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Registro Completo |
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Biblioteca(s): |
Embrapa Soja. |
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Data corrente: |
07/04/2004 |
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Data da última atualização: |
27/07/2007 |
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Autoria: |
BINNECK, E.; SILVA, J. F. V.; NEUMAIER, N.; FARIAS, J. R. B.; ARIAS, C. A. A.; ALMEIDA, A. M. R.; MARIN, S. R. R.; WENDLAND, A.; SILVEIRA, C. A. da; MOLINA, J. C.; LEMOS, N. G.; FUGANTI, R.; STOLF, R.; NEPOMUCENO, A. L. |
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Título: |
Bioinformatics tools for sequence analysis and annotation applied to soybean functional genome. |
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Ano de publicação: |
2004 |
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Fonte/Imprenta: |
In: WORLD SOYBEAN RESEARCH CONFERENCE, 7.; INTERNATIONAL SOYBEAN PROCESSING AND UTILIZATION CONFERENCE, 4.; CONGRESSO BRASILEIRO DE SOJA, 3., 2004, Foz do Iguassu. Abstracts of contributed papers and posters. Londrina: Embrapa Soybean, 2004. |
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Páginas: |
p. 248-249. |
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Série: |
(Embrapa Soja. Documentos, 228). |
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Idioma: |
Inglês |
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Notas: |
Editado por Flávio Moscardi, Clara Beatriz Hoffmann-Campo, Odilon Ferreira Saraiva, Paulo Roberto Galerani, Francisco Carlos Krzyzanowski, Mercedes Concordia Carrão-Panizzi. |
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Conteúdo: |
Worldwide functional genomics studies are making an important role on biotechnology for the identification of genes that can be use in the improvement of specific biological processes in plants. Large-scale gene discovery projects like that depend on high accuracy of the data. The data should not only be trustworthy but should be correctly annotated for various features it contains. In this work we report a bioinformatics system designed to process and annotate the expressed sequence tags (ESTs) obtained by the project Functional Genome of Soybean Roots at Embrapa Soybean (http://www.cnpso.embrapa.br/bioinformatica). The system is made of Perl and PHP scripts, which performs the automated sequence analysis and support the annotation process based on a MySQL database. Various Perl scripts was written to assist the sequence analysis process that includes basecalling, clustering and assembling the reads, filtering of contaminating, repetitive and low quality sequences, identification of sequence features, BLASTing and reports generation. BLAST (Altschul et al., 1997, Nucleic Acids Res. 25:3389-3402) outputs are processed and disposed on a way that is easily accessed by the personal that performs the massive handle of the data for annotation. Also, PHP scripts was written to make a friendly annotation interface through dynamical Web pages that perform the database operations needed for the complete annotation of the genes, whish comprise data retrieval aided by query searches linked to key words, data insertion, update, and generation of intuitive reports describing the results. These tools are helping to direct our work on identification, cloning and characterization of genes and regulatory sequences potentially useful in the improvement of soybean through genetic engineering. As results nearly 8,000 ESTs was obtained form cDNA clones derived from soybean roots in drought stress and nematode infection conditions. Consensus sequences are being functionally annotated and used to construct cDNA microarrays that will be useful for analyze gene expression under a broad variety of conditions. Initially we are studying drought stress and nematode infection conditions. Analysis of interactions of soybean roots with this defiance conditions will be used do identify new possible sources of resistance and tolerance. Candidate genes will be deeply studied and can be used on the production of transgenic plants. This work was supported by grants from CNPq, PRODETAB, Jircas and Embrapa. MenosWorldwide functional genomics studies are making an important role on biotechnology for the identification of genes that can be use in the improvement of specific biological processes in plants. Large-scale gene discovery projects like that depend on high accuracy of the data. The data should not only be trustworthy but should be correctly annotated for various features it contains. In this work we report a bioinformatics system designed to process and annotate the expressed sequence tags (ESTs) obtained by the project Functional Genome of Soybean Roots at Embrapa Soybean (http://www.cnpso.embrapa.br/bioinformatica). The system is made of Perl and PHP scripts, which performs the automated sequence analysis and support the annotation process based on a MySQL database. Various Perl scripts was written to assist the sequence analysis process that includes basecalling, clustering and assembling the reads, filtering of contaminating, repetitive and low quality sequences, identification of sequence features, BLASTing and reports generation. BLAST (Altschul et al., 1997, Nucleic Acids Res. 25:3389-3402) outputs are processed and disposed on a way that is easily accessed by the personal that performs the massive handle of the data for annotation. Also, PHP scripts was written to make a friendly annotation interface through dynamical Web pages that perform the database operations needed for the complete annotation of the genes, whish comprise data retrieval aided by query searches li... Mostrar Tudo |
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Categoria do assunto: |
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Marc: |
LEADER 03743naa a2200313 a 4500
001 1466823
005 2007-07-27
008 2004 bl uuuu u00u1 u #d
100 1 $aBINNECK, E.
