A comparative metagenome survey of the fecal microbiota of a breast- and a plant-fed Asian elephant reveals an unexpectedly high diversity of glycoside hydrolase family enzymes.

A phylogenetic and metagenomic study of elephant feces samples (derived from a three-weeks-old and a six-years-old Asian elephant) was conducted in order to describe the microbiota inhabiting this large land-living animal. The microbial diversity was examined via 16S rRNA gene analysis. We generated...

Descripción completa

Guardado en:
Detalles Bibliográficos
Autores principales: Nele Ilmberger, Simon Güllert, Joana Dannenberg, Ulrich Rabausch, Jeremy Torres, Bernd Wemheuer, Malik Alawi, Anja Poehlein, Jennifer Chow, Dimitrij Turaev, Thomas Rattei, Christel Schmeisser, Jesper Salomon, Peter B Olsen, Rolf Daniel, Adam Grundhoff, Martin S Borchert, Wolfgang R Streit
Formato: article
Lenguaje:EN
Publicado: Public Library of Science (PLoS) 2014
Materias:
R
Q
Acceso en línea:https://doaj.org/article/2694a8878f97415294ec010476aed1d1
Etiquetas: Agregar Etiqueta
Sin Etiquetas, Sea el primero en etiquetar este registro!
id oai:doaj.org-article:2694a8878f97415294ec010476aed1d1
record_format dspace
spelling oai:doaj.org-article:2694a8878f97415294ec010476aed1d12021-11-25T06:01:07ZA comparative metagenome survey of the fecal microbiota of a breast- and a plant-fed Asian elephant reveals an unexpectedly high diversity of glycoside hydrolase family enzymes.1932-620310.1371/journal.pone.0106707https://doaj.org/article/2694a8878f97415294ec010476aed1d12014-01-01T00:00:00Zhttps://doi.org/10.1371/journal.pone.0106707https://doaj.org/toc/1932-6203A phylogenetic and metagenomic study of elephant feces samples (derived from a three-weeks-old and a six-years-old Asian elephant) was conducted in order to describe the microbiota inhabiting this large land-living animal. The microbial diversity was examined via 16S rRNA gene analysis. We generated more than 44,000 GS-FLX+454 reads for each animal. For the baby elephant, 380 operational taxonomic units (OTUs) were identified at 97% sequence identity level; in the six-years-old animal, close to 3,000 OTUs were identified, suggesting high microbial diversity in the older animal. In both animals most OTUs belonged to Bacteroidetes and Firmicutes. Additionally, for the baby elephant a high number of Proteobacteria was detected. A metagenomic sequencing approach using Illumina technology resulted in the generation of 1.1 Gbp assembled DNA in contigs with a maximum size of 0.6 Mbp. A KEGG pathway analysis suggested high metabolic diversity regarding the use of polymers and aromatic and non-aromatic compounds. In line with the high phylogenetic diversity, a surprising and not previously described biodiversity of glycoside hydrolase (GH) genes was found. Enzymes of 84 GH families were detected. Polysaccharide utilization loci (PULs), which are found in Bacteroidetes, were highly abundant in the dataset; some of these comprised cellulase genes. Furthermore the highest coverage for GH5 and GH9 family enzymes was detected for Bacteroidetes, suggesting that bacteria of this phylum are mainly responsible for the degradation of cellulose in the Asian elephant. Altogether, this study delivers insight into the biomass conversion by one of the largest plant-fed and land-living animals.Nele IlmbergerSimon GüllertJoana DannenbergUlrich RabauschJeremy TorresBernd WemheuerMalik AlawiAnja PoehleinJennifer ChowDimitrij TuraevThomas RatteiChristel SchmeisserJesper SalomonPeter B OlsenRolf DanielAdam GrundhoffMartin S BorchertWolfgang R StreitPublic Library of Science (PLoS)articleMedicineRScienceQENPLoS ONE, Vol 9, Iss 9, p e106707 (2014)
institution DOAJ
collection DOAJ
language EN
topic Medicine
R
Science
Q
spellingShingle Medicine
R
Science
Q
Nele Ilmberger
Simon Güllert
Joana Dannenberg
Ulrich Rabausch
Jeremy Torres
Bernd Wemheuer
Malik Alawi
Anja Poehlein
Jennifer Chow
Dimitrij Turaev
Thomas Rattei
Christel Schmeisser
Jesper Salomon
Peter B Olsen
Rolf Daniel
Adam Grundhoff
Martin S Borchert
Wolfgang R Streit
A comparative metagenome survey of the fecal microbiota of a breast- and a plant-fed Asian elephant reveals an unexpectedly high diversity of glycoside hydrolase family enzymes.
