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 | Acesso ao texto completo restrito à biblioteca da Embrapa Milho e Sorgo. Para informações adicionais entre em contato com cnpms.biblioteca@embrapa.br. |
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Registro Completo |
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Biblioteca(s): |
Embrapa Milho e Sorgo. |
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Data corrente: |
23/01/2006 |
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Data da última atualização: |
29/05/2018 |
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Tipo da produção científica: |
Artigo em Periódico Indexado |
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Autoria: |
MOTA, F. F. da; GOMES, E. A.; PAIVA, E.; SELDIN, L. |
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Afiliação: |
ELIANE APARECIDA GOMES, CNPMS; EMBRAPA-CNPMS. |
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Título: |
Assessment of the diversity of Paenibacillus species in environmental samples by a novel rpoB-based PCR-DGGE method. |
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Ano de publicação: |
2005 |
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Fonte/Imprenta: |
FEMS Microbiology Ecology, Amsterdam, v. 53, n. 2, p. 317-328, 2005. |
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Idioma: |
Inglês |
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Conteúdo: |
A specific PCR system based on the gene encoding the RNA polymerase beta subunit, rpoB, was developed for amplification and denaturing gradient gel electrophoresis (DGGE) fingerprinting of Paenibacillus communities in environmental samples. This gene has been previously proven to be a powerful identification tool for the discrimination of species within the genus Paenibacillus and could avoid the limitations of 16S rRNA-based phylogenetic analysis. Initially, the PCR system based on universal rpoB primers were used to amplify DNAs of different Paenibacillus species. A new reverse primer (rpoBPAEN) was further designed based on an insertion of six nucleotides in the Paenibacillus sequences analyzed. This semi-nested PCR system was evaluated for specificity using DNAs isolated from 27 Paenibacillus species belonging to different 16S rRNA-based phylogenetic groups and seven non-Paenibacillus species. The non-Paenibacillus species were not amplified using this PCR approach and one group of Paenibacillus species consisting of strains without the six-base insert also were not amplified; these latter strains were found to be distinct based on 16S rRNA gene phylogeny. In addition, a clone library was generated from the rpoB fragments amplified from two Brazilian soil types (Cerrado and Forest) and all 62 clones sequenced were closely related to one of the 22 sequences from Paenibacillus previously obtained in this study. To assess the diversity of Paenibacillus species in Cerrado and Forest soils and in the rhizosphere of different cultivars of maize, a PCR-DGGE system was used. The Paenibacillus DGGE fingerprints showed a clear distinction between communities of Paenibacillus in Forest and Cerrado soils and rhizosphere samples clustered along Cerrado soil. Profiles of cultivars CMS22 and CMS36 clustered together, with only 53% of similarity to CMS11 and CMS04. The results presented here demonstrate the potential use of the rpoB-based Paenibacillus-specific PCR-DGGE method for studying the diversity of Paenibacillus populations in natural environments. MenosA specific PCR system based on the gene encoding the RNA polymerase beta subunit, rpoB, was developed for amplification and denaturing gradient gel electrophoresis (DGGE) fingerprinting of Paenibacillus communities in environmental samples. This gene has been previously proven to be a powerful identification tool for the discrimination of species within the genus Paenibacillus and could avoid the limitations of 16S rRNA-based phylogenetic analysis. Initially, the PCR system based on universal rpoB primers were used to amplify DNAs of different Paenibacillus species. A new reverse primer (rpoBPAEN) was further designed based on an insertion of six nucleotides in the Paenibacillus sequences analyzed. This semi-nested PCR system was evaluated for specificity using DNAs isolated from 27 Paenibacillus species belonging to different 16S rRNA-based phylogenetic groups and seven non-Paenibacillus species. The non-Paenibacillus species were not amplified using this PCR approach and one group of Paenibacillus species consisting of strains without the six-base insert also were not amplified; these latter strains were found to be distinct based on 16S rRNA gene phylogeny. In addition, a clone library was generated from the rpoB fragments amplified from two Brazilian soil types (Cerrado and Forest) and all 62 clones sequenced were closely related to one of the 22 sequences from Paenibacillus previously obtained in this study. To assess the diversity of Paenibacillus species in Cerrado an... Mostrar Tudo |
