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: | eng |
Título da fonte: | Repositório Institucional da UNESP |
Texto Completo: | http://dx.doi.org/10.1590/S0100-06832010000300019 http://hdl.handle.net/11449/1086 |
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 dieselPCRCloning16S rRNAMetagenomicssoilBiosurfactantsDiesel 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.UNESP São Paulo State Univ, FCAV, Dept Biol Appl Agr & Anim Husb Dev, BR-14884900 Jaboticabal, SP, BrazilUniv São Paulo, BR-05508 São Paulo, BrazilEmpresa Brasileira de Pesquisa Agropecuária (EMBRAPA) Soybean, BR-86001970 Londrina, Parana, BrazilUNESP São Paulo State Univ, FCAV, Dept Biol Appl Agr & Anim Husb Dev, BR-14884900 Jaboticabal, SP, BrazilSociedade Brasileira de Ciência do SoloUniversidade Estadual Paulista (Unesp)Universidade de São Paulo (USP)Empresa Brasileira de Pesquisa Agropecuária (EMBRAPA)Alvaredo Paixao, Douglas Antonio [UNESP]Dimitrov, Mauricio RochaPereira, Rodrigo MatheusAccorsini, Fabio Raphael [UNESP]Vidotti, Maria Benincasa [UNESP]de Macedo Lemos, Eliana Gertrudes2014-05-20T13:13:14Z2014-05-20T13:13:14Z2010-05-01info:eu-repo/semantics/publishedVersioninfo:eu-repo/semantics/article773-781application/pdfhttp://dx.doi.org/10.1590/S0100-06832010000300019Revista Brasileira de Ciência do Solo. Vicosa: Soc Brasileira de Ciência do Solo, v. 34, n. 3, p. 773-781, 2010.0100-0683http://hdl.handle.net/11449/1086S0100-06832010000300019WOS:000280481000019S0100-06832010000300019-en.pdfWeb of Sciencereponame:Repositório Institucional da UNESPinstname:Universidade Estadual Paulista (UNESP)instacron:UNESPengRevista Brasileira de Ciência do Solo0.7990,679info:eu-repo/semantics/openAccess2024-06-06T13:04:43Zoai:repositorio.unesp.br:11449/1086Repositório InstitucionalPUBhttp://repositorio.unesp.br/oai/requestopendoar:29462024-08-05T17:10:09.242224Repositório 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 Alvaredo Paixao, Douglas Antonio [UNESP] PCR Cloning 16S rRNA Metagenomics soil Biosurfactants |
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 |
Alvaredo Paixao, Douglas Antonio [UNESP] |
author_facet |
Alvaredo Paixao, Douglas Antonio [UNESP] Dimitrov, Mauricio Rocha Pereira, Rodrigo Matheus Accorsini, Fabio Raphael [UNESP] Vidotti, Maria Benincasa [UNESP] de Macedo Lemos, Eliana Gertrudes |
author_role |
author |
author2 |
Dimitrov, Mauricio Rocha Pereira, Rodrigo Matheus Accorsini, Fabio Raphael [UNESP] Vidotti, Maria Benincasa [UNESP] de Macedo Lemos, Eliana Gertrudes |
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 |
Alvaredo Paixao, Douglas Antonio [UNESP] Dimitrov, Mauricio Rocha Pereira, Rodrigo Matheus Accorsini, Fabio Raphael [UNESP] Vidotti, Maria Benincasa [UNESP] de Macedo Lemos, Eliana Gertrudes |
dc.subject.por.fl_str_mv |
PCR Cloning 16S rRNA Metagenomics soil Biosurfactants |
topic |
PCR Cloning 16S rRNA Metagenomics soil Biosurfactants |
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 |
2010-05-01 2014-05-20T13:13:14Z 2014-05-20T13:13:14Z |
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 Ciência do Solo. Vicosa: Soc Brasileira de Ciência do Solo, v. 34, n. 3, p. 773-781, 2010. 0100-0683 http://hdl.handle.net/11449/1086 S0100-06832010000300019 WOS:000280481000019 S0100-06832010000300019-en.pdf |
url |
http://dx.doi.org/10.1590/S0100-06832010000300019 http://hdl.handle.net/11449/1086 |
identifier_str_mv |
Revista Brasileira de Ciência do Solo. Vicosa: Soc Brasileira de Ciência do Solo, v. 34, n. 3, p. 773-781, 2010. 0100-0683 S0100-06832010000300019 WOS:000280481000019 S0100-06832010000300019-en.pdf |
dc.language.iso.fl_str_mv |
eng |
language |
eng |
dc.relation.none.fl_str_mv |
Revista Brasileira de Ciência do Solo 0.799 0,679 |
dc.rights.driver.fl_str_mv |
info:eu-repo/semantics/openAccess |
eu_rights_str_mv |
openAccess |
dc.format.none.fl_str_mv |
773-781 application/pdf |
dc.publisher.none.fl_str_mv |
Sociedade Brasileira de Ciência do Solo |
publisher.none.fl_str_mv |
Sociedade Brasileira de Ciência do Solo |
dc.source.none.fl_str_mv |
Web of Science 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 |
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1808128764963454976 |