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| Registros recuperados : 15 | |
| 1. |  | CORREIA, G. S.; NEUSCHRANK, E. L.; MARQUEZ, L. A. Y.; SILVA, W. R.; HELLER, E.; GRINBERG, P. S.; PINHEIRO, J. B.; RESENDE, F. V.; MOCCELLIN, R.; GOMES, C. B. Resistência de cultivares de alho a Ditylenchus dipsaci. In: CONGRESSO BRASILEIRO DE NEMATOLOGIA, 36, 2019, Caldas Novas. Nematoides: da Ciência ao Campo. [Anais, palestras e resumos]. Campinas: Infobibos, 2019. Resumo.| Biblioteca(s): Embrapa Clima Temperado; Embrapa Hortaliças. |
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| 2. | | HELLER, E.; MARQUEZ, L. A. Y.; BRUM, D. de; ARAUJO FILHO, J. V.; NEUSCHRANK, E.; GOMES, C. B. Avaliação da resistência de genótipos de soja a Meloidogyne graminicola. In: CONGRESSO BRASILEIRO DE FITOPATOLOGIA, 51., 2019, Recife. Anais... Brasília, DF: Sociedade Brasileira de Fitopatologia, 2019. p. 554| Biblioteca(s): Embrapa Clima Temperado. |
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| 3. | | MACHACA-CALSIN, C. P.; SILVA, W. R.; MÁRQUEZ, L. A. Y.; HELLER, E.; MATOSO, E. S.; TATTO, F. R.; MOCCELLIN, R.; SILVA, S. D. A.; GOMES, C. B. Promoção de crescimento e biocontrole do nematoides das galhas (Meloidogyne javanica) e das lesões (Pratylenchus brachyurus) em cana-de açúcar por rizobacterias, Promotion growth and biocontrol of root-knot and root-lesion nematodes in sugarcane by rhizobacteria. In: CONGRESSO BRASILEIRO DE NEMATOLOGIA, 36, 2019, Caldas Novas. Nematoides: da Ciência ao Campo. [Anais, palestras e resumos]. Campinas: Infobibos, 2019.| Biblioteca(s): Embrapa Clima Temperado. |
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| 4. | | MACHACA-CALSIN, C. P.; SILVA, W. R.; MÁRQUEZ, L. A. Y.; OLIVEIRA, A. C. B.; HELLER, E.; GOMES, C. B. Danos associados ao nematoide-das-galhas (Meloidogyne javanica) em feijoeiro. Damages associated to root-knot nematode (Meloidogyne javanica) in common bean. In: CONGRESSO BRASILEIRO DE NEMATOLOGIA, 36, 2019, Caldas Novas. Nematoides: da Ciência ao Campo. [Anais, palestras e resumos]. Campinas: Infobibos, 2019.| Biblioteca(s): Embrapa Clima Temperado. |
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| 5. | | MACHACA-CALSIN, C. P.; W. R. SILVA; MÁRQUEZ, L. A. Y.; HELLER, E.; MATOSO, E. S.; TATTO, F. R.; MOCCELLIN, R.; SILVA, S. D. dos A. e; GOMES, C. B. Promoção de crescimento e biocontrole do nematoide das galhas (meloidogyne javanica) e das lesões (pratylenchus brachyurus) em cana-de-açúcar por rizobacterias. In: CONGRESSO BRASILEIRO DE NEMATOLOGIA, 36, 2019, Caldas Novas. Nematoides: da Ciência ao Campo. [Anais, palestras e resumos]. Campinas: Infobibos, 2019. Promotion growth and biocontrol of root-knot and root-lesion nematodes in sugarcane by rhizobacteria.| Biblioteca(s): Embrapa Clima Temperado. |
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| 7. | | MÁRQUEZ, L. A. Y.; BRUM, D. de; GOMES, C. B.; OLIVEIRA, A. C. B. de; HELLER, E.; NEUSCHRANK, E. L.; ARAÚJO FILHO, J. V. de. Host status of soybean genotypes to Meloidogyne species. Ciência Rural, Santa Maria, v. 50, n. 9, e20190637, 2020.| Biblioteca(s): Embrapa Clima Temperado. |
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| 9. | | MÁRQUEZ, L. A. Y.; GOMES, C. B.; ARAUJO-FILHO, J. V.; HELLER, E.; NEUSCHRANK, E. L. Reação de cultivares de soja a Pratylenchus brachyurus. In: CONGRESSO BRASILEIRO DE NEMATOLOGIA, 36, 2019, Caldas Novas. Nematoides: da Ciência ao Campo. [Anais, palestras e resumos]. Campinas: Infobibos, 2019. Reactio of soybean cultivars to pratylenchus brachyurus.| Biblioteca(s): Embrapa Clima Temperado. |
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| 11. | | MARQUEZ, L. A. Y.; GOMES, C. B.; DALLAGNOL, L. J.; BELLÉ, C.; ARAUJO FILHO, J. V. Fitonematoides associados à cultura de soja na região serrana do estado de Santa Catarina, Brasil. In: CONGRESSO BRASILEIRO DE NEMATOLOGIA, 35, 2018, Bento Gonçalves, RS.; Nematologia: problemas emergentes e estratégias de manejo. Anais, palestras e resumos... Pelotas: Embrapa Clima Temperado: Sociedade Brasileira de Nematologia: Bento Gonçalves, 2018. 239 p. p. 178| Biblioteca(s): Embrapa Clima Temperado. |
