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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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Registro Completo
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Biblioteca(s): |
Embrapa Meio Ambiente. |
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Data corrente: |
25/02/2015 |
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Data da última atualização: |
16/10/2015 |
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Tipo da produção científica: |
Artigo em Periódico Indexado |
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Circulação/Nível: |
A - 1 |
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Autoria: |
CLEMENTE, Z.; GRILLO, R.; JONSSON, C. M.; SANTOS, N. Z. P. dos; FEITOSA, L. O.; LIMA, R. de; FRACETO, L. F. |
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Afiliação: |
ZAIRA CLEMENTE, IB-Unicamp; RENATO GRILLO, IB-Unicamp; CLAUDIO MARTIN JONSSON, CNPMA; NATHALIA ZOCAL PEREIRA DOS SANTOS, Universidade de Sorocaba; LEANDRO OLIVEIRA FEITOSA, UNESP-Sorocaba; RENATA DE LIMA, Universidade de Sorocaba; LEONARDO FERNANDES FRACETO, UNESP-Sorocaba. |
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Título: |
Ecotoxicological evaluation of poly(epsilon-caprolactone) nanocapsules containing triazine herbicides. |
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Ano de publicação: |
2014 |
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Fonte/Imprenta: |
Journal of Nanoscience and Nanotechnology, Stevenson Ranch, v. 14, n. 7, p. 4911-4917, 2014. |
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Idioma: |
Inglês |
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Conteúdo: |
Abstract: The triazine class of herbicides includes the compounds ametryn, atrazine, and simazine, which are used to control weeds in plantations of crops such as maize, sorghum, and sugar cane. Despite their acceptance in agriculture, these herbicides can be dangerous to the environment, depending on their toxicity, the degree of contamination, and the duration of exposure. Controlled release systems are increasingly used to mitigate problems of toxicity and minimize environmental impacts, and can also increase herbicide efficiency. The objective of this work was to prepare poly(epsilon-caprolactone) nanocapsules containing ametryn and atrazine, and evaluate their toxicity to aquatic organisms as well as in cytogenetic tests employing human lymphocyte cultures. The PCL nanocapsules were prepared according to the interfacial deposition of pre-formed polymer method. Ecotoxicological assays were performed with the alga Pseudokirchneriella subcapitata and the microcrustacean Daphnia similis. The cytogenetic tests consisted of observing mitotic index alterations after exposing lymphocyte cell cultures to different formulations. Encapsulation of the herbicides in the nanocapsules resulted in lower toxicity to the alga and higher toxicity to the microcrustacean, compared to the herbicides alone. The cytogenetic tests showed that formulations of nanocapsules containing the herbicides were less toxic than the herbicides alone. The findings indicate the potential of the nanocapsule formulations in agricultural applications, where they could help to reduce the quantities of herbicides used as well as impacts on the environment and human health. MenosAbstract: The triazine class of herbicides includes the compounds ametryn, atrazine, and simazine, which are used to control weeds in plantations of crops such as maize, sorghum, and sugar cane. Despite their acceptance in agriculture, these herbicides can be dangerous to the environment, depending on their toxicity, the degree of contamination, and the duration of exposure. Controlled release systems are increasingly used to mitigate problems of toxicity and minimize environmental impacts, and can also increase herbicide efficiency. The objective of this work was to prepare poly(epsilon-caprolactone) nanocapsules containing ametryn and atrazine, and evaluate their toxicity to aquatic organisms as well as in cytogenetic tests employing human lymphocyte cultures. The PCL nanocapsules were prepared according to the interfacial deposition of pre-formed polymer method. Ecotoxicological assays were performed with the alga Pseudokirchneriella subcapitata and the microcrustacean Daphnia similis. The cytogenetic tests consisted of observing mitotic index alterations after exposing lymphocyte cell cultures to different formulations. Encapsulation of the herbicides in the nanocapsules resulted in lower toxicity to the alga and higher toxicity to the microcrustacean, compared to the herbicides alone. The cytogenetic tests showed that formulations of nanocapsules containing the herbicides were less toxic than the herbicides alone. The findings indicate the potential of the nanocapsule f... Mostrar Tudo |
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Palavras-Chave: |
Environmental Chemistry; Polymeric nanoparticles; Pseudokirchneriella subcapitata. |
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Thesagro: |
Herbicida; Toxicologia. |
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Thesaurus NAL: |
Daphnia similis; Ecotoxicology; genotoxicity; Herbicides; Nanocapsules; Polymer nanocomposites; Triazines. |
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Categoria do assunto: |
H Saúde e Patologia |
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Marc: |
LEADER 02681naa a2200337 a 4500
001 2009890
005 2015-10-16
008 2014 bl uuuu u00u1 u #d
100 1 $aCLEMENTE, Z.
245 $aEcotoxicological evaluation of poly(epsilon-caprolactone) nanocapsules containing triazine herbicides.$h[electronic resource]
260 $c2014
520 $aAbstract: The triazine class of herbicides includes the compounds ametryn, atrazine, and simazine, which are used to control weeds in plantations of crops such as maize, sorghum, and sugar cane. Despite their acceptance in agriculture, these herbicides can be dangerous to the environment, depending on their toxicity, the degree of contamination, and the duration of exposure. Controlled release systems are increasingly used to mitigate problems of toxicity and minimize environmental impacts, and can also increase herbicide efficiency. The objective of this work was to prepare poly(epsilon-caprolactone) nanocapsules containing ametryn and atrazine, and evaluate their toxicity to aquatic organisms as well as in cytogenetic tests employing human lymphocyte cultures. The PCL nanocapsules were prepared according to the interfacial deposition of pre-formed polymer method. Ecotoxicological assays were performed with the alga Pseudokirchneriella subcapitata and the microcrustacean Daphnia similis. The cytogenetic tests consisted of observing mitotic index alterations after exposing lymphocyte cell cultures to different formulations. Encapsulation of the herbicides in the nanocapsules resulted in lower toxicity to the alga and higher toxicity to the microcrustacean, compared to the herbicides alone. The cytogenetic tests showed that formulations of nanocapsules containing the herbicides were less toxic than the herbicides alone. The findings indicate the potential of the nanocapsule formulations in agricultural applications, where they could help to reduce the quantities of herbicides used as well as impacts on the environment and human health.
650 $aDaphnia similis
650 $aEcotoxicology
650 $agenotoxicity
650 $aHerbicides
650 $aNanocapsules
650 $aPolymer nanocomposites
650 $aTriazines
650 $aHerbicida
650 $aToxicologia
653 $aEnvironmental Chemistry
653 $aPolymeric nanoparticles
653 $aPseudokirchneriella subcapitata
700 1 $aGRILLO, R.
700 1 $aJONSSON, C. M.
700 1 $aSANTOS, N. Z. P. dos
700 1 $aFEITOSA, L. O.
700 1 $aLIMA, R. de
700 1 $aFRACETO, L. F.
773 $tJournal of Nanoscience and Nanotechnology, Stevenson Ranch$gv. 14, n. 7, p. 4911-4917, 2014.
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