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Registro Completo |
Biblioteca(s): |
Embrapa Recursos Genéticos e Biotecnologia. |
Data corrente: |
19/02/2013 |
Data da última atualização: |
06/03/2023 |
Tipo da produção científica: |
Artigo em Periódico Indexado |
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. |
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. |
Título: |
Genomic characterization of DArT markers based on high-density linkage analysis and physical mapping to the Eucalyptus genome. |
Ano de publicação: |
2012 |
Fonte/Imprenta: |
PLoS ONE, v. 7, n. 9, set. 2012. |
Idioma: |
Inglês |
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 |
Palavras-Chave: |
Caracterização genómica; Dart genotyping; Genoma do Eucalipto; Microsatellite genotyping. |
Thesagro: |
Genoma. |
Categoria do assunto: |
-- |
Marc: |
LEADER 02933naa a2200289 a 4500 001 1949877 005 2023-03-06 008 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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Registro original: |
Embrapa Recursos Genéticos e Biotecnologia (CENARGEN) |
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Registros recuperados : 13 | |
1. | | GRATTAPAGLIA, D.; VAILLANCOURT, R. E.; SHEPHERD, M.; THUMMA, B. R.; FOLEY, W.; KÜLHEIM, C.; POTTS, B. M.; MYBURG, A. A. Progress in Myrtaceae genetics and genomics: Eucalyptus as the pivotal genus. Tree Genetics & Genomes, v. 8, p. 463-508, 2012.Tipo: Artigo em Periódico Indexado | Circulação/Nível: A - 1 |
Biblioteca(s): Embrapa Recursos Genéticos e Biotecnologia. |
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2. | | SANSALONI, C. P.; PETROLI, C. D.; STEANE, D. A.; VAILLANCOURT, R. E.; CARLING, J.; MYBURG, A. A.; RESENDE, M. D. V. de; WENZL, P.; KILIAN, A.; GRATTAPAGLIA, D. High-density diversity arrays technology (DArT) genotyping for cost-effective mapping and genome-wide selection in Eucalyptus. In: INTERNATIONAL PLANT & ANIMAL GENOMES CONFERENCE, 17., 2009, San Diego, CA. [Proceedings...]. [S. l.: s.n.], 2009. Resumo.Tipo: Resumo em Anais de Congresso |
Biblioteca(s): Embrapa Florestas; Embrapa Recursos Genéticos e Biotecnologia. |
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3. | | SANSALONI, C. P.; PETROLI, C. D.; CARLING, J.; HUDSON, C.; STEANE, D. A.; MYBURG, A. M.; GRATTAPAGLIA, D.; VAILLANCOURT, R. E.; KILIAN, A. A high-density Diversity Arrays Technology (DArT) microarray for genome-wide genotyping in Eucalyptus. Plant Methods,v.6, n.16, 2010.Tipo: Artigo em Periódico Indexado | Circulação/Nível: A - 1 |
Biblioteca(s): Embrapa Recursos Genéticos e Biotecnologia. |
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4. | | HUDSON, C. J.; KULLAN, A. R. K.; FREEMAN, J. C.; FARIA, D. A.; GRATTAPAGLIA, D.; KILIAN, A.; MYBURG, A. A.; POTTS, B. M.; VAILLANCOURT, R. E. High synteny and colinearity among Eucalyptus genomes revealed by high-density comparative genetic mapping. Tree Genetics & Genomes, v. 8, p. 339-352, 2012.Tipo: Artigo em Periódico Indexado | Circulação/Nível: A - 1 |
