Bacterial diversity in bovine rumen by metagenomic 16S rDNA sequencing and scanning electron microscopy

Detalhes bibliográficos
Autor(a) principal: Jesus, Raphael Barbetta De
Data de Publicação: 2015
Outros Autores: Omori, Wellington Pine, Lemos, Eliana Gertrudes De Macedo, Souza, Jackson Antônio Marcondes De
Tipo de documento: Artigo
Idioma: eng
Título da fonte: Repositório Institucional da UNESP
Texto Completo: http://dx.doi.org/10.4025/actascianimsci.v37i3.26535
http://hdl.handle.net/11449/158178
Resumo: The bacterial diversity by 16S rDNA partial sequencing and scanning electron microscope (SEM) of the rumen microbiome was characterized. Three Nellore bovines, cannulated at the rumen, were utilized. Liquid and solid fractions from the rumen content were processed for the extraction of metagenomic DNA and later 16S rDNA amplicons were utilized to construct the WGA library for further clone sequencing. Data were analyzed by MEGA and MOTUR (University of Michigan) softwares. Approximately 97.96% of operation taxonomic units (OTUs) were related to Bacteriodetes phylum and 2.04% of sequences were affiliated to Firmicutes phylum. In the case of Bacteriodetes, the great part of sequences (47.96%) was attributed to Prevotella genus. Bacteroidetes phylum was predominant in rumen content and the Prevotella genus was the most abundant, including diverse species related to this taxon. The bacterial morphological diversity associated to plant fibers was detected by SEM and showed its role in plant biomass deconstruction beyond the detection of microbiological interactions that involved protozoa.
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spelling Bacterial diversity in bovine rumen by metagenomic 16S rDNA sequencing and scanning electron microscopyDiversidade bacteriana em rúmen bovino por análise de sequências do 16S rDNA metagenômico e microscopia eletrônica de varredurabacterial communitybacterioidetesNellorePrevotellataxonomic affiliation.comunidade bacterianabacteroidetesNelorePrevotellaafiliação taxonômica.The bacterial diversity by 16S rDNA partial sequencing and scanning electron microscope (SEM) of the rumen microbiome was characterized. Three Nellore bovines, cannulated at the rumen, were utilized. Liquid and solid fractions from the rumen content were processed for the extraction of metagenomic DNA and later 16S rDNA amplicons were utilized to construct the WGA library for further clone sequencing. Data were analyzed by MEGA and MOTUR (University of Michigan) softwares. Approximately 97.96% of operation taxonomic units (OTUs) were related to Bacteriodetes phylum and 2.04% of sequences were affiliated to Firmicutes phylum. In the case of Bacteriodetes, the great part of sequences (47.96%) was attributed to Prevotella genus. Bacteroidetes phylum was predominant in rumen content and the Prevotella genus was the most abundant, including diverse species related to this taxon. The bacterial morphological diversity associated to plant fibers was detected by SEM and showed its role in plant biomass deconstruction beyond the detection of microbiological interactions that involved protozoa.O estudo foi realizado para caracterizar a diversidade bacteriana por meio do sequenciamento parcial do 16S rDNA total e microscopia eletrônica de varredura (MEV) do microbioma ruminal. Foram utilizados três bovinos da raça Nelore, canulados no rúmen. As frações líquidas e sólidas do conteúdo ruminal foram processadas para extração de DNA metagenômico. Em seguida, amplicons 16S rDNA foram utilizados na construção da biblioteca WGA para posterior sequenciamento dos clones. Os dados foram analisados pelos softwares MEGA e MOTHUR (The University of Michigan). Aproximadamente 97,96% das UTOs foram relacionadas ao filo Bacteroidetes e apenas 2,04% das sequências foram afiliadas ao filo Firmicutes. Para o filo Bacteroidetes, grande parte das sequências (47,96%) foi atribuída ao gênero Prevotella. O filo Bacteroidetes foi predominante no conteúdo ruminal e o gênero Prevotella foi o mais abundante, incluindo diversas espécies relacionadas a esse nível taxonômico. A diversidade morfológica bacteriana associada às fibras vegetais foi detectada por MEV, evidenciando seu papel na desconstrução da biomassa vegetal, além da detecção de interações microbiológicas que envolvem protozoários.Universidade Estadual Paulista Faculdade de Ciências Agrárias e VeterináriasUniversidade Estadual Paulista Faculdade de Ciências Agrárias e Veterinárias Departamento de Biologia Aplicada à AgropecuáriaUniversidade Estadual Paulista Faculdade de Ciências Agrárias e Veterinárias Departamento de TecnologiaUniversidade Estadual Paulista Faculdade de Ciências Agrárias e VeterináriasUniversidade Estadual Paulista Faculdade de Ciências Agrárias e Veterinárias Departamento de Biologia Aplicada à AgropecuáriaUniversidade Estadual Paulista Faculdade de Ciências Agrárias e Veterinárias Departamento de TecnologiaEditora da Universidade Estadual de Maringá - EDUEMUniversidade Estadual Paulista (Unesp)Jesus, Raphael Barbetta DeOmori, Wellington PineLemos, Eliana Gertrudes De MacedoSouza, Jackson Antônio Marcondes De2018-11-12T17:28:42Z2018-11-12T17:28:42Z2015-09-01info:eu-repo/semantics/publishedVersioninfo:eu-repo/semantics/article251-257application/pdfhttp://dx.doi.org/10.4025/actascianimsci.v37i3.26535Acta Scientiarum. Animal Sciences. Editora da Universidade Estadual de Maringá - EDUEM, v. 37, n. 3, p. 251-257, 2015.1807-8672http://hdl.handle.net/11449/15817810.4025/actascianimsci.v37i3.26535S1807-86722015000300251S1807-86722015000300251.pdfSciELOreponame:Repositório Institucional da UNESPinstname:Universidade Estadual Paulista (UNESP)instacron:UNESPengActa Scientiarum. Animal Sciencesinfo:eu-repo/semantics/openAccess2024-06-07T15:32:35Zoai:repositorio.unesp.br:11449/158178Repositório InstitucionalPUBhttp://repositorio.unesp.br/oai/requestopendoar:29462024-08-05T22:11:49.832800Repositório Institucional da UNESP - Universidade Estadual Paulista (UNESP)false
dc.title.none.fl_str_mv Bacterial diversity in bovine rumen by metagenomic 16S rDNA sequencing and scanning electron microscopy
Diversidade bacteriana em rúmen bovino por análise de sequências do 16S rDNA metagenômico e microscopia eletrônica de varredura
title Bacterial diversity in bovine rumen by metagenomic 16S rDNA sequencing and scanning electron microscopy
spellingShingle Bacterial diversity in bovine rumen by metagenomic 16S rDNA sequencing and scanning electron microscopy
Jesus, Raphael Barbetta De
bacterial community
bacterioidetes
Nellore
Prevotella
taxonomic affiliation.
