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Registro Completo |
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Biblioteca(s): |
Embrapa Arroz e Feijão. |
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Data corrente: |
26/09/2017 |
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Data da última atualização: |
31/10/2017 |
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Tipo da produção científica: |
Artigo em Periódico Indexado |
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Autoria: |
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. |
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Afiliação: |
PAULA ARIELLE M RIBEIRO VALDISSER, CNPAF; WENDELL J. PEREIRA, UNB; JANEO E. ALMEIDA FILHO, Universidade Estadual do Norte Fluminense Darcy Ribeiro, Rio de Janeiro-; BARBARA S. F. MULLER, UNB; GESIMARIA RIBEIRO COSTA COELHO, CNPAF; IVANDILSON P. P. DE MENEZES, INSTITUTO FEDERAL GOIANO, Urutaí-GO; JOÃO P. G. VIANNA, UNICAMP; MARIA I. ZUCCHI, UNICAMP; ANNA CRISTINA LANNA, CNPAF; ALEXANDRE S. G. COELHO, UFG; JAISON PEREIRA DE OLIVEIRA, CNPAF; ALESSANDRA DA CUNHA MORAES, CNPAF; CLAUDIO BRONDANI, CNPAF; ROSANA PEREIRA VIANELLO, CNPAF. |
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Título: |
In-depth genome characterization of a Brazilian common bean core collection using DArTseq high-density SNP genotyping. |
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Ano de publicação: |
2017 |
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Fonte/Imprenta: |
BMC Genomics, v. 18, Article 423, 30 mai. 2017. |
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DOI: |
10.1186/s12864-017-3805-4 |
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Idioma: |
Inglês |
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Conteúdo: |
Background: Common bean is a legume of social and nutritional importance as a food crop, cultivated worldwide especially in developing countries, accounting for an important source of income for small farmers. The availability of the complete sequences of the two common bean genomes has dramatically accelerated and has enabled new experimental strategies to be applied for genetic research. DArTseq has been widely used as a method of SNP genotyping allowing comprehensive genome coverage with genetic applications in common bean breeding programs. Results: Using this technology, 6286 SNPs (1 SNP/86.5 Kbp) were genotyped in genic (43.3%) and non-genic regions (56. 7%). Genetic subdivision associated to the common bean gene pools (K = 2) and related to grain types (K = 3 and K = 5) were reported. A total of 83% and 91% of all SNPs were polymorphic within the Andean and Mesoamerican gene pools, respectively, and 26% were able to differentiate the gene pools. Genetic diversity analysis revealed an average HE of 0.442 for the whole collection, 0.102 for Andean and 0.168 for Mesoamerican gene pools (FST = 0.747 between gene pools), 0. 440 for the group of cultivars and lines, and 0.448 for the group of landrace accessions (FST = 0.002 between cultivar/line and landrace groups). The SNP effects were predicted with predominance of impact on non-coding regions (77.8%). SNPs under selection were identified within gene pools comparing landrace and cultivar/line germplasm groups (Andean: 18; Mesoamerican: 69) and between the gene pools (59 SNPs), predominantly on chromosomes 1 and 9. The LD extension estimate corrected for population structure and relatedness (r2 SV) was~88 kbp, while for the Andean gene pool was~395 kbp, and for the Mesoamerican was ~ 130 kbp. Conclusions: For common bean, DArTseq provides an efficient and cost-effective strategy of generating SNPs for large-scale genome-wide studies. The DArTseq resulted in an operational panel of 560 polymorphic SNPs in linkage equilibrium, providing high genome coverage. This SNP set could be used in genotyping platforms with many applications, such as population genetics, phylogeny relation between common bean varieties and support to molecular breeding approaches. MenosBackground: Common bean is a legume of social and nutritional importance as a food crop, cultivated worldwide especially in developing countries, accounting for an important source of income for small farmers. The availability of the complete sequences of the two common bean genomes has dramatically accelerated and has enabled new experimental strategies to be applied for genetic research. DArTseq has been widely used as a method of SNP genotyping allowing comprehensive genome coverage with genetic applications in common bean breeding programs. Results: Using this technology, 6286 SNPs (1 SNP/86.5 Kbp) were genotyped in genic (43.3%) and non-genic regions (56. 