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Registro Completo |
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Biblioteca(s): |
Embrapa Café; Embrapa Recursos Genéticos e Biotecnologia; Embrapa Unidades Centrais. |
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Data corrente: |
18/02/2011 |
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Data da última atualização: |
28/02/2023 |
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Tipo da produção científica: |
Artigo em Periódico Indexado |
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Autoria: |
VIDAL, R. O.; MONDEGO, J. M. C.; POT, D.; AMBRÓSIO, A. B.; ANDRADE, A. C.; PEREIRA, L. F. P.; COLOMBO, C. A.; VIEIRA, L. G. E.; CARAZZOLLE, M. F.; PEREIRA, G. A. G. |
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Afiliação: |
RAMON OLIVEIRA VIDAL, UNICAMP/Instituto de Biologia; JORGE MAURÍCIO COSTA MONDEGO, Instituto Agronômico de Campinas; DAVID POT, Centre de Coopération Internationale en Recherche Agronomique pour le Développement; ALINNE BATISTA AMBRÓSIO, UNICAMP/Instituto de Biologia; ALAN CARVALHO ANDRADE, CENARGEN; LUIZ FILIPE PROTASIO PEREIRA, SAPC; CARLOS AUGUSTO COLOMBO, Instituto Agronômico de Campinas; LUIZ GONZAGA ESTEVES VIEIRA, Instituo Agronômico do Pará; MARCELO FALSARELLA CARAZZOLLE, UNICAMP/Instituto de Biologia; GONÇALO AMARANTE GUIMARÃES PEREIRA, UNICAMP/Instituto de Biologia. |
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Título: |
A high-throughput data mining of single nucleotide polymorphisms in Coffea species expresed sequence tags suggests differential homeologous gene expression in the allotetrapoloid Coffea arabica. |
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Ano de publicação: |
2010 |
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Fonte/Imprenta: |
PLANT PHYSIOLOGY, v. 154, p. 1053-1066. 2010. |
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Páginas: |
1053-1066 |
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Idioma: |
Inglês |
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Conteúdo: |
Polyploidization constitutes a common mode of evolution in flowering plants. This event provides the raw material for the divergence of function in homeologous genes, leading to phenotypic novelty that can contribute to the success of polyploids in nature or their selection for use in agriculture. Mounting evidence underlined the existence of homeologous expression biases in polyploid genomes; however, strategies to analyze such transcriptome regulation remained scarce. Important factors regarding homeologous expression biases remain to be explored, such as whether this phenomenon influences specific genes, how paralogs are affected by genome doubling, and what is the importance of the variability of homeologous expression bias to genotype differences. This study reports the expressed sequence tag assembly of the allopolyploid Coffea arabica and one of its direct ancestors, Coffea canephora. The assembly was used for the discovery of single nucleotide polymorphisms through the identification of high-quality discrepancies in overlapped expressed sequence tags and for gene expression information indirectly estimated by the transcript redundancy. Sequence diversity profiles were evaluated within C. arabica (Ca) and C. canephora (Cc) and used to deduce the transcript contribution of the Coffea eugenioides (Ce) ancestor. The assignment of the C. arabica haplotypes to the C. canephora (CaCc) or C. eugenioides (CaCe) ancestral genomes allowed us to analyze gene expression contributions of each subgenome in C. arabica. In silico data were validated by the quantitative polymerase chain reaction and allele-specific combination TaqMAMA-based method. The presence of differential expression of C. arabica homeologous genes and its implications in coffee gene expression, ontology, and physiology are discussed. MenosPolyploidization constitutes a common mode of evolution in flowering plants. This event provides the raw material for the divergence of function in homeologous genes, leading to phenotypic novelty that can contribute to the success of polyploids in nature or their selection for use in agriculture. Mounting evidence underlined the existence of homeologous expression biases in polyploid genomes; however, strategies to analyze such transcriptome regulation remained scarce. Important factors regarding homeologous expression biases remain to be explored, such as whether this phenomenon influences specific genes, how paralogs are affected by genome doubling, and what is the importance of the variability of homeologous expression bias to genotype differences. This study reports the expressed sequence tag assembly of the allopolyploid Coffea arabica and one of its direct ancestors, Coffea canephora. The assembly was used for the discovery of single nucleotide polymorphisms through the identification of high-quality discrepancies in overlapped expressed sequence tags and for gene expression information indirectly estimated by the transcript redundancy. Sequence diversity profiles were evaluated within C. arabica (Ca) and C. canephora (Cc) and used to deduce the transcript contribution of the Coffea eugenioides (Ce) ancestor. The assignment of the C. arabica haplotypes to the C. canephora (CaCc) or C. eugenioides (CaCe) ancestral genomes allowed us to analyze gene expression contribut... Mostrar Tudo |
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Thesagro: |
Coffea Arábica. |
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Categoria do assunto: |
-- |
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URL: |
https://ainfo.cnptia.embrapa.br/digital/bitstream/item/29342/1/A-high-throughput.pdf
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Marc: |
LEADER 02657naa a2200253 a 4500
001 1917245
005 2023-02-28
008 2010 bl uuuu u00u1 u #d
100 1 $aVIDAL, R. O.
