The microbiome of brazilian mangrove sediments as revealed by metagenomics.
Autor(a) principal: | |
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Data de Publicação: | 2012 |
Outros Autores: | , , , , , , , , , |
Tipo de documento: | Artigo |
Idioma: | eng |
Título da fonte: | Repositório Institucional da EMBRAPA (Repository Open Access to Scientific Information from EMBRAPA - Alice) |
Texto Completo: | http://www.alice.cnptia.embrapa.br/alice/handle/doc/943451 |
Resumo: | ABSTRACT: Here we embark in a deep metagenomic survey that revealed the taxonomic and potential metabolic pathways aspects of mangrove sediment microbiology. The extraction of DNA from sediment samples and the direct application of pyrosequencing resulted in approximately 215 Mb of data from four distinct mangrove areas (BrMgv01 to 04) in Brazil. The taxonomic approaches applied revealed the dominance of Deltaproteobacteria and Gammaproteobacteria in the samples. Paired statistical analysis showed higher proportions of specific taxonomic groups in each dataset. The metabolic reconstruction indicated the possible occurrence of processes modulated by the prevailing conditions found in mangrove sediments. In terms of carbon cycling, the sequences indicated the prevalence of genes involved in the metabolism of methane, formaldehyde, and carbon dioxide. With respect to the nitrogen cycle, evidence for sequences associated with dissimilatory reduction of nitrate, nitrogen immobilization, and denitrification was detected. Sequences related to the production of adenylsulfate, sulfite, and H2S were relevant to the sulphur cycle. These data indicate that the microbial core involved in methane, nitrogen, and sulphur metabolism consists mainly of Burkholderiaceae, Planctomycetaceae, Rhodobacteraceae, and Desulfobacteraceae. Comparison of our data to datasets from soil and sea samples resulted in the allotment of the mangrove sediments between those samples. The results of this study add valuable data about the composition of microbial communities in mangroves and also shed light on possible transformations promoted by microbial organisms in mangrove sediments. |
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The microbiome of brazilian mangrove sediments as revealed by metagenomics.MetagenômicaMangueBactériaSedimentoMangrove forestsSedimentsMetagenomicsDelta-ProteobacteriaGamma-ProteobacteriaABSTRACT: Here we embark in a deep metagenomic survey that revealed the taxonomic and potential metabolic pathways aspects of mangrove sediment microbiology. The extraction of DNA from sediment samples and the direct application of pyrosequencing resulted in approximately 215 Mb of data from four distinct mangrove areas (BrMgv01 to 04) in Brazil. The taxonomic approaches applied revealed the dominance of Deltaproteobacteria and Gammaproteobacteria in the samples. Paired statistical analysis showed higher proportions of specific taxonomic groups in each dataset. The metabolic reconstruction indicated the possible occurrence of processes modulated by the prevailing conditions found in mangrove sediments. In terms of carbon cycling, the sequences indicated the prevalence of genes involved in the metabolism of methane, formaldehyde, and carbon dioxide. With respect to the nitrogen cycle, evidence for sequences associated with dissimilatory reduction of nitrate, nitrogen immobilization, and denitrification was detected. Sequences related to the production of adenylsulfate, sulfite, and H2S were relevant to the sulphur cycle. These data indicate that the microbial core involved in methane, nitrogen, and sulphur metabolism consists mainly of Burkholderiaceae, Planctomycetaceae, Rhodobacteraceae, and Desulfobacteraceae. Comparison of our data to datasets from soil and sea samples resulted in the