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| Registros recuperados : 28 | |
| 22. |  | 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.| Biblioteca(s): Embrapa Agricultura Digital. |
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| 23. | | FARIA, L. C. B.; ROCHA, A. S. L.; KLEINSCHMIDT, J. H.; SILVA-FILHO, M. C.; BIM, E.; HERAI, R. H.; YAMAGISHI, M. E. B.; PALAZZO JÚNIOR, R. Is a genome a codeword of an error-correcting code? PLoS ONE, San Francisco, v. 7, n. 5, e105396, May 2012.| Biblioteca(s): Embrapa Agricultura Digital. |
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| 24. | | HERAI, R. H.; GIACHETTO, P. F.; VIEIRA, F. D.; SANTOS, E. H. dos; YAMAGISHI, M. E. B.; KUSER-FALCÃO, P. R. Detecção de erros de montagens em regiões gênicas. In: SIMPÓSIO SOBRE INOVAÇÃO E CRIATIVIDADE CIENTÍFICA NA EMBRAPA, 2., Brasília, DF, 2010. Resumos... Brasília, DF: Embrapa, 2010. Não paginado.| Biblioteca(s): Embrapa Agricultura Digital. |
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| 25. | | 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.| Biblioteca(s): Embrapa Agricultura Digital. |
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| 26. | | GIACHETTO, P. F.; HERAI, R. H.; NICIURA, S. C. M.; DODE, M. A. N.; REGITANO, L. C. de A.; YAMAGISHI, M. E. B. Transcritos quiméricos em bovinos. In: SIMPÓSIO SOBRE INOVAÇÃO E CRIATIVIDADE CIENTÍFICA NA EMBRAPA, 2., 2010, Brasília. Anais... Brasília: Embrapa, 2010. Não paginado. Pôster 77.| Biblioteca(s): Embrapa Recursos Genéticos e Biotecnologia. |
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| 27. | | GIACHETTO, P. F.; HERAI, R. H.; NICIURA, S. C. M.; DODE, M. A. N.; REGITANO, L. C. A.; YAMAGISHI, M. E. B. Transcritos quiméricos em bovinos. In: SIMPÓSIO SOBRE INOVAÇÃO E CRIATIVIDADE CIENTÍFICA NA EMBRAPA, 2., 2010, Brasília, DF. Anais... Brasília, DF: Embrapa, 2010. Não paginado. Pôster 77.| Biblioteca(s): Embrapa Agricultura Digital; Embrapa Pecuária Sudeste. |
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| 28. | | CARAZZOLLE, M. F.; COSTA, G. G. L.; HERAI, R. H.; R. JÚNIOR, O.; NASCIMENTO, L. C.; TEIXEIRA, P. J.; TIBURCIO, R. A.; MONDEGO, J. M. C.; PEREIRA, G. A. G. The genome projects of the closely related cacao pathogens Moniliophthora roreri and Moniliophthora perniciosa. In: INTERNATIONAL CONFERENCE OF THE BRAZILIAN ASSOCIATION FOR BIOINFORMATICS AND COMPUTATIONAL BIOLOGY, 6., 2010, Ouro Preto. Abstracts... [S.l.: s.n.], 2010. p. 22. X-meeting 2010.| Biblioteca(s): Embrapa Agricultura Digital. |
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| Registros recuperados : 28 | |
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Registro Completo
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Biblioteca(s): |
Embrapa Agricultura Digital. |
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Data corrente: |
02/12/2010 |
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Data da última atualização: |
27/01/2020 |
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Tipo da produção científica: |
Resumo em Anais de Congresso |
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Autoria: |
CARAZZOLLE, M. F.; COSTA, G. G. L.; HERAI, R. H.; R. JÚNIOR, O.; NASCIMENTO, L. C.; TEIXEIRA, P. J.; TIBURCIO, R. A.; MONDEGO, J. M. C.; PEREIRA, G. A. G. |
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Afiliação: |
IB, CENAPAD/UNICAMP; IB/UNICAMP; LGE/IB/UNICAMP, LBA/CNPTIA; LGE/IB/UNICAMP; LGE/IB/UNICAMP; LGE/IB/UNICAMP; LGE/IB/UNICAMP; IAC; LGE/IB/UNICAMP. |
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Título: |
The genome projects of the closely related cacao pathogens Moniliophthora roreri and Moniliophthora perniciosa. |
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Ano de publicação: |
2010 |
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Fonte/Imprenta: |
In: INTERNATIONAL CONFERENCE OF THE BRAZILIAN ASSOCIATION FOR BIOINFORMATICS AND COMPUTATIONAL BIOLOGY, 6., 2010, Ouro Preto. Abstracts... [S.l.: s.n.], 2010. |
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Páginas: |
p. 22. |
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Idioma: |
Inglês |
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Notas: |
X-meeting 2010. |
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Conteúdo: |