7%). Genetic subdivision associated to the common bean gene pools (K = 2) and related to grain types (K = 3 and K = 5) were reported. A total of 83% and 91% of all SNPs were polymorphic within the Andean and Mesoamerican gene pools, respectively, and 26% were able to differentiate the gene pools. Genetic diversity analysis revealed an average HE of 0.442 for the whole collection, 0.102 for Andean and 0.168 for Mesoamerican gene pools (FST = 0.747 between gene pools), 0. 440 for the group of cultivars and lines, and 0.448 for the group of landrace accessions (FST = 0.002 between cultivar/line and landrace groups). The SNP effects were predicted with predominance of impact on non-coding regions (77.8%). SNPs under selection were identified within gene pools comparing landrace and cultivar/line germplasm groups (Andean: 1... Mostrar Tudo |
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Palavras-Chave: |
Core collection; Diversity analysis; Diversity arrays technology; Loci under selection. |
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Thesagro: |
Feijão; Genética vegetal; Phaseolus vulgaris. |
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Thesaurus Nal: |
Genotyping; Linkage disequilibrium; Single nucleotide polymorphism. |
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Categoria do assunto: |
S Ciências Biológicas |
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URL: |
https://ainfo.cnptia.embrapa.br/digital/bitstream/item/164318/1/CNPAF-2017-bmc.pdf
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Marc: |
LEADER 03492naa a2200409 a 4500
001 2076278
005 2017-10-31
008 2017 bl uuuu u00u1 u #d
024 7 $a10.1186/s12864-017-3805-4$2DOI
100 1 $aVALDISSER, P. A. M. R.
245 $aIn-depth genome characterization of a Brazilian common bean core collection using DArTseq high-density SNP genotyping.$h[electronic resource]
260 $c2017
520 $aBackground: Common bean is a legume of social and nutritional importance as a food crop, cultivated worldwide especially in developing countries, accounting for an important source of income for small farmers. The availability of the complete sequences of the two common bean genomes has dramatically accelerated and has enabled new experimental strategies to be applied for genetic research. DArTseq has been widely used as a method of SNP genotyping allowing comprehensive genome coverage with genetic applications in common bean breeding programs. Results: Using this technology, 6286 SNPs (1 SNP/86.5 Kbp) were genotyped in genic (43.3%) and non-genic regions (56. 7%). Genetic subdivision associated to the common bean gene pools (K = 2) and related to grain types (K = 3 and K = 5) were reported. A total of 83% and 91% of all SNPs were polymorphic within the Andean and Mesoamerican gene pools, respectively, and 26% were able to differentiate the gene pools. Genetic diversity analysis revealed an average HE of 0.442 for the whole collection, 0.102 for Andean and 0.168 for Mesoamerican gene pools (FST = 0.747 between gene pools), 0. 440 for the group of cultivars and lines, and 0.448 for the group of landrace accessions (FST = 0.002 between cultivar/line and landrace groups). The SNP effects were predicted with predominance of impact on non-coding regions (77.8%). SNPs under selection were identified within gene pools comparing landrace and cultivar/line germplasm groups (Andean: 18; Mesoamerican: 69) and between the gene pools (59 SNPs), predominantly on chromosomes 1 and 9. The LD extension estimate corrected for population structure and relatedness (r2 SV) was~88 kbp, while for the Andean gene pool was~395 kbp, and for the Mesoamerican was ~ 130 kbp. Conclusions: For common bean, DArTseq provides an efficient and cost-effective strategy of generating SNPs for large-scale genome-wide studies. The DArTseq resulted in an operational panel of 560 polymorphic SNPs in linkage equilibrium, providing high genome coverage. This SNP set could be used in genotyping platforms with many applications, such as population genetics, phylogeny relation between common bean varieties and support to molecular breeding approaches.
650 $aGenotyping
650 $aLinkage disequilibrium
650 $aSingle nucleotide polymorphism
650 $aFeijão
650 $aGenética vegetal
650 $aPhaseolus vulgaris
653 $aCore collection
653 $aDiversity analysis
653 $aDiversity arrays technology
653 $aLoci under selection
700 1 $aPEREIRA, W. J.
700 1 $aALMEIDA FILHO, J. E.
700 1 $aMÜLLER, B. S. F.
700 1 $aCOELHO, G. R. C.
