GEZAN, S. A.; SILVA JUNIOR, O. B. da; NEVES, L. G.; GRATTAPAGLIA, D. Independent and Joint-GWAS for growth traits in Eucalyptus by assembling genome-wide data for 3373 individuals across four breeding populations. The New phytologist, v. 221, n. 2, p. 818-833, 2019. Na publicação: Orzenil B. Silva-Junior.Tipo: Artigo em Periódico Indexado | Circulação/Nível: A - 1 |
Biblioteca(s): Embrapa Recursos Genéticos e Biotecnologia. |
| |
14. | | 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. SNP discovery in common bean by restriction-associated DNA (RAD) sequencing for genetic diversity and population structure analysis. Molecular Genetics and Genomics, v. 291, n. 3, p. 1277-1291, June 2016.Tipo: Artigo em Periódico Indexado | Circulação/Nível: B - 1 |
Biblioteca(s): Embrapa Arroz e Feijão. |
| |
15. | | MÜLLER, B. S. F.; PAPPAS JUNIOR, G. J.; VALDISSER, P. A. M. R.; COELHO, G. R. C.; MENEZES, I. P. P. de; ABREU, A. G.; BORBA, T. C. O.; SAKAMOTO, T.; BRONDANI, C.; BARROS, E. G.; VIANELLO, R. P. An operational SNP panel integrated to SSR marker for the assessment of genetic diversity and population structure of the common bean. Plant Molecular Biology Reporter, v. 33, n. 6, p. 1697-1711, Dec. 2015.Tipo: Artigo em Periódico Indexado | Circulação/Nível: A - 1 |
Biblioteca(s): Embrapa Arroz e Feijão. |
| |
16. | | LOPES, M. T. G.; GAIOTTO, F. A.; AGUIAR, A. V. de; FAHRENKROG, A.; BITTENCOURT, F.; DERVINIS, C.; MULLER, B. S. F.; SANTOS, R. F. dos; QUISEN, R. C.; KIRST, M. Next-generation transcriptome assembly of an Amazon palm (Euterpe precatoria). In: IUFRO GENOMICS & FOREST TREE GENETICS, 2016, Arcachon. Book of abstracts. [S.l.]: IUFRO, 2016. p. 90.Tipo: Resumo em Anais de Congresso |
Biblioteca(s): Embrapa Amazônia Ocidental. |
| |
17. | | LOPES, M. T. G.; GAIOTTO, F. A.; AGUIAR, A. V. de; FAHRENKROG, A.; BITTENCOURT, F.; DERVINIS, C.; MULLER, B. S. F.; SANTOS, R. F. dos; QUISEN, R. C.; KIRST, M. Next-generation transcriptome assembly of an Amazon palm (Euterpe precatoria). In: IUFRO GENOMICS & FOREST TREE GENETICS, 2016, Arcachon. Book of abstracts. [S.l.]: IUFRO, 2016. p. 90.Tipo: Resumo em Anais de Congresso |
Biblioteca(s): Embrapa Florestas. |
| |
18. | | LOPES, M. T. G.; AGUIAR, A. V. de; GAIOTTO, F. A.; FAHRENKROG, A.; BITTENCOURT, F.; DERVINIS, C.; MÜLLER, B. S. F.; SANTOS, R. F. dos; QUISEN, R. C.; KIRST, M. Next generation transcriptome assembly for Euterpe oleracea. In: GLOBAL CONFERENCE ON PLANT SCIENCE AND MOLECULAR BIOLOGY, 2., 2018, Rome. Accentuate innovations and emerging novel research in plant sciences: book of abstracts. Rome: 2018. p. 94.Tipo: Resumo em Anais de Congresso |
Biblioteca(s): Embrapa Florestas. |
| |
19. | | VALDISSER, P. A. M. R.; PEREIRA, W. J.; ALMEIDA FILHO, J. E.; MÜLLER, B. S. F.; COELHO, G. R. C.; MENEZES, I. P. P. de; VIANNA, J. P. G.; ZUCCHI, M. I.; LANNA, A. C.; COELHO, A. S. G.; OLIVEIRA, J. P. de; MORAES, A. da C.; BRONDANI, C.; VIANELLO, R. P. In-depth genome characterization of a Brazilian common bean core collection using DArTseq high-density SNP genotyping. BMC Genomics, v. 18, Article 423, 30 mai. 2017.Tipo: Artigo em Periódico Indexado | Circulação/Nível: A - 1 |
Biblioteca(s): Embrapa Arroz e Feijão. |
| |
20. | | VALDISSER, P. A. M. R.; MÜLLER, B. S. F.; ALMEIDA FILHO, J. E. de; MORAIS JÚNIOR, O. P.; GUIMARÃES, C. M.; BORBA, T. C. O.; SOUZA, I. P. de; ZUCCHI, M. I.; NEVES, L. G.; COELHO, A. S. G.; BRONDANI, C.; VIANELLO, R. P. Genome-wide association studies detect multiple QTLs for productivity in mesoamerican diversity panel of common bean under drought stress. Frontiers in Plant Science, v. 11, 574674, Nov. 2020.Tipo: Artigo em Periódico Indexado | Circulação/Nível: A - 1 |
Biblioteca(s): Embrapa Arroz e Feijão. |
| |
Registros recuperados : 20 | |
|
Nenhum registro encontrado para a expressão de busca informada. |
|
|