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Biblioteca(s): |
Embrapa Recursos Genéticos e Biotecnologia. |
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Data corrente: |
19/02/2013 |
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Data da última atualização: |
06/03/2023 |
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Tipo da produção científica: |
Artigo em Periódico Indexado |
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Autoria: |
PETROLI, C. D.; SANSALONI, C. P; CARLING, J.; STEANE, D. A.; VAILLANCOURT, R. E.; MYBURG, A. M.; SILVA JUNIOR, O. B. da; PAPPAS JUNIOR, G. J.; KILIAN, A.; GRATTAPAGLIA, D. |
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Afiliação: |
CESAR D. PETROLI, UnB; CAROLINA P. SANSALONI, UnB; JASON CARLING, Diversity Arrays Technology Pty Ltd., Yarralumla, Australia; DOROTHY A. STEANE, University of Tasmania, Hobart, Tasmania, Australia; RENE E. VAILLANCOURT, University of Tasmania, Hobart, Tasmania, Australia; ALEXANDER A. MYBURG, University of Pretoria, Pretoria, South Africa; ORZENIL BONFIM DA SILVA JUNIOR, CENARGEN; GEORGIOS JOANNIS PAPPAS JUNIOR, CENARGEN; ANDRZEJ KILIAN, Diversity Arrays Technology Pty Ltd., Yarralumla, Australia; DARIO GRATTAPAGLIA, CENARGEN. |
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Título: |
Genomic characterization of DArT markers based on high-density linkage analysis and physical mapping to the Eucalyptus genome. |
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Ano de publicação: |
2012 |
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Fonte/Imprenta: |
PLoS ONE, v. 7, n. 9, set. 2012. |
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Idioma: |
Inglês |
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Conteúdo: |
Diversity Arrays Technology (DArT) provides a robust, high throughput, cost-effective method to query thousands of sequence polymorphisms in a single assay. Despite the extensive use of this genotyping platform for numerous plant species, little is known regarding the sequence attributes and genome-wide distribution of DArT markers. We investigated the genomic properties of the 7,680 DArT marker probes of a Eucalyptus array, by sequencing them, constructing a high density linkage map and carrying out detailed physical mapping analyses to the Eucalyptus grandis reference genome. A consensus linkage map with 2,274 DArT markers anchored to 210 microsatellites and a framework map, with improved support for ordering, displayed extensive collinearity with the genome sequence. Only 1.4 Mbp of the 75 Mbp of still unplaced scaffold sequence was captured by 45 linkage mapped but physically unaligned markers to the 11 main Eucalyptus pseudochromosomes, providing compelling evidence for the quality and completeness of the current Eucalyptus genome assembly. A highly significant correspondence was found between the locations of DArT markers and predicted gene models, while most of the 89 DArT probes unaligned to the genome correspond to sequences likely absent in E. grandis, consistent with the pan-genomic feature of this multi-Eucalyptus species DArT array. These comprehensive linkage-to-physical mapping analyses provide novel data regarding the genomic attributes of DArT markers in plant genomes in general and for Eucalyptus in particular. DArT markers preferentially target the gene space and display a largely homogeneous distribution across the genome, thereby providing superb coverage for mapping and genome-wide applications in breeding and diversity studies. Data reported on these ubiquitous properties of DArT markers will be particularly valuable to researchers working on less-studied crop species who already count on DArT genotyping arrays but for which no reference genome is yet available to allow such detailed characterization. MenosDiversity Arrays Technology (DArT) provides a robust, high throughput, cost-effective method to query thousands of sequence polymorphisms in a single assay. Despite the extensive use of this genotyping platform for numerous plant species, little is known regarding the sequence attributes and genome-wide distribution of DArT markers. We investigated the genomic properties of the 7,680 DArT marker probes of a Eucalyptus array, by sequencing them, constructing a high density linkage map and carrying out detailed physical mapping analyses to the Eucalyptus grandis reference genome. A consensus linkage map with 2,274 DArT markers anchored to 210 microsatellites and a framework map, with improved support for ordering, displayed extensive collinearity with the genome sequence. Only 1.4 Mbp of the 75 Mbp of still unplaced scaffold sequence was captured by 45 linkage mapped but physically unaligned markers to the 11 main Eucalyptus pseudochromosomes, providing compelling evidence for the quality and completeness of the current Eucalyptus genome assembly. A highly significant correspondence was found between the locations of DArT markers and predicted gene models, while most of the 89 DArT probes unaligned to the genome correspond to sequences likely absent in E. grandis, consistent with the pan-genomic feature of this multi-Eucalyptus species DArT array. These comprehensive linkage-to-physical mapping analyses provide novel data regarding the genomic attributes of DArT markers in pla... Mostrar Tudo |
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Palavras-Chave: |
Caracterização genómica; Dart genotyping; Genoma do Eucalipto; Microsatellite genotyping. |
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Thesagro: |
Genoma. |
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Categoria do assunto: |
-- |
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Marc: |
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100 1 $aPETROLI, C. D.