700 1 $aMENEZES, I. P. P. de
700 1 $aVIANNA, J. P. G.
700 1 $aZUCCHI, M. I.
700 1 $aLANNA, A. C.
700 1 $aCOELHO, A. S. G.
700 1 $aOLIVEIRA, J. P. de
700 1 $aMORAES, A. da C.
700 1 $aBRONDANI, C.
700 1 $aVIANELLO, R. P.
773 $tBMC Genomics$gv. 18, Article 423, 30 mai. 2017.
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Embrapa Arroz e Feijão (CNPAF) |
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Biblioteca(s): |
Embrapa Recursos Genéticos e Biotecnologia. |
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Data corrente: |
11/12/2020 |
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Data da última atualização: |
03/06/2024 |
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Tipo da produção científica: |
Autoria/Organização/Edição de Livros |
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Autoria: |
CROUZEILLES, R.; RODRIGUES, R. R.; STRASSBURG, B. B. N.; BRANCALION, P. H. S.; GARCIA, L. C.; CHAVES, R. B.; CALMON, M.; CAMPOS, M. M. de; MACEDO, M.; LUI, G. H.; SCARAMUZZA, C. A. de M.; RIBEIRO, S.; PUGLIESE, L.; JUNQUEIRA, R. G. P.; PIÑA-RODRIGUES, F.; JAKOVAC, C.; MORAES, L. F. D. de; VIEIRA, D. L. M.; SAMPAIO, A. B.; GANADE, G.; OVERBECK, G. E.; ADAMS, C.; MELO, F.; FERREIRA, J. N.; MAIER, T.; OLIVEIRA, M.; SPOSITO, T. C.; METZKER, T.; TEDESCO, A. M.; BALDERI, A. P.; BALDERI, F.; PRUDENTE, C. M.; WIENS, I. K.; OLIVEIRA, A.; GUIMARÃES, T. M. G.; MARTINS, N. de M.; SANTIAMI, E.; MEDINA, A.; GARCIA, E.; BENINI, R.; SCHIMITT, J.; VIEIRA, R. M.; FERRARINI, O. G.; TAVARES, R. N. |
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Afiliação: |
Renato Crouzeilles, Instituto Internacional para Sustentabilidade / PUC-Rio / UFRJ; Ricardo Ribeiro Rodrigues, LERF/LCB, Escola superior de Agricultura Luiz de Queiroz/ESALQ / USP; Bernardo B. N. Strassburg, Instituto Internacional para Sustentabilidade / PUC-Rio / UFRJ; Pedro Henrique Santin Brancalion, ESALQ / USP; Letícia Couto Garcia, UFMS; Rafael Barreiro Chaves, Secretaria de Infraestrutura e Meio Ambiente/São Paulo; Miguel Calmon, World Resource Institute – Brasil; Marina Merlo Sampaio de Campos, The Nature Conservancy; Marcio Macedo, BNDES; Gabriel Henrique Lui, Instituto Chico Mendes de Conservação da Biodiversidade/ Ministério do Meio Ambiente; Carlos Alberto de Mattos Scaramuzza, Flexus Consultoria em Biodiversidade e Sustentabilidade; Severino Ribeiro, Centro de Pesquisas Ambientais do Nordeste / Pacto pela Restauração da Mata Atlântica; Ludmila Pugliese, ESALQ/USP / Pacto pela Restauração da Mata Atlântica; Rodrigo Gravina P. Junqueira, Instituto Socioambiental; Fatima Piña-Rodrigues, UFSCAR; Ana Catarina Jakovac, Instituto Internacional para Sustentabilidade Wageningen University; LUIZ FERNANDO DUARTE DE MORAES, CNPAB; DANIEL LUIS MASCIA VIEIRA, Cenargen; Alexandre Bonesso Sampaio, Instituto Chico Mendes de Conservação da Biodiversidade/ Ministério do Meio Ambiente; Gislene Ganade, UFRN; Gerhard E. Overbeck, UFRS; Cristina Adams, USP; Felipe Melo, UFPE; JOICE NUNES FERREIRA, CPATU; Thais Maier, The Nature Conservancy; Mariana Oliveira, World Resource Institute – Brasil; Tereza Cristina Sposito, Instituto Bem Ambiental; Thiago Metzker, Instituto Bem Ambiental; Anazélia M. Tedesco, The University of