The basidiomycetes Moniliophthora roreri and Moniliophthora perniciosa are the etiologic agents of the two most devastating diseases in cacao (Theobroma cacao ): frosty pod rot and the witches? broom, respectively. The species are very closely related and even hybrid cells have been previously obtained. In cacao, both species infect pods, causing necrosis, and M. perniciosa is also able to invade other tissues causing changes in plant metabolisms, such as hyperplasia and hypertrophy. In order to understand the molecular basis of these organisms, we sequenced the genome of these two species. We also obtained transcriptomic data (RNA-seq) in several different conditions including the interaction between cacao and both pathogens. This work reports a pipeline utilized to assembly and compare these genomes, and to identify differential gene expression between libraries. The genomic and transcriptomic sequences for both organisms were obtained using high-throughput sequencing technology (454/Roche and Solexa/Illumina). The Solexa and 454 reads were assembled into longer contigs using de novo assembler Velvet and Newbler, respectively. The hybrid assembly was performed through the combination of Solexa contigs and 454 contigs resulting in ?nal hybrid contigs using a pipeline developed in our group. Ab initio and comparative gene predictions were obtained with Augustus and Exonerate programs using previous training set (including RNA-seq data) and the closely related organisms, respectively. The ?nal set of gene models were obtained through a union between ab-initio and comparative approaches. The identi?cation of gene expressed in both pathogens, for each library, was obtained mapping the RNA-seq reads into the predicted gene models. In order to identify the gene expressed in T. cacao , the RNA-seq reads were mapped into transcriptome assembly of T. cacao. The transcriptome assembly was obtained using around 160.000 T. cacao ESTs available at NCBI and assembled by CAP3 program. The analysis of differential expressed genes between libraries was performed using DEG-seq package. The M. perniciosa genome project (www.lge.ibi.unicamp.br/vassoura) and M. roreri genome project (www.lge.ibi.unicamp.br/roreri) involve several Brazilian and international laboratories. The comparative genomics in the structure level, gene content level, and orthologous gene sequence can provide new insights that can help this community to increase efforts in cacao diseases investigation. MenosThe basidiomycetes Moniliophthora roreri and Moniliophthora perniciosa are the etiologic agents of the two most devastating diseases in cacao (Theobroma cacao ): frosty pod rot and the witches? broom, respectively. The species are very closely related and even hybrid cells have been previously obtained. In cacao, both species infect pods, causing necrosis, and M. perniciosa is also able to invade other tissues causing changes in plant metabolisms, such as hyperplasia and hypertrophy. In order to understand the molecular basis of these organisms, we sequenced the genome of these two species. We also obtained transcriptomic data (RNA-seq) in several different conditions including the interaction between cacao and both pathogens. This work reports a pipeline utilized to assembly and compare these genomes, and to identify differential gene expression between libraries. The genomic and transcriptomic sequences for both organisms were obtained using high-throughput sequencing technology (454/Roche and Solexa/Illumina). The Solexa and 454 reads were assembled into longer contigs using de novo assembler Velvet and Newbler, respectively. The hybrid assembly was performed through the combination of Solexa contigs and 454 contigs resulting in ?nal hybrid contigs using a pipeline developed in our group. Ab initio and comparative gene predictions were obtained with Augustus and Exonerate programs using previous training set (including RNA-seq data) and the closely related organisms, resp... Mostrar Tudo |
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Palavras-Chave: |
Patógenos do cacau. |
|
Thesagro: |
Genoma; Theobroma Cacao. |
|
Thesaurus NAL: |
Genome; Moniliophthora perniciosa; Moniliophthora roreri. |
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Categoria do assunto: |
-- |
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URL: |
https://ainfo.cnptia.embrapa.br/digital/bitstream/item/23821/1/p22.pdf
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|
Marc: |
LEADER 03509nam a2200301 a 4500
001 1868507
005 2020-01-27
008 2010 bl uuuu u00u1 u #d
100 1 $aCARAZZOLLE, M. F.