comunidade bacteriana
bacteroidetes
Nelore
Prevotella
afiliação taxonômica.
title_short Bacterial diversity in bovine rumen by metagenomic 16S rDNA sequencing and scanning electron microscopy
title_full Bacterial diversity in bovine rumen by metagenomic 16S rDNA sequencing and scanning electron microscopy
title_fullStr Bacterial diversity in bovine rumen by metagenomic 16S rDNA sequencing and scanning electron microscopy
title_full_unstemmed Bacterial diversity in bovine rumen by metagenomic 16S rDNA sequencing and scanning electron microscopy
title_sort Bacterial diversity in bovine rumen by metagenomic 16S rDNA sequencing and scanning electron microscopy
author Jesus, Raphael Barbetta De
author_facet Jesus, Raphael Barbetta De
Omori, Wellington Pine
Lemos, Eliana Gertrudes De Macedo
Souza, Jackson Antônio Marcondes De
author_role author
author2 Omori, Wellington Pine
Lemos, Eliana Gertrudes De Macedo
Souza, Jackson Antônio Marcondes De
author2_role author
author
author
dc.contributor.none.fl_str_mv Universidade Estadual Paulista (Unesp)
dc.contributor.author.fl_str_mv Jesus, Raphael Barbetta De
Omori, Wellington Pine
Lemos, Eliana Gertrudes De Macedo
Souza, Jackson Antônio Marcondes De
dc.subject.por.fl_str_mv bacterial community
bacterioidetes
Nellore
Prevotella
taxonomic affiliation.
comunidade bacteriana
bacteroidetes
Nelore
Prevotella
afiliação taxonômica.
topic bacterial community
bacterioidetes
Nellore
Prevotella
taxonomic affiliation.
comunidade bacteriana
bacteroidetes
Nelore
Prevotella
afiliação taxonômica.
description The bacterial diversity by 16S rDNA partial sequencing and scanning electron microscope (SEM) of the rumen microbiome was characterized. Three Nellore bovines, cannulated at the rumen, were utilized. Liquid and solid fractions from the rumen content were processed for the extraction of metagenomic DNA and later 16S rDNA amplicons were utilized to construct the WGA library for further clone sequencing. Data were analyzed by MEGA and MOTUR (University of Michigan) softwares. Approximately 97.96% of operation taxonomic units (OTUs) were related to Bacteriodetes phylum and 2.04% of sequences were affiliated to Firmicutes phylum. In the case of Bacteriodetes, the great part of sequences (47.96%) was attributed to Prevotella genus. Bacteroidetes phylum was predominant in rumen content and the Prevotella genus was the most abundant, including diverse species related to this taxon. The bacterial morphological diversity associated to plant fibers was detected by SEM and showed its role in plant biomass deconstruction beyond the detection of microbiological interactions that involved protozoa.
publishDate 2015
dc.date.none.fl_str_mv 2015-09-01
2018-11-12T17:28:42Z
2018-11-12T17:28:42Z
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/10.4025/actascianimsci.v37i3.26535
Acta Scientiarum. Animal Sciences. Editora da Universidade Estadual de Maringá - EDUEM, v. 37, n. 3, p. 251-257, 2015.
1807-8672
http://hdl.handle.net/11449/158178
10.4025/actascianimsci.v37i3.26535
S1807-86722015000300251
S1807-86722015000300251.pdf
url http://dx.doi.org/10.4025/actascianimsci.v37i3.26535
http://hdl.handle.net/11449/158178
identifier_str_mv Acta Scientiarum. Animal Sciences. Editora da Universidade Estadual de Maringá - EDUEM, v. 37, n. 3, p. 251-257, 2015.
1807-8672
10.4025/actascianimsci.v37i3.26535
S1807-86722015000300251
S1807-86722015000300251.pdf
dc.language.iso.fl_str_mv eng
language eng
dc.relation.none.fl_str_mv Acta Scientiarum. Animal Sciences
dc.rights.driver.fl_str_mv info:eu-repo/semantics/openAccess
eu_rights_str_mv openAccess
dc.format.none.fl_str_mv 251-257
application/pdf
dc.publisher.none.fl_str_mv Editora da Universidade Estadual de Maringá - EDUEM
publisher.none.fl_str_mv Editora da Universidade Estadual de Maringá - EDUEM
dc.source.none.fl_str_mv SciELO
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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