Molecular analysis of the bacterial diversity in a specialized consortium for diesel oil degradation
Autor(a) principal: | |
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Data de Publicação: | 2010 |
Outros Autores: | , , , , |
Tipo de documento: | Artigo |
Idioma: | por |
Título da fonte: | Repositório Institucional da UNESP |
Texto Completo: | http://dx.doi.org/10.1590/s0100-06832010000300019 http://hdl.handle.net/11449/219587 |
Resumo: | Diesel oil is a compound derived from petroleum, consisting primarily of hydrocarbons. Poor conditions in transportation and storage of this product can contribute significantly to accidental spills causing serious ecological problems in soil and water and affecting the diversity of the microbial environment. The cloning and sequencing of the 16S rRNA gene is one of the molecular techniques that allows estimation and comparison of the microbial diversity in different environmental samples. The aim of this work was to estimate the diversity of microorganisms from the Bacteria domain in a consortium specialized in diesel oil degradation through partial sequencing of the 16S rRNA gene. After the extraction of DNA metagenomics, the material was amplified by PCR reaction using specific oligonucleotide primers for the 16S rRNA gene. The PCR products were cloned into a pGEM-T-Easy vector (Promega), and Escherichia coli was used as the host cell for recombinant DNAs. The partial clone sequencing was obtained using universal oligonucleotide primers from the vector. The genetic library obtained generated 431 clones. All the sequenced clones presented similarity to phylum Proteobacteria, with Gammaproteobacteria the most present group (49.8 % of the clones), followed by Alphaproteobacteira (44.8 %) and Betaproteobacteria (5.4 %). The Pseudomonas genus was the most abundant in the metagenomic library, followed by the Parvibaculum and the Sphingobium genus, respectively. After partial sequencing of the 16S rRNA, the diversity of the bacterial consortium was estimated using DOTUR software. When comparing these sequences to the database from the National Center for Biotechnology Information (NCBI), a strong correlation was found between the data generated by the software used and the data deposited in NCBI. |
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Molecular analysis of the bacterial diversity in a specialized consortium for diesel oil degradationAnálise molecular da diversidade bacteriana de um consórcio degradador de óleo diesel16s rRNABiosurfactantsCloningMetagenomicsPCRSoilDiesel oil is a compound derived from petroleum, consisting primarily of hydrocarbons. Poor conditions in transportation and storage of this product can contribute significantly to accidental spills causing serious ecological problems in soil and water and affecting the diversity of the microbial environment. The cloning and sequencing of the 16S rRNA gene is one of the molecular techniques that allows estimation and comparison of the microbial diversity in different environmental samples. The aim of this work was to estimate the diversity of microorganisms from the Bacteria domain in a consortium specialized in diesel oil degradation through partial sequencing of the 16S rRNA gene. After the extraction of DNA metagenomics, the material was amplified by PCR reaction using specific oligonucleotide primers for the 16S rRNA gene. The PCR products were cloned into a pGEM-T-Easy vector (Promega), and Escherichia coli was used as the host cell for recombinant DNAs. The partial clone sequencing was obtained using universal oligonucleotide primers from the vector. The genetic library obtained generated 431 clones. All the sequenced clones presented similarity to phylum Proteobacteria, with Gammaproteobacteria the most present group (49.8 % of the