allotment of the mangrove sediments between those samples. The results of this study add valuable data about the composition of microbial communities in mangroves and also shed light on possible transformations promoted by microbial organisms in mangrove sediments.FERNANDO DINI ANDREOTE, ESALQ-USP; DIEGO JAVIER JIMENEZ, Pontificia UNiversidad Javeriana; DIEOGO CHAVES, Colombian Center for Genomic and Bioinformatics from Extreme Environments; ARMANDO CAVALCANTE FRANCO DIAS, ESALQ-USP; DANICE MAZZER LUVIZOTTO, ESALQ-USP; FRANCISCO DINI-ANDREOTE, ESALQ-USP; CRISTIANE CIPOLA FASANELLA, ESALQ-USP; MARYEIMY VARON LOPEZ, ESALQ-USP; SANDRA BAENA, Pontificia Universidad Javeriana; RODRIGO GOUVÊA TAKETANI; ITAMAR SOARES DE MELO, CNPMA.ANDREOTE, F. D.JIMENEZ, D. J.CHAVES, D.DIAS, A. C. F.LUVIZOTTO, D. M.DINI-ANDREOTE, F.FASANELLA, C. C.VARON LOPEZ, M.BAENA, S.TAKETANI, R. G.MELO, I. S. de2012-12-21T11:11:11Z2012-12-21T11:11:11Z2012-12-2120122012-12-21T11:11:11Zinfo:eu-repo/semantics/publishedVersioninfo:eu-repo/semantics/articlePlos One, v. 7, n. 6, 14 p., 2012.http://www.alice.cnptia.embrapa.br/alice/handle/doc/943451enginfo:eu-repo/semantics/openAccessreponame:Repositório Institucional da EMBRAPA (Repository Open Access to Scientific Information from EMBRAPA - Alice)instname:Empresa Brasileira de Pesquisa Agropecuária (Embrapa)instacron:EMBRAPA2017-08-15T23:36:52Zoai:www.alice.cnptia.embrapa.br:doc/943451Repositório InstitucionalPUBhttps://www.alice.cnptia.embrapa.br/oai/requestopendoar:21542017-08-15T23:36:52falseRepositório InstitucionalPUBhttps://www.alice.cnptia.embrapa.br/oai/requestcg-riaa@embrapa.bropendoar:21542017-08-15T23:36:52Repositório Institucional da EMBRAPA (Repository Open Access to Scientific Information from EMBRAPA - Alice) - Empresa Brasileira de Pesquisa Agropecuária (Embrapa)false |
dc.title.none.fl_str_mv |
The microbiome of brazilian mangrove sediments as revealed by metagenomics. |
title |
The microbiome of brazilian mangrove sediments as revealed by metagenomics. |
spellingShingle |
The microbiome of brazilian mangrove sediments as revealed by metagenomics. ANDREOTE, F. D. Metagenômica Mangue Bactéria Sedimento Mangrove forests Sediments Metagenomics Delta-Proteobacteria Gamma-Proteobacteria |
title_short |
The microbiome of brazilian mangrove sediments as revealed by metagenomics. |
title_full |
The microbiome of brazilian mangrove sediments as revealed by metagenomics. |
title_fullStr |
The microbiome of brazilian mangrove sediments as revealed by metagenomics. |
title_full_unstemmed |
The microbiome of brazilian mangrove sediments as revealed by metagenomics. |
title_sort |
The microbiome of brazilian mangrove sediments as revealed by metagenomics. |
author |
ANDREOTE, F. D. |
author_facet |
ANDREOTE, F. D. JIMENEZ, D. J. CHAVES, D. DIAS, A. C. F. LUVIZOTTO, D. M. DINI-ANDREOTE, F. FASANELLA, C. C. VARON LOPEZ, M. BAENA, S. TAKETANI, R. G. MELO, I. S. de |
author_role |
author |
author2 |
JIMENEZ, D. J. CHAVES, D. DIAS, A. C. F. LUVIZOTTO, D. M. DINI-ANDREOTE, F. FASANELLA, C. C. VARON LOPEZ, M. BAENA, S. TAKETANI, R. G. MELO, I. S. de |
author2_role |
author author author author author author author author author author |
dc.contributor.none.fl_str_mv |
FERNANDO DINI ANDREOTE, ESALQ-USP; DIEGO JAVIER JIMENEZ, Pontificia UNiversidad Javeriana; DIEOGO CHAVES, Colombian Center for Genomic and Bioinformatics from Extreme Environments; ARMANDO CAVALCANTE FRANCO DIAS, ESALQ-USP; DANICE MAZZER LUVIZOTTO, ESALQ-USP; FRANCISCO DINI-ANDREOTE, ESALQ-USP; CRISTIANE CIPOLA FASANELLA, ESALQ-USP; MARYEIMY VARON LOPEZ, ESALQ-USP; SANDRA BAENA, Pontificia Universidad Javeriana; RODRIGO GOUVÊA TAKETANI; ITAMAR SOARES DE MELO, CNPMA. |
dc.contributor.author.fl_str_mv |