245 $aBioinformatics tools for sequence analysis and annotation applied to soybean functional genome.
260 $c2004
300 $ap. 248-249.
490 $a(Embrapa Soja. Documentos, 228).
500 $aEditado por Flávio Moscardi, Clara Beatriz Hoffmann-Campo, Odilon Ferreira Saraiva, Paulo Roberto Galerani, Francisco Carlos Krzyzanowski, Mercedes Concordia Carrão-Panizzi.
520 $aWorldwide functional genomics studies are making an important role on biotechnology for the identification of genes that can be use in the improvement of specific biological processes in plants. Large-scale gene discovery projects like that depend on high accuracy of the data. The data should not only be trustworthy but should be correctly annotated for various features it contains. In this work we report a bioinformatics system designed to process and annotate the expressed sequence tags (ESTs) obtained by the project Functional Genome of Soybean Roots at Embrapa Soybean (http://www.cnpso.embrapa.br/bioinformatica). The system is made of Perl and PHP scripts, which performs the automated sequence analysis and support the annotation process based on a MySQL database. Various Perl scripts was written to assist the sequence analysis process that includes basecalling, clustering and assembling the reads, filtering of contaminating, repetitive and low quality sequences, identification of sequence features, BLASTing and reports generation. BLAST (Altschul et al., 1997, Nucleic Acids Res. 25:3389-3402) outputs are processed and disposed on a way that is easily accessed by the personal that performs the massive handle of the data for annotation. Also, PHP scripts was written to make a friendly annotation interface through dynamical Web pages that perform the database operations needed for the complete annotation of the genes, whish comprise data retrieval aided by query searches linked to key words, data insertion, update, and generation of intuitive reports describing the results. These tools are helping to direct our work on identification, cloning and characterization of genes and regulatory sequences potentially useful in the improvement of soybean through genetic engineering. As results nearly 8,000 ESTs was obtained form cDNA clones derived from soybean roots in drought stress and nematode infection conditions. Consensus sequences are being functionally annotated and used to construct cDNA microarrays that will be useful for analyze gene expression under a broad variety of conditions. Initially we are studying drought stress and nematode infection conditions. Analysis of interactions of soybean roots with this defiance conditions will be used do identify new possible sources of resistance and tolerance. Candidate genes will be deeply studied and can be used on the production of transgenic plants. This work was supported by grants from CNPq, PRODETAB, Jircas and Embrapa.
700 1 $aSILVA, J. F. V.
700 1 $aNEUMAIER, N.
700 1 $aFARIAS, J. R. B.
700 1 $aARIAS, C. A. A.
700 1 $aALMEIDA, A. M. R.
700 1 $aMARIN, S. R. R.
700 1 $aWENDLAND, A.
700 1 $aSILVEIRA, C. A. da
700 1 $aMOLINA, J. C.
700 1 $aLEMOS, N. G.
700 1 $aFUGANTI, R.
700 1 $aSTOLF, R.
700 1 $aNEPOMUCENO, A. L.
773 $tIn: WORLD SOYBEAN RESEARCH CONFERENCE, 7.; INTERNATIONAL SOYBEAN PROCESSING AND UTILIZATION CONFERENCE, 4.; CONGRESSO BRASILEIRO DE SOJA, 3., 2004, Foz do Iguassu. Abstracts of contributed papers and posters. Londrina: Embrapa Soybean, 2004.