245 $aThe genome projects of the closely related cacao pathogens Moniliophthora roreri and Moniliophthora perniciosa.$h[electronic resource]
260 $aIn: INTERNATIONAL CONFERENCE OF THE BRAZILIAN ASSOCIATION FOR BIOINFORMATICS AND COMPUTATIONAL BIOLOGY, 6., 2010, Ouro Preto. Abstracts... [S.l.: s.n.], 2010.$c2010
300 $ap. 22.
500 $aX-meeting 2010.
520 $aThe basidiomycetes Moniliophthora roreri and Moniliophthora perniciosa are the etiologic agents of the two most devastating diseases in cacao (Theobroma cacao ): frosty pod rot and the witches? broom, respectively. The species are very closely related and even hybrid cells have been previously obtained. In cacao, both species infect pods, causing necrosis, and M. perniciosa is also able to invade other tissues causing changes in plant metabolisms, such as hyperplasia and hypertrophy. In order to understand the molecular basis of these organisms, we sequenced the genome of these two species. We also obtained transcriptomic data (RNA-seq) in several different conditions including the interaction between cacao and both pathogens. This work reports a pipeline utilized to assembly and compare these genomes, and to identify differential gene expression between libraries. The genomic and transcriptomic sequences for both organisms were obtained using high-throughput sequencing technology (454/Roche and Solexa/Illumina). The Solexa and 454 reads were assembled into longer contigs using de novo assembler Velvet and Newbler, respectively. The hybrid assembly was performed through the combination of Solexa contigs and 454 contigs resulting in ?nal hybrid contigs using a pipeline developed in our group. Ab initio and comparative gene predictions were obtained with Augustus and Exonerate programs using previous training set (including RNA-seq data) and the closely related organisms, respectively. The ?nal set of gene models were obtained through a union between ab-initio and comparative approaches. The identi?cation of gene expressed in both pathogens, for each library, was obtained mapping the RNA-seq reads into the predicted gene models. In order to identify the gene expressed in T. cacao , the RNA-seq reads were mapped into transcriptome assembly of T. cacao. The transcriptome assembly was obtained using around 160.000 T. cacao ESTs available at NCBI and assembled by CAP3 program. The analysis of differential expressed genes between libraries was performed using DEG-seq package. The M. perniciosa genome project (www.lge.ibi.unicamp.br/vassoura) and M. roreri genome project (www.lge.ibi.unicamp.br/roreri) involve several Brazilian and international laboratories. The comparative genomics in the structure level, gene content level, and orthologous gene sequence can provide new insights that can help this community to increase efforts in cacao diseases investigation.
650 $aGenome
650 $aMoniliophthora perniciosa
650 $aMoniliophthora roreri
650 $aGenoma
650 $aTheobroma Cacao
653 $aPatógenos do cacau
700 1 $aCOSTA, G. G. L.
700 1 $aHERAI, R. H.
700 1 $aR. JÚNIOR, O.
700 1 $aNASCIMENTO, L. C.
700 1 $aTEIXEIRA, P. J.
700 1 $aTIBURCIO, R. A.
700 1 $aMONDEGO, J. M. C.
700 1 $aPEREIRA, G. A. G.
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