ANDREOTE, F. D. JIMENEZ, D. J. CHAVES, D. DIAS, A. C. F. LUVIZOTTO, D. M. DINI-ANDREOTE, F. FASANELLA, C. C. VARON LOPEZ, M. BAENA, S. TAKETANI, R. G. MELO, I. S. de |
dc.subject.por.fl_str_mv |
Metagenômica Mangue Bactéria Sedimento Mangrove forests Sediments Metagenomics Delta-Proteobacteria Gamma-Proteobacteria |
topic |
Metagenômica Mangue Bactéria Sedimento Mangrove forests Sediments Metagenomics Delta-Proteobacteria Gamma-Proteobacteria |
description |
ABSTRACT: Here we embark in a deep metagenomic survey that revealed the taxonomic and potential metabolic pathways aspects of mangrove sediment microbiology. The extraction of DNA from sediment samples and the direct application of pyrosequencing resulted in approximately 215 Mb of data from four distinct mangrove areas (BrMgv01 to 04) in Brazil. The taxonomic approaches applied revealed the dominance of Deltaproteobacteria and Gammaproteobacteria in the samples. Paired statistical analysis showed higher proportions of specific taxonomic groups in each dataset. The metabolic reconstruction indicated the possible occurrence of processes modulated by the prevailing conditions found in mangrove sediments. In terms of carbon cycling, the sequences indicated the prevalence of genes involved in the metabolism of methane, formaldehyde, and carbon dioxide. With respect to the nitrogen cycle, evidence for sequences associated with dissimilatory reduction of nitrate, nitrogen immobilization, and denitrification was detected. Sequences related to the production of adenylsulfate, sulfite, and H2S were relevant to the sulphur cycle. These data indicate that the microbial core involved in methane, nitrogen, and sulphur metabolism consists mainly of Burkholderiaceae, Planctomycetaceae, Rhodobacteraceae, and Desulfobacteraceae. Comparison of our data to datasets from soil and sea samples resulted in the allotment of the mangrove sediments between those samples. The results of this study add valuable data about the composition of microbial communities in mangroves and also shed light on possible transformations promoted by microbial organisms in mangrove sediments. |
publishDate |
2012 |
dc.date.none.fl_str_mv |
2012-12-21T11:11:11Z 2012-12-21T11:11:11Z 2012-12-21 2012 2012-12-21T11:11:11Z |
dc.type.driver.fl_str_mv |
info:eu-repo/semantics/publishedVersion info:eu-repo/semantics/article |
format |
article |
status_str |
publishedVersion |
dc.identifier.uri.fl_str_mv |
Plos One, v. 7, n. 6, 14 p., 2012. http://www.alice.cnptia.embrapa.br/alice/handle/doc/943451 |
identifier_str_mv |
Plos One, v. 7, n. 6, 14 p., 2012. |
url |
http://www.alice.cnptia.embrapa.br/alice/handle/doc/943451 |
dc.language.iso.fl_str_mv |
eng |
language |
eng |
dc.rights.driver.fl_str_mv |
info:eu-repo/semantics/openAccess |
eu_rights_str_mv |
openAccess |
dc.source.none.fl_str_mv |
reponame:Repositório Institucional da EMBRAPA (Repository Open Access to Scientific Information from EMBRAPA - Alice) instname:Empresa Brasileira de Pesquisa Agropecuária (Embrapa) instacron:EMBRAPA |
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Empresa Brasileira de Pesquisa Agropecuária (Embrapa) |
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EMBRAPA |
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EMBRAPA |
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Repositório Institucional da EMBRAPA (Repository Open Access to Scientific Information from EMBRAPA - Alice) |
collection |
Repositório Institucional da EMBRAPA (Repository Open Access to Scientific Information from EMBRAPA - Alice) |
repository.name.fl_str_mv |
Repositório Institucional da EMBRAPA (Repository Open Access to Scientific Information from EMBRAPA - Alice) - Empresa Brasileira de Pesquisa Agropecuária (Embrapa) |
repository.mail.fl_str_mv |
cg-riaa@embrapa.br |
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1794503373310918656 |