clones), followed by Alphaproteobacteira (44.8 %) and Betaproteobacteria (5.4 %). The Pseudomonas genus was the most abundant in the metagenomic library, followed by the Parvibaculum and the Sphingobium genus, respectively. After partial sequencing of the 16S rRNA, the diversity of the bacterial consortium was estimated using DOTUR software. When comparing these sequences to the database from the National Center for Biotechnology Information (NCBI), a strong correlation was found between the data generated by the software used and the data deposited in NCBI.FCAV UNESP - São Paulo State University, Rod. Paulo Donato Castellane s/n, CEP 14884-900 Jaboticabal, São PauloUniversity of São Paulo (USP)Embrapa Soybean, Rod Carlos João Strass - Distrito de Warta, CEP 86001-970 Londrina- ParanáFCAV UNESP - São Paulo State UniversityFCAV UNESP - São Paulo State University, Rod. Paulo Donato Castellane s/n, CEP 14884-900 Jaboticabal, São PauloFCAV UNESP - São Paulo State UniversityUniversidade Estadual Paulista (UNESP)Universidade de São Paulo (USP)Empresa Brasileira de Pesquisa Agropecuária (EMBRAPA)Paixão, Douglas Antonio Alvaredo [UNESP]Dimitrov, Mauricio RochaPereira, Rodrigo MatheusAccorsini, Fábio Raphael [UNESP]Vidotti, Maria Benincasa [UNESP]de Macedo Lemos, Eliana Gertrudes [UNESP]2022-04-28T18:56:20Z2022-04-28T18:56:20Z2010-01-01info:eu-repo/semantics/publishedVersioninfo:eu-repo/semantics/article773-781http://dx.doi.org/10.1590/s0100-06832010000300019Revista Brasileira de Ciencia do Solo, v. 34, n. 3, p. 773-781, 2010.1806-96570100-0683http://hdl.handle.net/11449/21958710.1590/s0100-068320100003000192-s2.0-77956940766Scopusreponame:Repositório Institucional da UNESPinstname:Universidade Estadual Paulista (UNESP)instacron:UNESPporRevista Brasileira de Ciencia do Soloinfo:eu-repo/semantics/openAccess2022-04-28T18:56:20Zoai:repositorio.unesp.br:11449/219587Repositório InstitucionalPUBhttp://repositorio.unesp.br/oai/requestopendoar:29462024-08-05T18:19:23.472177Repositório Institucional da UNESP - Universidade Estadual Paulista (UNESP)false |
dc.title.none.fl_str_mv |
Molecular analysis of the bacterial diversity in a specialized consortium for diesel oil degradation Análise molecular da diversidade bacteriana de um consórcio degradador de óleo diesel |
title |
Molecular analysis of the bacterial diversity in a specialized consortium for diesel oil degradation |
spellingShingle |
Molecular analysis of the bacterial diversity in a specialized consortium for diesel oil degradation Paixão, Douglas Antonio Alvaredo [UNESP] 16s rRNA Biosurfactants Cloning Metagenomics PCR Soil |
title_short |
Molecular analysis of the bacterial diversity in a specialized consortium for diesel oil degradation |
title_full |
Molecular analysis of the bacterial diversity in a specialized consortium for diesel oil degradation |
title_fullStr |
Molecular analysis of the bacterial diversity in a specialized consortium for diesel oil degradation |
title_full_unstemmed |
Molecular analysis of the bacterial diversity in a specialized consortium for diesel oil degradation |
title_sort |
Molecular analysis of the bacterial diversity in a specialized consortium for diesel oil degradation |
author |
Paixão, Douglas Antonio Alvaredo [UNESP] |
author_facet |
Paixão, Douglas Antonio Alvaredo [UNESP] Dimitrov, Mauricio Rocha Pereira, Rodrigo Matheus Accorsini, Fábio Raphael [UNESP] Vidotti, Maria Benincasa [UNESP] de Macedo Lemos, Eliana Gertrudes [UNESP] |
author_role |
author |
author2 |
Dimitrov, Mauricio Rocha Pereira, Rodrigo Matheus Accorsini, Fábio Raphael [UNESP] Vidotti, Maria Benincasa [UNESP] de Macedo Lemos, Eliana Gertrudes [UNESP] |
author2_role |
author author author author author |
dc.contributor.none.fl_str_mv |
Universidade Estadual Paulista (UNESP) Universidade de São Paulo (USP) Empresa Brasileira de Pesquisa Agropecuária (EMBRAPA) |