245 $aA high-throughput data mining of single nucleotide polymorphisms in Coffea species expresed sequence tags suggests differential homeologous gene expression in the allotetrapoloid Coffea arabica.$h[electronic resource]
260 $c2010
300 $a1053-1066
520 $aPolyploidization constitutes a common mode of evolution in flowering plants. This event provides the raw material for the divergence of function in homeologous genes, leading to phenotypic novelty that can contribute to the success of polyploids in nature or their selection for use in agriculture. Mounting evidence underlined the existence of homeologous expression biases in polyploid genomes; however, strategies to analyze such transcriptome regulation remained scarce. Important factors regarding homeologous expression biases remain to be explored, such as whether this phenomenon influences specific genes, how paralogs are affected by genome doubling, and what is the importance of the variability of homeologous expression bias to genotype differences. This study reports the expressed sequence tag assembly of the allopolyploid Coffea arabica and one of its direct ancestors, Coffea canephora. The assembly was used for the discovery of single nucleotide polymorphisms through the identification of high-quality discrepancies in overlapped expressed sequence tags and for gene expression information indirectly estimated by the transcript redundancy. Sequence diversity profiles were evaluated within C. arabica (Ca) and C. canephora (Cc) and used to deduce the transcript contribution of the Coffea eugenioides (Ce) ancestor. The assignment of the C. arabica haplotypes to the C. canephora (CaCc) or C. eugenioides (CaCe) ancestral genomes allowed us to analyze gene expression contributions of each subgenome in C. arabica. In silico data were validated by the quantitative polymerase chain reaction and allele-specific combination TaqMAMA-based method. The presence of differential expression of C. arabica homeologous genes and its implications in coffee gene expression, ontology, and physiology are discussed.
650 $aCoffea Arábica
700 1 $aMONDEGO, J. M. C.
700 1 $aPOT, D.
700 1 $aAMBRÓSIO, A. B.
700 1 $aANDRADE, A. C.
700 1 $aPEREIRA, L. F. P.
700 1 $aCOLOMBO, C. A.
700 1 $aVIEIRA, L. G. E.
700 1 $aCARAZZOLLE, M. F.
700 1 $aPEREIRA, G. A. G.
773 $tPLANT PHYSIOLOGY$gv. 154, p. 1053-1066. 2010.
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Registro original: |
Embrapa Recursos Genéticos e Biotecnologia (CENARGEN) |
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Biblioteca |
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| Registros recuperados : 14 | |
| 1. |  | MARTINATI, J. C.; CARDOSO, D. C.; GUERREIRO-FILHO, O.; VIDAL, R. O.; CARAZZOLLE, M. F.; MALUF, M. P. Caracterização molecular da interação cafeeiro/bicho-mineiro. In: SIMPÓSIO DE PESQUISA DOS CAFÉS DO BRASIL, 7., 2011, Araxá. Anais... Brasília, DF: Embrapa Café, 2011.| Tipo: Artigo em Anais de Congresso |
| Biblioteca(s): Embrapa Café. |
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| 2. | | HERAI, R. H.; VIDAL, R. O.; CARAZZOLLE, M. F.; COSTA, G. G. L.; FALCAO, P. R. K.; YAMAGISHI, M. E. B.; FRANCHINI, K. G.; PEREIRA, G. G. A. CNBi: the new Brazilian National Consortium for Bioinformatics. In: INTERNATIONAL CONFERENCE OF THE BRAZILIAN ASSOCIATION FOR BIOINFORMATICS AND COMPUTATIONAL BIOLOGY, 6., 2010, Ouro Preto. Abstracts... [S.l.: s.n.], 2010. p. 110. X-meeting 2010.| Tipo: Resumo em Anais de Congresso |
| Biblioteca(s): Embrapa Agricultura Digital. |