description A phylogenetic and metagenomic study of elephant feces samples (derived from a three-weeks-old and a six-years-old Asian elephant) was conducted in order to describe the microbiota inhabiting this large land-living animal. The microbial diversity was examined via 16S rRNA gene analysis. We generated more than 44,000 GS-FLX+454 reads for each animal. For the baby elephant, 380 operational taxonomic units (OTUs) were identified at 97% sequence identity level; in the six-years-old animal, close to 3,000 OTUs were identified, suggesting high microbial diversity in the older animal. In both animals most OTUs belonged to Bacteroidetes and Firmicutes. Additionally, for the baby elephant a high number of Proteobacteria was detected. A metagenomic sequencing approach using Illumina technology resulted in the generation of 1.1 Gbp assembled DNA in contigs with a maximum size of 0.6 Mbp. A KEGG pathway analysis suggested high metabolic diversity regarding the use of polymers and aromatic and non-aromatic compounds. In line with the high phylogenetic diversity, a surprising and not previously described biodiversity of glycoside hydrolase (GH) genes was found. Enzymes of 84 GH families were detected. Polysaccharide utilization loci (PULs), which are found in Bacteroidetes, were highly abundant in the dataset; some of these comprised cellulase genes. Furthermore the highest coverage for GH5 and GH9 family enzymes was detected for Bacteroidetes, suggesting that bacteria of this phylum are mainly responsible for the degradation of cellulose in the Asian elephant. Altogether, this study delivers insight into the biomass conversion by one of the largest plant-fed and land-living animals.
format article
author Nele Ilmberger
Simon Güllert
Joana Dannenberg
Ulrich Rabausch
Jeremy Torres
Bernd Wemheuer
Malik Alawi
Anja Poehlein
Jennifer Chow
Dimitrij Turaev
Thomas Rattei
Christel Schmeisser
Jesper Salomon
Peter B Olsen
Rolf Daniel
Adam Grundhoff
Martin S Borchert
Wolfgang R Streit
author_facet Nele Ilmberger
Simon Güllert
Joana Dannenberg
Ulrich Rabausch
Jeremy Torres
Bernd Wemheuer
Malik Alawi
Anja Poehlein
Jennifer Chow
Dimitrij Turaev
Thomas Rattei
Christel Schmeisser
Jesper Salomon
Peter B Olsen
Rolf Daniel
Adam Grundhoff
Martin S Borchert
Wolfgang R Streit
author_sort Nele Ilmberger
title A comparative metagenome survey of the fecal microbiota of a breast- and a plant-fed Asian elephant reveals an unexpectedly high diversity of glycoside hydrolase family enzymes.
title_short A comparative metagenome survey of the fecal microbiota of a breast- and a plant-fed Asian elephant reveals an unexpectedly high diversity of glycoside hydrolase family enzymes.
title_full A comparative metagenome survey of the fecal microbiota of a breast- and a plant-fed Asian elephant reveals an unexpectedly high diversity of glycoside hydrolase family enzymes.
title_fullStr A comparative metagenome survey of the fecal microbiota of a breast- and a plant-fed Asian elephant reveals an unexpectedly high diversity of glycoside hydrolase family enzymes.
title_full_unstemmed A comparative metagenome survey of the fecal microbiota of a breast- and a plant-fed Asian elephant reveals an unexpectedly high diversity of glycoside hydrolase family enzymes.