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| 12. | | MARQUEZ, L. A. Y.; GOMES, C. B.; DALLAGNOL, L. J.; BELLÉ, C.; ARAUJO FILHO, J. V. Fitonematoides associados a cultura da soja no Rio Grande do Sul, Brasil. In: CONGRESSO BRASILEIRO DE NEMATOLOGIA, 35, 2018, Bento Gonçalves, RS.; Nematologia: problemas emergentes e estratégias de manejo. Anais, palestras e resumos... Pelotas: Embrapa Clima Temperado: Sociedade Brasileira de Nematologia: Bento Gonçalves, 2018. 239 p. p. 177| Biblioteca(s): Embrapa Clima Temperado. |
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| 13. | | MARTINS, S. O.; MARQUEZ, L. A. Y.; PACHECO, D. R.; GOMES, C. B.; ARAUJO FILHO, J. V. Registro de fitonematoides associados à cultura da macieira em Santa Catarina, Brasil. In: CONGRESSO BRASILEIRO DE NEMATOLOGIA, 35, 2018, Bento Gonçalves, RS.; Nematologia: problemas emergentes e estratégias de manejo. Anais, palestras e resumos... Pelotas: Embrapa Clima Temperado: Sociedade Brasileira de Nematologia: Bento Gonçalves, 2018. 239 p. p. 179| Biblioteca(s): Embrapa Clima Temperado. |
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| 14. | | NEUSCHRANK, E. L.; CORREIA, G. S.; MÁRQUEZ, L. A. Y; HELLER, E.; SILVA, W. R.; CALSIN, C. P. M.; OXLEY, H. N.; GRINBERG, P. da S.; PINHEIRO, J. B.; RESENDE, F. V.; GOMES, C. B. Reprodução do nematoide do amarelão do alho (Ditylenchus dipsaci) em condições de campo. In: CONGRESSO BRASILEIRO DE NEMATOLOGIA, 36, 2019, Caldas Novas. Nematoides: da Ciência ao Campo. [Anais, palestras e resumos]. Campinas: Infobibos, 2019. Resumo.| Biblioteca(s): Embrapa Clima Temperado; Embrapa Hortaliças. |
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| 15. | | ROSA, A. P. S. A. da; OLIVEIRA, A. C. B. de; ANDRES, A.; GOMES, C. B.; NUNES, C. D. M.; CONCENÇO, G.; THEISEN, G.; MARTINS, J. F. da S.; MATTOS, M. L. T.; PIMENTEL, J. P.; ARAÚJO FILHO, J. V. de; MÁRQUEZ, L. A. Y.; MARTINS, M. B.; GOBBI, P. Práticas de Manejo Integrado de Pragas para Sistemas de Produção em Terras Baixas. Pelotas: Embrapa Clima Temperado, 2021. 26 p. (Embrapa Clima Temperado. Documentos, 510).| Biblioteca(s): Embrapa Clima Temperado. |
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| Registros recuperados : 15 | |
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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: |
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. |
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Afiliação: |
LGE/IB/UNICAMP, LBA/CNPTIA; LGE/UNICAMP; LGE/IB/UNICAMP; LGE/IB/UNICAMP, LNBio; LGE/IB/UNICAMP; LGE/IB/UNICAMP; LGE/IB/UNICAMP, LNBio; LGE/IB/UNICAMP, CENAPAD. |
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Título: |
TORNADO: an automated pipeline for de novo hybrid genome assembly based on free software packages for sanger and next generation sequencing technologies (NGS). |
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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. 119. |
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Idioma: |
Inglês |
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Notas: |
X-meeting 2010. |
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Conteúdo: |