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| 3. | | VIDAL, R. O.; ALEKCEVETCH, J. C.; LEROY, T.; DE BELLIS, F.; POT, D.; RODRIGUES, G. C.; CARAZZOLLE, M. F.; PEREIRA, G. A. G.; ANDRADE, A. C.; MARRACCINI, P. High-through put sequencing of CDNA shows that CV. Rubi and IAPAR59 of Coffea Arabica have different molecular response to water privation. In: INTERNATIONAL CONFERENCE ON COFFEE SCIENCE, 2012, San José. Proceedings... [S.l]: Association for Science and Information on Coffee (ASIC), 2012. p. 61.| Tipo: Resumo em Anais de Congresso |
| Biblioteca(s): Embrapa Agricultura Digital; Embrapa Recursos Genéticos e Biotecnologia. |
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| 4. | | MARTINATI, J. C.; CARDOSO, D. C.; VIDAL, R. O.; CARAZZOLLE, M. F.; GIACHETTO, P. F.; PADILHA, L.; GUERREIRO-FILHO, O.; MALUF, M. P. Large-escale expression of genes related to phytoalexins, phenols, flavonoids and lignin biosynthesis in coffee plants infested with leaf-miner. In: INTERNATIONAL CONFERENCE ON COFFEE SCIENCE, 24., 2012, Costa Rica. Programme & abstracts. [S.l.]: Association for Science and Information on Coffee, 2012. p. 83. B11. ASIC 2012.| Tipo: Resumo em Anais de Congresso |
| Biblioteca(s): Embrapa Agricultura Digital. |
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| 5. | | MARTINATI, J. C.; CARDOSO, D. C.; VIDAL, R. O.; CARAZZOLLE, M. F.; GIACHETTO, P. F.; PADILHA, L.; OLIVEIRA FILHO, G.; MALUF, M. P. Large-escale expression of genes related to phytoalexins, phenols, flavonoids and lignin biosynthesis in coffee plants infested with leaf-miner. In: INTERNATIONAL CONFERENCE ON COFFEE SCIENCE, 24., 2012, Costa Rica. Programme & abstracts. [S.l.]: Association for Science and Information on Coffee, 2012. p. 83 B11. ASIC 2012.| Tipo: Resumo em Anais de Congresso |
| Biblioteca(s): Embrapa Café. |
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| 6. | | CARDOSO, D. C.; MARTINATI, J. C.; GIACHETTO, P. F.; VIDAL, R. O.; CARAZZOLLE, M. F.; PADILHA, L.; GUERREIRO-FILHO, O.; MALUF, M. P. Large-scale analysis of differential gene expression in coffee genotypes resistant and susceptible to leaf miner-toward the identification of candidate genes for marker assisted-selection. BMC Genomics, London, v. 15, p. 1-20, 2014.| Tipo: Artigo em Periódico Indexado | Circulação/Nível: A - 1 |
| Biblioteca(s): Embrapa Agricultura Digital; Embrapa Café. |
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| 7. | | HERAI, R. H.; COSTA, G. G. D. L.; R. JÚNIOR, O.; VIDAL, R. O.; NASCIMENTO, L. C.; PARIZZI, L. P.; PEREIRA, G. G. A.; CARAZZOLLE, M. F. TORNADO: an automated pipeline for de novo hybrid genome assembly based on free software packages for sanger and next generation sequencing technologies (NGS). In: INTERNATIONAL CONFERENCE OF THE BRAZILIAN ASSOCIATION FOR BIOINFORMATICS AND COMPUTATIONAL BIOLOGY, 6., 2010, Ouro Preto. Abstracts... [S.l.: s.n.], 2010. p. 119. X-meeting 2010.| Tipo: Resumo em Anais de Congresso |
| Biblioteca(s): Embrapa Agricultura Digital. |
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| 8. | | NASCIMENTO, L. C.; COSTA, G. G. L.; VIDAL, R. O.; MEYER, L.; BINNECK, E.; KIDO, E. A.; RODRIGUES, F.; KULCHESKI, F. R.; NEPOMUCENO, A. L.; ABDELNOOR, R. V.; PEREIRA, G. A. G.; CARAZZOLLE, M. F. Bioinformatics analysis applied to genosoja project. In: INTERNATIONAL CONFERENCE OF THE BRAZILIAN ASSOCIATION FOR BIOINFORMATICS AND COMPUTATIONAL BIOLOGY, 5., 2009, Angra dos Reis. Abstracts book ... Rio de Janeiro: AB3C, 2009. p. 22. X-Meeting 2009.| Tipo: Resumo em Anais de Congresso |
| Biblioteca(s): Embrapa Soja. |
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| 9. | | MONDEGO, J. M. C.; VIDAL, R. O.; CARAZZOLLE, M. F.; TOKUDA, E. K.; PARIZZI, L. P.; COSTA, G. G. L.; PEREIRA, L. F. P.; ANDRADE, A. C.; COLOMBO, C. A.; VIEIRA, L. G. E.; PEREIRA, G. A. G. An EST-based analysis identifies new genes and reveals distinctive gene expression features of Coffea arabica and Coffea canephora. BMC Plant Biology, v.11, n. 30, 2011.| Tipo: Artigo em Periódico Indexado | Circulação/Nível: A - 1 |