title_sort comparative metagenome survey of the fecal microbiota of a breast- and a plant-fed asian elephant reveals an unexpectedly high diversity of glycoside hydrolase family enzymes.
publisher Public Library of Science (PLoS)
publishDate 2014
url https://doaj.org/article/2694a8878f97415294ec010476aed1d1
work_keys_str_mv AT neleilmberger acomparativemetagenomesurveyofthefecalmicrobiotaofabreastandaplantfedasianelephantrevealsanunexpectedlyhighdiversityofglycosidehydrolasefamilyenzymes
AT simongullert acomparativemetagenomesurveyofthefecalmicrobiotaofabreastandaplantfedasianelephantrevealsanunexpectedlyhighdiversityofglycosidehydrolasefamilyenzymes
AT joanadannenberg acomparativemetagenomesurveyofthefecalmicrobiotaofabreastandaplantfedasianelephantrevealsanunexpectedlyhighdiversityofglycosidehydrolasefamilyenzymes
AT ulrichrabausch acomparativemetagenomesurveyofthefecalmicrobiotaofabreastandaplantfedasianelephantrevealsanunexpectedlyhighdiversityofglycosidehydrolasefamilyenzymes
AT jeremytorres acomparativemetagenomesurveyofthefecalmicrobiotaofabreastandaplantfedasianelephantrevealsanunexpectedlyhighdiversityofglycosidehydrolasefamilyenzymes
AT berndwemheuer acomparativemetagenomesurveyofthefecalmicrobiotaofabreastandaplantfedasianelephantrevealsanunexpectedlyhighdiversityofglycosidehydrolasefamilyenzymes
AT malikalawi acomparativemetagenomesurveyofthefecalmicrobiotaofabreastandaplantfedasianelephantrevealsanunexpectedlyhighdiversityofglycosidehydrolasefamilyenzymes
AT anjapoehlein acomparativemetagenomesurveyofthefecalmicrobiotaofabreastandaplantfedasianelephantrevealsanunexpectedlyhighdiversityofglycosidehydrolasefamilyenzymes
AT jenniferchow acomparativemetagenomesurveyofthefecalmicrobiotaofabreastandaplantfedasianelephantrevealsanunexpectedlyhighdiversityofglycosidehydrolasefamilyenzymes
AT dimitrijturaev acomparativemetagenomesurveyofthefecalmicrobiotaofabreastandaplantfedasianelephantrevealsanunexpectedlyhighdiversityofglycosidehydrolasefamilyenzymes
AT thomasrattei acomparativemetagenomesurveyofthefecalmicrobiotaofabreastandaplantfedasianelephantrevealsanunexpectedlyhighdiversityofglycosidehydrolasefamilyenzymes
AT christelschmeisser acomparativemetagenomesurveyofthefecalmicrobiotaofabreastandaplantfedasianelephantrevealsanunexpectedlyhighdiversityofglycosidehydrolasefamilyenzymes
AT jespersalomon acomparativemetagenomesurveyofthefecalmicrobiotaofabreastandaplantfedasianelephantrevealsanunexpectedlyhighdiversityofglycosidehydrolasefamilyenzymes
AT peterbolsen acomparativemetagenomesurveyofthefecalmicrobiotaofabreastandaplantfedasianelephantrevealsanunexpectedlyhighdiversityofglycosidehydrolasefamilyenzymes
AT rolfdaniel acomparativemetagenomesurveyofthefecalmicrobiotaofabreastandaplantfedasianelephantrevealsanunexpectedlyhighdiversityofglycosidehydrolasefamilyenzymes
AT adamgrundhoff acomparativemetagenomesurveyofthefecalmicrobiotaofabreastandaplantfedasianelephantrevealsanunexpectedlyhighdiversityofglycosidehydrolasefamilyenzymes
AT martinsborchert acomparativemetagenomesurveyofthefecalmicrobiotaofabreastandaplantfedasianelephantrevealsanunexpectedlyhighdiversityofglycosidehydrolasefamilyenzymes