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Registro original: |
Embrapa Soja (CNPSO) |
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 | Acesso ao texto completo restrito à biblioteca da Embrapa Amazônia Ocidental. Para informações adicionais entre em contato com cpaa.biblioteca@embrapa.br. |
Registro Completo
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Biblioteca(s): |
Embrapa Amazônia Ocidental. |
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Data corrente: |
04/01/2024 |
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Data da última atualização: |
19/01/2024 |
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Tipo da produção científica: |
Artigo em Periódico Indexado |
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Circulação/Nível: |
A - 3 |
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Autoria: |
SEVERO, R.; SHIBUTANI, L. J. S.; SILVA, G. F. da; GUIMARÃES, S. da S. C.; ALCÂNTARA NETO, F. de; BESERRA JUNIOR, J. E. A.; SOUZA, J. F. F. de; MELO, M. P. de. |
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Afiliação: |
ROBINSON SEVERO, UNIVERSIDADE FEDERAL DO OESTE DO PARÁ; LEANDRO JUN SOKI SHIBUTANI, UNIVERSIDADE FEDERAL DO OESTE DO PARÁ; GILVAN FERREIRA DA SILVA, CPAA; SARAH DA SILVA COSTA GUIMARÃES, UNIVERSIDADE FEDERAL DE LAVRAS; FRANCISCO DE ALCÂNTARA NETO, UNIVERSIDADE FEDERAL DO PIAUÍ; JOSÉ EVANDO AGUIAR BESERRA JUNIOR, UNIVERSIDADE FEDERAL DO PIAUÍ; JOSÉ FÁBIO FERREIRA DE SOUZA, UNIVERSIDADE FEDERAL DO PIAUÍ; MARUZANETE PEREIRA DE MELO, UNIVERSIDADE FEDERAL DO PIAUÍ. |
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Título: |
Fusarium species causing root rot and wilt in tomato in Brazil. |
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Ano de publicação: |
2024 |
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Fonte/Imprenta: |
Journal of Phytopathology, v. 172, n. 1, e13261, 2024. |
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DOI: |
10.1111/jph.13261 |
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Idioma: |
Inglês |
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Conteúdo: |
A high frequency of plants showing symptoms of wilting and root rot has been observed in tomato-producing areas in Santarém and Belterra, Pará, Brazil. These plants showed symptoms ranging from yellowing to wilting, with roots displaying reduced development and darkening of the xylem. Four fungal isolates, derived from a collection of 12 obtained from symptomatic plants, were chosen for identification using both morphological and phylogenetic species concepts. |
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Palavras-Chave: |
Aetiology; Root pathogens; Tomato. |
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Thesagro: |
Tomate. |
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Thesaurus NAL: |
Solanum lycopersicum. |
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Categoria do assunto: |
-- |
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Marc: |
LEADER 01260naa a2200277 a 4500
001 2160434
005 2024-01-19
008 2024 bl uuuu u00u1 u #d
024 7 $a10.1111/jph.13261$2DOI
100 1 $aSEVERO, R.
245 $aFusarium species causing root rot and wilt in tomato in Brazil.$h[electronic resource]
260 $c2024
520 $aA high frequency of plants showing symptoms of wilting and root rot has been observed in tomato-producing areas in Santarém and Belterra, Pará, Brazil. These plants showed symptoms ranging from yellowing to wilting, with roots displaying reduced development and darkening of the xylem. Four fungal isolates, derived from a collection of 12 obtained from symptomatic plants, were chosen for identification using both morphological and phylogenetic species concepts.
650 $aSolanum lycopersicum
650 $aTomate
653 $aAetiology
653 $aRoot pathogens
653 $aTomato
700 1 $aSHIBUTANI, L. J. S.
700 1 $aSILVA, G. F. da
700 1 $aGUIMARÃES, S. da S. C.
700 1 $aALCÂNTARA NETO, F. de
700 1 $aBESERRA JUNIOR, J. E. A.
700 1 $aSOUZA, J. F. F. de
700 1 $aMELO, M. P. de
773 $tJournal of Phytopathology$gv. 172, n. 1, e13261, 2024.
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Embrapa Amazônia Ocidental (CPAA) |
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