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Registro Completo |
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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: |
24/06/2024 |
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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.; DOROTHY A. STEANE, UNIVERSITY OF TASMANIA; RENE E. VAILLANCOURT, UNIVERSITY OF TASMANIA; ALEXANDER A. MYBURG, UNIVERSITY OF PRETORIA; ORZENIL BONFIM DA SILVA JUNIOR, CENARGEN; GEORGIOS JOANNIS PAPPAS JUNIOR, CENARGEN; ANDRZEJ KILIAN, DIVERSITY ARRAYS TECHNOLOGY PTY LTD.; 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: |
LEADER 02933naa a2200289 a 4500
001 1949877
005 2024-06-24
008 2012 bl uuuu u00u1 u #d
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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| 3. |  | PANCHONI, L. C.; SANTOS, C. A.; KUWANO, B. H.; CARMO, K. B.; CELY, M. V. T.; OLIVEIRA-JÚNIOR, A. G.; FAGOTTI, D. S. L.; CERVANTES, V. N. M.; ZANGARO, W.; ANDRADE, D. S.; ANDRADE, G.; NOGUEIRA, M. A. Effect of landfill leachate on cereal nutrition and productivity and on soil properties. Journal of Environmental Quality, v. 45, n. 3, p. 1080-1086, 2016.| Tipo: Artigo em Periódico Indexado | Circulação/Nível: A - 1 |
| Biblioteca(s): Embrapa Soja. |
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| 4. | | SANTINONI, I. A.; SANTOS, I. M. O.; NIEKAWA, E. T. G.; DEALIS, M. L.; LIUTI, G.; SILVA, C. S. da; ANDREATA, M. F. de L.; NAVARRO, M. O. P.; CELY, M. V. T.; GARCIA, G. V.; NOGUEIRA, M. A.; ANDRADE, G. Effect of transgenic soybean on functional groups of microorganisms in the rhizosphere in soil microcosm. Agronomy Science and Biotechnology, v. 5, n. 1, p. 11-23, 2019.| Tipo: Artigo em Periódico Indexado | Circulação/Nível: B - 5 |
| Biblioteca(s): Embrapa Soja. |
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| 5. | | MURATE, L. S.; OLIVEIRA, A. G. de; HIGASHI, A. Y.; BARAZETTI, A. R.; SIMIONATO, A. S.; SILVA, C. S. da; SIMÕES, G. C.; SANTOS, I. M. O. dos; FERREIRA, M. R.; CELY, M. V. T.; NAVARRO, M. O. P.; FREITAS, V. F. de; NOGUEIRA, M. A.; MELLO, J. C. P. de; LEITE JÚNIOR, R. P.; ANDRADE, G. Activity of secondary bacterial metabolites in the control of citrus canker. Agricultural Sciences, v. 6, n. 3, p. 295-303, Mar. 2015.| Tipo: Artigo em Periódico Indexado | Circulação/Nível: B - 4 |
| Biblioteca(s): Embrapa Soja. |
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| 6. | | SANTOS, I, M. O. dos; ABE, V. Y.; CARVALHO, K. de; BARAZETTI, A. R.; SIMIONATO, A. S.; PEGA, G. E. de A.; MATIS, S. H.; CANO, B. G.; CELY, M. V. T.; MARCELINO-GUIMARÃES, F. C.; CHRYSSAFIDS, A. L.; ANDRADE, G. Secondary metabolites of Pseudomonas aeruginosa lv strain decrease asian soybean rust severity in experimentally infected plants. Plants, v. 10, n. 8, 1495, 2021. 12 p.| Tipo: Artigo em Periódico Indexado | Circulação/Nível: B - 3 |
| Biblioteca(s): Embrapa Soja. |
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| Registros recuperados : 6 | |
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