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Palavras-Chave: |
Cerrado soil; Diversity; Forest soil; Maize rhizosphere; PCR-DGGE; RpoB. |
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Thesaurus Nal: |
Paenibacillus. |
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Categoria do assunto: |
-- |
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Marc: |
LEADER 02787naa a2200241 a 4500
001 1489140
005 2018-05-29
008 2005 bl uuuu u00u1 u #d
100 1 $aMOTA, F. F. da
245 $aAssessment of the diversity of Paenibacillus species in environmental samples by a novel rpoB-based PCR-DGGE method.$h[electronic resource]
260 $c2005
520 $aA specific PCR system based on the gene encoding the RNA polymerase beta subunit, rpoB, was developed for amplification and denaturing gradient gel electrophoresis (DGGE) fingerprinting of Paenibacillus communities in environmental samples. This gene has been previously proven to be a powerful identification tool for the discrimination of species within the genus Paenibacillus and could avoid the limitations of 16S rRNA-based phylogenetic analysis. Initially, the PCR system based on universal rpoB primers were used to amplify DNAs of different Paenibacillus species. A new reverse primer (rpoBPAEN) was further designed based on an insertion of six nucleotides in the Paenibacillus sequences analyzed. This semi-nested PCR system was evaluated for specificity using DNAs isolated from 27 Paenibacillus species belonging to different 16S rRNA-based phylogenetic groups and seven non-Paenibacillus species. The non-Paenibacillus species were not amplified using this PCR approach and one group of Paenibacillus species consisting of strains without the six-base insert also were not amplified; these latter strains were found to be distinct based on 16S rRNA gene phylogeny. In addition, a clone library was generated from the rpoB fragments amplified from two Brazilian soil types (Cerrado and Forest) and all 62 clones sequenced were closely related to one of the 22 sequences from Paenibacillus previously obtained in this study. To assess the diversity of Paenibacillus species in Cerrado and Forest soils and in the rhizosphere of different cultivars of maize, a PCR-DGGE system was used. The Paenibacillus DGGE fingerprints showed a clear distinction between communities of Paenibacillus in Forest and Cerrado soils and rhizosphere samples clustered along Cerrado soil. Profiles of cultivars CMS22 and CMS36 clustered together, with only 53% of similarity to CMS11 and CMS04. The results presented here demonstrate the potential use of the rpoB-based Paenibacillus-specific PCR-DGGE method for studying the diversity of Paenibacillus populations in natural environments.
650 $aPaenibacillus
653 $aCerrado soil
653 $aDiversity
653 $aForest soil
653 $aMaize rhizosphere
653 $aPCR-DGGE
653 $aRpoB
700 1 $aGOMES, E. A.
700 1 $aPAIVA, E.
700 1 $aSELDIN, L.
773 $tFEMS Microbiology Ecology, Amsterdam$gv. 53, n. 2, p. 317-328, 2005.
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Embrapa Milho e Sorgo (CNPMS) |
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| 1. |  | BANHUNK, I. E.; BIZZO, H.; PEÑUELA, L. Y. F.; DESCHAMPS, C.; GUBERT, C.; STORCK, R. C.; ROSA, G. M. Avaliação do teor e produtividade de óleo essencial de nove procedências de Lippia Alba no terceiro corte. In: SIMPÓSIO IBEROAMERICANO DE PLANTAS MEDICINAIS, 5., 2010, Itajaí. Posters... Itajaí: Univali, 2010.| Tipo: Resumo em Anais de Congresso |
| Biblioteca(s): Embrapa Agroindústria de Alimentos. |
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| 2. | | GUBERT, C.; BIZZO, H.; DESCHAMPS, C.; BANHUNK, I. E.; PEÑUELA, L. Y. F.; STORCK, R. C.; ROSA, G. M.; LIMA, F. Composição de óleo essencial de myrtaceas da Mata Atlântica - Antonina, PR. In: SIMPÓSIO IBEROAMERICANO DE PLANTAS MEDICINAIS, 5., 2010, Itajaí. Posters... Itajaí: Univali, 2010.| Tipo: Resumo em Anais de Congresso |
| Biblioteca(s): Embrapa Agroindústria de Alimentos. |
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| 3. | | GUBERT, C.; BIZZO, H.; DESCHAMPS, C.; BANHUNK, I. E.; PEÑUELA, L. Y. F.; STORCK, R. C.; ROSA, G. M.; LIMA, F. I. Composição do óleo essencial de Piper caldense C.D.C. e Piper solmsianum C.D.C. provenientes da Mata Atlântica do litoral do Paraná. In: SIMPÓSIO IBEROAMERICANO DE PLANTAS MEDICINAIS, 5., 2010, Itajaí. Posters... Itajaí: Univali, 2010.| Tipo: Resumo em Anais de Congresso |
| Biblioteca(s): Embrapa Agroindústria de Alimentos. |
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| Registros recuperados : 3 | |
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