Next generation sequence technologies (NGS) made possible to sequence entirely genomes in a fast way and low cost, from unicellular to complex organisms, like plants and mammals. These sequences can be assembled (i ) using a reference genome or by some de novo bioinformatics method, such as Velvet, SOAPDenovo, Edena, ABYSS, GS Assembler 454, Mira and ZORRO. They are mainly based on de Bruijin graphs or, in a few softwares, reads overlapping to form contigs and scaffolds. The involved filtering and assembly step are very sensitive for each type of tool, and can be a key factor to generate the best assembly results. This way, when a set of sequences from distinct technologies exists, from Sanger to NGS, it is necessary the use of distinct assembly strategies for each type of data. Actually, at our knowledge, there is no automated hybrid strategies based on in-use of distinct assembly softwares that can be applied to assembly hybrid data generated by NGS or Sanger platforms. This works presents TORNADO, and automated pipeline for hybrid genome assembly based on free software packages. TORNADO did not proposed new methods for genome assembly. It just uses the best described software strategies for each type of genomic data to perform the hybrid assembly. It was organized in two main modules that are configured by XML file. In the first module, input data are filtered for trimming and experimental artifacts clipping. In the second module, based on sequence type, TORNADO automatically performs the assembly task using Mira for 454 and Sanger reads, Velvet for Illumina/Solexa or Solid/Life Tech reads. Finally, each assembled data are merged in a single assembly using ZORRO. If there are paired-end (mate pairs data) reads, an additional step involves CloseGaps software, which closes the gaps between assembled scaffolds. TORNADO was already applied to assembly hybrid genomic reads from Moniliophthora perniciosa fungi, Witche's broom causal in plant cacao. Results showed that our strategy can works like an useful method to automatically assembly hybrid genome data. TORNADO's was implemented using Java and PERL programming language technologies. MenosNext generation sequence technologies (NGS) made possible to sequence entirely genomes in a fast way and low cost, from unicellular to complex organisms, like plants and mammals. These sequences can be assembled (i ) using a reference genome or by some de novo bioinformatics method, such as Velvet, SOAPDenovo, Edena, ABYSS, GS Assembler 454, Mira and ZORRO. They are mainly based on de Bruijin graphs or, in a few softwares, reads overlapping to form contigs and scaffolds. The involved filtering and assembly step are very sensitive for each type of tool, and can be a key factor to generate the best assembly results. This way, when a set of sequences from distinct technologies exists, from Sanger to NGS, it is necessary the use of distinct assembly strategies for each type of data. Actually, at our knowledge, there is no automated hybrid strategies based on in-use of distinct assembly softwares that can be applied to assembly hybrid data generated by NGS or Sanger platforms. This works presents TORNADO, and automated pipeline for hybrid genome assembly based on free software packages. TORNADO did not proposed new methods for genome assembly. It just uses the best described software strategies for each type of genomic data to perform the hybrid assembly. It was organized in two main modules that are configured by XML file. In the first module, input data are filtered for trimming and experimental artifacts clipping. In the second module, based on sequence type, TORNADO automatic... Mostrar Tudo |
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Palavras-Chave: |
Bases de dados; Bioinformática. |
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Thesagro: |
Genoma. |
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Thesaurus NAL: |
Bioinformatics; Computer software; Databases; Genome; Moniliophthora perniciosa. |
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Categoria do assunto: |
-- |
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URL: |
https://ainfo.cnptia.embrapa.br/digital/bitstream/item/23820/1/p119.pdf
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Marc: |
LEADER 03238nam a2200313 a 4500
001 1868519
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008 2010 bl uuuu u00u1 u #d
100 1 $aHERAI, R. H.