Biblioteca(s): Embrapa Recursos Genéticos e Biotecnologia. |
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5. | | STEANE, D. A.; NICOLLE, D.; SANSALONI, C. P.; PETROLI, C. D.; CARLING, J.; KILIAN, A.; MYBURG, A. A.; GRATTAPAGLIA, D.; VAILLANCOURT, R. E. Population genetic analysis and phylogeny reconstruction in Eucalyptus (Myrtaceae) using high-throughput, genome-wide genotyping. Molecular Phylogenetics and Evolution, v. 59, p. 206-224, 2011.Tipo: Artigo em Periódico Indexado | Circulação/Nível: A - 1 |
Biblioteca(s): Embrapa Recursos Genéticos e Biotecnologia. |
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6. | | STEANE, D. A.; MYBURG, A. A.; KILIAN, A.; CARLING, J.; HUTTNER, E.; SANSALONI, C. P.; PETROLI, C. D.; GRATTAPAGLIA, D.; NICOLLE, D.; VAILLANCOURT, R. E. Dart markers herald a new era of eucalyptus phylogenomics. In: INTERNATIONAL PLANT & ANIMAL GENOMES CONFERENCE, 17., 2009, San Diego, CA. [Proceedings...]. [S. l.: s.n.], 2009. W192Tipo: Resumo em Anais de Congresso |
Biblioteca(s): Embrapa Recursos Genéticos e Biotecnologia. |
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7. | | HUDSON, C. J.; FREEMAN, J. S.; KULLAN, A. R. K.; PETROLI, C. D.; SANSALONI, C. P.; KILIAN, A.; DETERING, F.; GRATTAPAGLIA, D.; POTTS, B. M.; MYBURG, A. A.; VAILLANCOURT, R. E. A reference linkage map for Eucalyptus. BMC Genomics, 13:240, 2012. (Open access).Tipo: Artigo em Periódico Indexado | Circulação/Nível: A - 1 |
Biblioteca(s): Embrapa Recursos Genéticos e Biotecnologia. |
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8. | | 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. Genomic characterization of DArT markers based on high-density linkage analysis and physical mapping to the Eucalyptus genome. PLoS ONE, v. 7, n. 9, set. 2012.Tipo: Artigo em Periódico Indexado | Circulação/Nível: A - 1 |
Biblioteca(s): Embrapa Recursos Genéticos e Biotecnologia. |
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9. | | BUTLER, J. B.; FREEMAN, J. S.; POTTS, B. M.; VAILLANCOURT, R. E.; GRATTAPAGLIA, D.; SILVA JUNIOR, O. B. da; SIMMONS, B. A.; HEALEY, A. L.; SCHMUTZ, J.; BARRY, K. W.; LEE, D. J.; HENRY, R. J.; KING, G. J.; BATEN, A.; SHEPHERD, M. Annotation of the Corymbia terpene synthase gene family shows broad conservation but dynamic evolution of physical clusters relative to Eucalyptus. Heredity, v. 121, n. 1, p. 87-104, 2018. Na publicação: Orzenil B. Silva-Junior.Tipo: Artigo em Periódico Indexado | Circulação/Nível: A - 1 |
Biblioteca(s): Embrapa Recursos Genéticos e Biotecnologia. |
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10. | | BUTLER, J. B.; FREEMAN, J. S.; POTTS, B. M.; VAILLANCOURT, R. E.; GRATTAPAGLIA, D.; SILVA JUNIOR, O. B. da; SIMMONS, B.; SCHMUTZ, J.; BARRY, K. W.; LEE, D. J.; HEALEY, A.; FURTADO, A.; HENRY, R. J.; BATEN, A.; KING, G.; SHEPHERD, M. Comparative analysis of the terpene synthase gene family between Eucalyptus and Corymbia. In: PLANT AND ANIMAL GENOME CONFERENCE, 25., 2017, San Diego. [Abstracts...]. San Diego, CA: [s.n.], 2017. P0598.Tipo: Resumo em Anais de Congresso |