| Biblioteca(s): Embrapa Café; Embrapa Recursos Genéticos e Biotecnologia. |
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| 10. | | NASCIMENTO, L. C.; VIDAL R. O.; MONDEGO, J. M. C.; COSTA, G. G. L.; JUNIOR, O. R.; RODRIGUES, F.; NEPOMUCENO, A. L.; MARCELINO-GUIMARÃES, F. C.; ABDELNOOR, R. V.; PEREIRA, G. A. G.; CARAZZOLLE, M. F. Genotipagem de cultivares brasileiros de soja através da detecção de SNPs. In: CONGRESSO BRASILEIRO DE SOJA, 6., 2012, Cuiabá. Soja: integração nacional e desenvolvimento sustentável: resumos. Brasília, DF: Embrapa, 2012. p. 15, res. 8.| Tipo: Resumo em Anais de Congresso |
| Biblioteca(s): Embrapa Soja. |
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| 11. | | NASCIMENTO, L. C.; VIDAL R. O.; MONDEGO, J. M. C.; COSTA, G. G. L.; JUNIOR, O. R.; RODRIGUES, F.; NEPOMUCENO, A. L.; MARCELINO-GUIMARÃES, F. C.; ABDELNOOR, R. V.; PEREIRA, G. A. G.; CARAZZOLLE, M. F. Genotipagem de cultivares brasileiros de soja através da detecção de SNPs. In: CONGRESSO BRASILEIRO DE SOJA, 6., 2012, Cuiabá. Soja: integração nacional e desenvolvimento sustentável: anais. Brasília, DF: Embrapa, 2012. 4 p. 1 CD-ROM.| Tipo: Artigo em Anais de Congresso |
| Biblioteca(s): Embrapa Soja. |
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| 12. | | VIDAL, R. O.; MONDEGO, J. M. C.; POT, D.; AMBRÓSIO, A. B.; ANDRADE, A. C.; PEREIRA, L. F. P.; COLOMBO, C. A.; VIEIRA, L. G. E.; CARAZZOLLE, M. F.; PEREIRA, G. A. G. A high-throughput data mining of single nucleotide polymorphisms in Coffea species expresed sequence tags suggests differential homeologous gene expression in the allotetrapoloid Coffea arabica. PLANT PHYSIOLOGY, v. 154, p. 1053-1066. 2010. 1053-1066| Tipo: Artigo em Periódico Indexado | Circulação/Nível: A - 1 |
| Biblioteca(s): Embrapa Café; Embrapa Recursos Genéticos e Biotecnologia. |
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| 13. | | MOFATTO, L. S.; CARNEIRO, F. de A.; VIEIRA, N. G.; DUARTE, K. E.; VIDAL, R. O.; ALEKCEVETCH, J. C.; COTTA, M. G.; VERDEIL, J-L.; LAPEYRE-MONTES, F.; LARTAUD, M.; LEROY, T.; DE BELLIS, F.; POT, D; RODRIGUES, G. C.; CARAZZOLLE, M. F.; PEREIRA, G. A. G.; ANDRADE, A. C.; MARRACCINI, P. Identification of candidate genes for drought tolerance in coffee by high-throughput sequencing in the shoot apex of different Coffea arabica cultivars. BMC Plant Biology, v. 16, n. 94, p. 1-18, 2016.| Tipo: Artigo em Periódico Indexado | Circulação/Nível: A - 1 |
| Biblioteca(s): Embrapa Agricultura Digital; Embrapa Café. |
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| 14. | | MONDEGO, J. M. C.; CARAZZOLLE, M. F.; COSTA, G. G. L.; FORMIGHIERI, E. F.; PARIZZI, L. P.; RINCONES, J.; COTOMACCI, C.; CARRARO, D. M.; CUNHA, A. F.; CARRER, H.; VIDAL, R. O.; ESTRELA, R. C.; GARCÍA, O.; THOMAZELLA, D. P. T.; OLIVEIRA, B. V.; PIRES, A. B. L.; RIO, M. C. S.; ARAÚJO, M. R. R.; CASTRO, A. L. B.; GRAMACHO, K. P.; GONÇALVES, M. S.; GÓES NETO, A.; BARBOSA, L. V.; GUILTINAM, M.; BAILEY, B.; MEINHARDT, L. W.; CASCARDO, J. C. M.; PEREIRA, G. A. G. The genome survey of Moniliophthora perniciosa, the causal agent of cacao witches' broom disease, gives insights about novel phytopathogenicity mechanisms. In: CONGRESSO BRASILEIRO DE GENÉTICA, 54., 2008, Salvador. Resumos... Salvador: SBG, 2008. 1 CD-ROM.| Biblioteca(s): Embrapa Recursos Genéticos e Biotecnologia. |
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| Registros recuperados : 14 | |
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| Nenhum registro encontrado para a expressão de busca informada. |
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