dc.contributor.author.fl_str_mv |
Paixão, Douglas Antonio Alvaredo [UNESP] Dimitrov, Mauricio Rocha Pereira, Rodrigo Matheus Accorsini, Fábio Raphael [UNESP] Vidotti, Maria Benincasa [UNESP] de Macedo Lemos, Eliana Gertrudes [UNESP] |
dc.subject.por.fl_str_mv |
16s rRNA Biosurfactants Cloning Metagenomics PCR Soil |
topic |
16s rRNA Biosurfactants Cloning Metagenomics PCR Soil |
description |
Diesel oil is a compound derived from petroleum, consisting primarily of hydrocarbons. Poor conditions in transportation and storage of this product can contribute significantly to accidental spills causing serious ecological problems in soil and water and affecting the diversity of the microbial environment. The cloning and sequencing of the 16S rRNA gene is one of the molecular techniques that allows estimation and comparison of the microbial diversity in different environmental samples. The aim of this work was to estimate the diversity of microorganisms from the Bacteria domain in a consortium specialized in diesel oil degradation through partial sequencing of the 16S rRNA gene. After the extraction of DNA metagenomics, the material was amplified by PCR reaction using specific oligonucleotide primers for the 16S rRNA gene. The PCR products were cloned into a pGEM-T-Easy vector (Promega), and Escherichia coli was used as the host cell for recombinant DNAs. The partial clone sequencing was obtained using universal oligonucleotide primers from the vector. The genetic library obtained generated 431 clones. All the sequenced clones presented similarity to phylum Proteobacteria, with Gammaproteobacteria the most present group (49.8 % of the clones), followed by Alphaproteobacteira (44.8 %) and Betaproteobacteria (5.4 %). The Pseudomonas genus was the most abundant in the metagenomic library, followed by the Parvibaculum and the Sphingobium genus, respectively. After partial sequencing of the 16S rRNA, the diversity of the bacterial consortium was estimated using DOTUR software. When comparing these sequences to the database from the National Center for Biotechnology Information (NCBI), a strong correlation was found between the data generated by the software used and the data deposited in NCBI. |
publishDate |
2010 |
dc.date.none.fl_str_mv |
2010-01-01 2022-04-28T18:56:20Z 2022-04-28T18:56:20Z |
dc.type.status.fl_str_mv |
info:eu-repo/semantics/publishedVersion |
dc.type.driver.fl_str_mv |
info:eu-repo/semantics/article |
format |
article |
status_str |
publishedVersion |
dc.identifier.uri.fl_str_mv |
http://dx.doi.org/10.1590/s0100-06832010000300019 Revista Brasileira de Ciencia do Solo, v. 34, n. 3, p. 773-781, 2010. 1806-9657 0100-0683 http://hdl.handle.net/11449/219587 10.1590/s0100-06832010000300019 2-s2.0-77956940766 |
url |
http://dx.doi.org/10.1590/s0100-06832010000300019 http://hdl.handle.net/11449/219587 |
identifier_str_mv |
Revista Brasileira de Ciencia do Solo, v. 34, n. 3, p. 773-781, 2010. 1806-9657 0100-0683 10.1590/s0100-06832010000300019 2-s2.0-77956940766 |
dc.language.iso.fl_str_mv |
por |
language |
por |
dc.relation.none.fl_str_mv |
Revista Brasileira de Ciencia do Solo |
dc.rights.driver.fl_str_mv |
info:eu-repo/semantics/openAccess |
eu_rights_str_mv |
openAccess |
dc.format.none.fl_str_mv |
773-781 |
dc.source.none.fl_str_mv |
Scopus reponame:Repositório Institucional da UNESP instname:Universidade Estadual Paulista (UNESP) instacron:UNESP |
instname_str |
Universidade Estadual Paulista (UNESP) |
instacron_str |
UNESP |
institution |
UNESP |
reponame_str |
Repositório Institucional da UNESP |
collection |
Repositório Institucional da UNESP |
repository.name.fl_str_mv |
Repositório Institucional da UNESP - Universidade Estadual Paulista (UNESP) |
repository.mail.fl_str_mv |
|
_version_ |
1808128919418699776 |