Biblioteca(s): Embrapa Recursos Genéticos e Biotecnologia. |
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11. | | HEALEY, A. L.; SHEPHERD, M.; KING, G. J.; BUTLER, J. B.; FREEMAN, J. S.; LEE, D. J.; POTTS, B. M.; SILVA JUNIOR, O. B. da; BATEN, A.; JENKINS, J.; SHU, S.; LOVELL, J. T.; SREEDASYAM, A.; GRIMWOOD, J.; FURTADO, A.; GRATTAPAGLIA, D.; BARRY, K. W.; HUNDLEY, H.; SIMMONS, B. A.; SCHMUTZ, J.; VAILLANCOURT, R. E.; HENRY, R. J. Pests, diseases, and aridity have shaped the genome of Corymbia citriodora. Communications Biology, v. 4, 537, 2021. Na publicação: Orzenil B. Silva-Junior.Tipo: Artigo em Periódico Indexado | Circulação/Nível: A - 1 |
Biblioteca(s): Embrapa Recursos Genéticos e Biotecnologia. |
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12. | | HEALEY, A.; SHEPHERD, M.; BATEN, A.; KING, G. J.; LEE, D. J.; FURTADO, A.; VAILLANCOURT, R. E.; BUTLER, J. B.; FREEMAN, J. S.; POTTS, B. M.; GRATTAPAGLIA, D.; SILVA JUNIOR, O. B. da; BARRY, K. W.; SCHMUTZ, J.; SIMMONS, B.; HENRY, R. J. Sequencing the branches of the eucalypt tree: comparison between Eucalyptus and Corymbia genomes. In: PLANT AND ANIMAL GENOME CONFERENCE, 25., 2017, San Diego. [Abstracts...]. San Diego, CA: [s.n.], 2017. W822.Tipo: Resumo em Anais de Congresso |
Biblioteca(s): Embrapa Recursos Genéticos e Biotecnologia. |
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13. | | MYBURG, A. A.; GRATTAPAGLIA, D.; TUSKAN, G. A.; HELLSTEN, U.; HAYES, R. D.; GRIMWOOD, J.; JENKINS, J.; LINDQUIST, E.; BAUER, D.; GOODSTEIN, D. M.; DUBCHAK, I.; POLIAKOV, A.; MIZRACHI, E.; KULLAN, A. R. K.; HUSSEY, S. G.; PINARD, D.; MERWE, K. van der; SINGH, P.; JAARSVELD, I. van; SILVA JUNIOR, O. B.; TOGAWA, R. C.; PAPPAS, M. R.; FARIA, D. A.; SANSALONI, C. P.; PETROLI, C. D.; YANG, X.; RANJAN, P.; TSCHAPLINSKI, T. J.; YE, C.-Y.; LI, T.; STERCK, L.; VANNESTE, K.; MURAT, F.; SOLER, M.; SAN CLEMENTE, H.; SAIDI, N.; CASSAN-WANG, H.; DUNAND, C.; HEFER, C. A.; BORNBERG-BAUER, E.; KERSTING, A. R.; VINING, K.; AMARASINGHE, V.; RANIK, M.; NAITHANI, S.; ELSER, J.; BOYD, A. E.; LISTON, A.; SPATAFORA, J. W.; DHARMWARDHANA, P.; RAJA, R.; SULLIVAN, C.; ROMANEL, E.; ALVES-FERREIRA, M.; KULHEIM, C.; FOLEY, W.; CAROCHA, V.; PAIVA, J.; KUDRNA, D.; BROMMONSCHENKEL, S. H.; PASQUALI, G.; BYRNE, M.; RIGAULT, P.; SPOKEVICIUS, A.; JONES, R. C.; STEANE, D. A.; VAILLANCOURT, R. E.; POTTS, B. M.; JOUBERT, F.; BARRY, K.; PAPPAS JUNIOR, G. J.; STRAUSS, S. H.; JAISWAL, P.; GRIMA-PETTENATI, J.; SALSE, J.; PEER, Y. van de; ROKHSAR, D. S.; SCHMUTZ, J. The genome of Eucalyptus grandis. Nature (London), v. 510, p. 356-362, 2014.Tipo: Artigo em Periódico Indexado | Circulação/Nível: A - 1 |
Biblioteca(s): Embrapa Recursos Genéticos e Biotecnologia. |
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Registros recuperados : 13 | |
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Nenhum registro encontrado para a expressão de busca informada. |
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