245 $aTORNADO$ban automated pipeline for de novo hybrid genome assembly based on free software packages for sanger and next generation sequencing technologies (NGS).$h[electronic resource]
260 $aIn: INTERNATIONAL CONFERENCE OF THE BRAZILIAN ASSOCIATION FOR BIOINFORMATICS AND COMPUTATIONAL BIOLOGY, 6., 2010, Ouro Preto. Abstracts... [S.l.: s.n.]$c2010
300 $ap. 119.
500 $aX-meeting 2010.
520 $aNext generation sequence technologies (NGS) made possible to sequence entirely genomes in a fast way and low cost, from unicellular to complex organisms, like plants and mammals. These sequences can be assembled (i ) using a reference genome or by some de novo bioinformatics method, such as Velvet, SOAPDenovo, Edena, ABYSS, GS Assembler 454, Mira and ZORRO. They are mainly based on de Bruijin graphs or, in a few softwares, reads overlapping to form contigs and scaffolds. The involved filtering and assembly step are very sensitive for each type of tool, and can be a key factor to generate the best assembly results. This way, when a set of sequences from distinct technologies exists, from Sanger to NGS, it is necessary the use of distinct assembly strategies for each type of data. Actually, at our knowledge, there is no automated hybrid strategies based on in-use of distinct assembly softwares that can be applied to assembly hybrid data generated by NGS or Sanger platforms. This works presents TORNADO, and automated pipeline for hybrid genome assembly based on free software packages. TORNADO did not proposed new methods for genome assembly. It just uses the best described software strategies for each type of genomic data to perform the hybrid assembly. It was organized in two main modules that are configured by XML file. In the first module, input data are filtered for trimming and experimental artifacts clipping. In the second module, based on sequence type, TORNADO automatically performs the assembly task using Mira for 454 and Sanger reads, Velvet for Illumina/Solexa or Solid/Life Tech reads. Finally, each assembled data are merged in a single assembly using ZORRO. If there are paired-end (mate pairs data) reads, an additional step involves CloseGaps software, which closes the gaps between assembled scaffolds. TORNADO was already applied to assembly hybrid genomic reads from Moniliophthora perniciosa fungi, Witche's broom causal in plant cacao. Results showed that our strategy can works like an useful method to automatically assembly hybrid genome data. TORNADO's was implemented using Java and PERL programming language technologies.
650 $aBioinformatics
650 $aComputer software
650 $aDatabases
650 $aGenome
650 $aMoniliophthora perniciosa
650 $aGenoma
653 $aBases de dados
653 $aBioinformática
700 1 $aCOSTA, G. G. D. L.
700 1 $aR. JÚNIOR, O.
700 1 $aVIDAL, R. O.
700 1 $aNASCIMENTO, L. C.
700 1 $aPARIZZI, L. P.
700 1 $aPEREIRA, G. G. A.
700 1 $aCARAZZOLLE, M. F.
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Embrapa Agricultura Digital (CNPTIA) |
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