245 $aGenomic characterization of DArT markers based on high-density linkage analysis and physical mapping to the Eucalyptus genome.$h[electronic resource]
260 $c2012
520 $aDiversity Arrays Technology (DArT) provides a robust, high throughput, cost-effective method to query thousands of sequence polymorphisms in a single assay. Despite the extensive use of this genotyping platform for numerous plant species, little is known regarding the sequence attributes and genome-wide distribution of DArT markers. We investigated the genomic properties of the 7,680 DArT marker probes of a Eucalyptus array, by sequencing them, constructing a high density linkage map and carrying out detailed physical mapping analyses to the Eucalyptus grandis reference genome. A consensus linkage map with 2,274 DArT markers anchored to 210 microsatellites and a framework map, with improved support for ordering, displayed extensive collinearity with the genome sequence. Only 1.4 Mbp of the 75 Mbp of still unplaced scaffold sequence was captured by 45 linkage mapped but physically unaligned markers to the 11 main Eucalyptus pseudochromosomes, providing compelling evidence for the quality and completeness of the current Eucalyptus genome assembly. A highly significant correspondence was found between the locations of DArT markers and predicted gene models, while most of the 89 DArT probes unaligned to the genome correspond to sequences likely absent in E. grandis, consistent with the pan-genomic feature of this multi-Eucalyptus species DArT array. These comprehensive linkage-to-physical mapping analyses provide novel data regarding the genomic attributes of DArT markers in plant genomes in general and for Eucalyptus in particular. DArT markers preferentially target the gene space and display a largely homogeneous distribution across the genome, thereby providing superb coverage for mapping and genome-wide applications in breeding and diversity studies. Data reported on these ubiquitous properties of DArT markers will be particularly valuable to researchers working on less-studied crop species who already count on DArT genotyping arrays but for which no reference genome is yet available to allow such detailed characterization.
650 $aGenoma
653 $aCaracterização genómica
653 $aDart genotyping
653 $aGenoma do Eucalipto
653 $aMicrosatellite genotyping
700 1 $aSANSALONI, C. P
700 1 $aCARLING, J.
700 1 $aSTEANE, D. A.
700 1 $aVAILLANCOURT, R. E.
700 1 $aMYBURG, A. M.
700 1 $aSILVA JUNIOR, O. B. da
700 1 $aPAPPAS JUNIOR, G. J.
700 1 $aKILIAN, A.
700 1 $aGRATTAPAGLIA, D.
773 $tPLoS ONE$gv. 7, n. 9, set. 2012.
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Embrapa Recursos Genéticos e Biotecnologia (CENARGEN) |
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| 6. |  | OLIVEIRA, T. C. de; TAVARES, E. D.; CAPORAL, F. R. Avaliação das unidades de experimentação agroecológica coletiva, no âmbito da política pública do Plano Brasil sem Miséria, no território do alto Sertão de Sergipe. In: SEMINÁRIO INTERNACIONAL DE AGROECOLOGIA, 2.; SEMINÁRIO DE AGROECOLOGIA DE PERNAMBUCO, 3.; JORNADA DOS POVOS DE PERNAMBUCO, 2., 2015, Recife. Diálogos de conhecimentos sobre agroecologia: anais. Recife: UFPE, 2015. 1 CD-ROM.| Biblioteca(s): Embrapa Tabuleiros Costeiros. |
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| 10. | | BORTOLETTO, W. V.; MACEDO, W. R.; OLIVEIRA, T. C. de; SOUZA, D. S. Agrochemicals and storage times on soybean seed vigor. Pesquisa Agropecuária Brasileira, Brasília, DF, v. 52, n. 2, p. 129-132, fev. 2017. Notas científicas.
Título em português: Agroquímicos e tempos de armazenamento no vigor de sementes de soja.| Biblioteca(s): Embrapa Unidades Centrais. |
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| 11. | | SILVA, L. C. da; LEMOS, W. de P.; OLIVEIRA, T. C. de. Primeiros registros de moscas-das-frutas (Dip.,Tephritidae) e seus hospedeiros no município de Baião, Pará. In: SEMINÁRIO DE INICIAÇÃO CIENTÍFICA, 18.; SEMINÁRIO DE PÓS-GRADUAÇÃO DA EMBRAPA AMAZÔNIA ORIENTAL, 2., 2014, Belém, PA. Anais. Belém, PA: Embrapa Amazônia Oriental, 2014. 1 CD-ROM.| Tipo: Artigo em Anais de Congresso |
| Biblioteca(s): Embrapa Amazônia Oriental. |
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| 16. | | OLIVEIRA, T. C. de; TAVARES, E. D.; COPORAL, F. R.; CURADO, F. F.; COLLADO, A. C. Diálogos entre educação-pesquisa-extensão: contraponto ao processo convencional de transferência de tecnologia no território do alto sertão sergipano. Cadernos de Agroecologia, v. 12, n. 1, jul. 2017. Apresentado no SEMINÁRIO NACIONAL DE EDUCAÇÃO EM AGROECOLOGIA, 2., 2016, Seropédica. Educação em agroecologia: resistências e lutas pela democracia: anais. Seropédica: ABA, 2016.| Tipo: Artigo em Periódico Indexado | Circulação/Nível: B - 4 |
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