AT wolfgangrstreit acomparativemetagenomesurveyofthefecalmicrobiotaofabreastandaplantfedasianelephantrevealsanunexpectedlyhighdiversityofglycosidehydrolasefamilyenzymes
AT neleilmberger comparativemetagenomesurveyofthefecalmicrobiotaofabreastandaplantfedasianelephantrevealsanunexpectedlyhighdiversityofglycosidehydrolasefamilyenzymes
AT simongullert comparativemetagenomesurveyofthefecalmicrobiotaofabreastandaplantfedasianelephantrevealsanunexpectedlyhighdiversityofglycosidehydrolasefamilyenzymes
AT joanadannenberg comparativemetagenomesurveyofthefecalmicrobiotaofabreastandaplantfedasianelephantrevealsanunexpectedlyhighdiversityofglycosidehydrolasefamilyenzymes
AT ulrichrabausch comparativemetagenomesurveyofthefecalmicrobiotaofabreastandaplantfedasianelephantrevealsanunexpectedlyhighdiversityofglycosidehydrolasefamilyenzymes
AT jeremytorres comparativemetagenomesurveyofthefecalmicrobiotaofabreastandaplantfedasianelephantrevealsanunexpectedlyhighdiversityofglycosidehydrolasefamilyenzymes
AT berndwemheuer comparativemetagenomesurveyofthefecalmicrobiotaofabreastandaplantfedasianelephantrevealsanunexpectedlyhighdiversityofglycosidehydrolasefamilyenzymes
AT malikalawi comparativemetagenomesurveyofthefecalmicrobiotaofabreastandaplantfedasianelephantrevealsanunexpectedlyhighdiversityofglycosidehydrolasefamilyenzymes
AT anjapoehlein comparativemetagenomesurveyofthefecalmicrobiotaofabreastandaplantfedasianelephantrevealsanunexpectedlyhighdiversityofglycosidehydrolasefamilyenzymes
AT jenniferchow comparativemetagenomesurveyofthefecalmicrobiotaofabreastandaplantfedasianelephantrevealsanunexpectedlyhighdiversityofglycosidehydrolasefamilyenzymes
AT dimitrijturaev comparativemetagenomesurveyofthefecalmicrobiotaofabreastandaplantfedasianelephantrevealsanunexpectedlyhighdiversityofglycosidehydrolasefamilyenzymes
AT thomasrattei comparativemetagenomesurveyofthefecalmicrobiotaofabreastandaplantfedasianelephantrevealsanunexpectedlyhighdiversityofglycosidehydrolasefamilyenzymes
AT christelschmeisser comparativemetagenomesurveyofthefecalmicrobiotaofabreastandaplantfedasianelephantrevealsanunexpectedlyhighdiversityofglycosidehydrolasefamilyenzymes
AT jespersalomon comparativemetagenomesurveyofthefecalmicrobiotaofabreastandaplantfedasianelephantrevealsanunexpectedlyhighdiversityofglycosidehydrolasefamilyenzymes
AT peterbolsen comparativemetagenomesurveyofthefecalmicrobiotaofabreastandaplantfedasianelephantrevealsanunexpectedlyhighdiversityofglycosidehydrolasefamilyenzymes
AT rolfdaniel comparativemetagenomesurveyofthefecalmicrobiotaofabreastandaplantfedasianelephantrevealsanunexpectedlyhighdiversityofglycosidehydrolasefamilyenzymes
AT adamgrundhoff comparativemetagenomesurveyofthefecalmicrobiotaofabreastandaplantfedasianelephantrevealsanunexpectedlyhighdiversityofglycosidehydrolasefamilyenzymes
AT martinsborchert comparativemetagenomesurveyofthefecalmicrobiotaofabreastandaplantfedasianelephantrevealsanunexpectedlyhighdiversityofglycosidehydrolasefamilyenzymes
AT wolfgangrstreit comparativemetagenomesurveyofthefecalmicrobiotaofabreastandaplantfedasianelephantrevealsanunexpectedlyhighdiversityofglycosidehydrolasefamilyenzymes
_version_ 1718414270158340096