Queensland; Ana Paula Balderi, Instituto Copaíba; Flavia Balderi, Instituto Copaíba; Claudia Mascagni Prudente, Instituto Auá; Ivy K. Wiens, Instituto Socioambiental; Andrea Oliveira, Instituto Çarakura; Tatiana Motta Grilo Guimarães, Projetos Corredores Vale do Paraíba; Narliane de M. Martins, Instituto Federal do Paraná; Edson Santiami, ESALQ/USP; Aretha Medina, Fundação SOS Mata Atlântica; Edenise Garcia, The Nature Conservancy; Rubens Benini, The Nature Conservancy; Jair Schimitt, Departamento de Florestas e Combate ao Desmatamento/ Secretaria de Mudança do Clima e Floresta; Rodrigo M. Vieira, Ministério do Meio Ambiente; Otavio G. Ferrarini, Ministério do Meio Ambiente; Roberto N. Tavares. |
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Título: |
Relatório temático sobre restauração de paisagens e ecossistemas. |
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Ano de publicação: |
2019 |
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Fonte/Imprenta: |
São Carlos, SP: Editora Cubo, 2019. |
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Páginas: |
76 p. |
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ISBN: |
978-85-60064-91-5 |
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Idioma: |
Português |
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Palavras-Chave: |
Paisagem; Restauração. |
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Thesagro: |
Biodiversidade; Ecossistema; Meio Ambiente; Política Ambiental. |
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Categoria do assunto: |
P Recursos Naturais, Ciências Ambientais e da Terra |
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URL: |
https://ainfo.cnptia.embrapa.br/digital/bitstream/item/218369/1/Relatorio-Restauracao-VF.pdf
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Marc: |
LEADER 01869nam a2200709 a 4500
001 2127981
005 2024-06-03
008 2019 bl uuuu 00u1 u #d
020 $a978-85-60064-91-5
100 1 $aCROUZEILLES, R.
245 $aRelatório temático sobre restauração de paisagens e ecossistemas.$h[electronic resource]
260 $aSão Carlos, SP: Editora Cubo$c2019
300 $a76 p.
650 $aBiodiversidade
650 $aEcossistema
650 $aMeio Ambiente
650 $aPolítica Ambiental
653 $aPaisagem
653 $aRestauração
700 1 $aRODRIGUES, R. R.
700 1 $aSTRASSBURG, B. B. N.
700 1 $aBRANCALION, P. H. S.
700 1 $aGARCIA, L. C.
700 1 $aCHAVES, R. B.
700 1 $aCALMON, M.
700 1 $aCAMPOS, M. M. de
700 1 $aMACEDO, M.
700 1 $aLUI, G. H.
700 1 $aSCARAMUZZA, C. A. de M.
700 1 $aRIBEIRO, S.
700 1 $aPUGLIESE, L.
700 1 $aJUNQUEIRA, R. G. P.
700 1 $aPIÑA-RODRIGUES, F.
700 1 $aJAKOVAC, C.
700 1 $aMORAES, L. F. D. de
700 1 $aVIEIRA, D. L. M.
700 1 $aSAMPAIO, A. B.
700 1 $aGANADE, G.
700 1 $aOVERBECK, G. E.
700 1 $aADAMS, C.
700 1 $aMELO, F.
700 1 $aFERREIRA, J. N.
700 1 $aMAIER, T.
700 1 $aOLIVEIRA, M.
700 1 $aSPOSITO, T. C.
700 1 $aMETZKER, T.
700 1 $aTEDESCO, A. M.
700 1 $aBALDERI, A. P.
700 1 $aBALDERI, F.
700 1 $aPRUDENTE, C. M.
700 1 $aWIENS, I. K.
700 1 $aOLIVEIRA, A.
700 1 $aGUIMARÃES, T. M. G.
700 1 $aMARTINS, N. de M.
700 1 $aSANTIAMI, E.
700 1 $aMEDINA, A.
700 1 $aGARCIA, E.
700 1 $aBENINI, R.
700 1 $aSCHIMITT, J.
700 1 $aVIEIRA, R. M.
700 1 $aFERRARINI, O. G.
700 1 $aTAVARES, R. N.
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