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Ninety-nine de novo...
Ninety-nine de novo assembled genomes from the moose (Alces alces) rumen microbiome provide new insights into microbial plant biomass degradation
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- Svartström, Olov (author)
- KTH,Industriell bioteknologi,Royal Institute of Technology (KTH)
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- Alneberg, Johannes (author)
- KTH,Genteknologi,Science for Life Laboratory, SciLifeLab
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Terrapon, Nicolas (author)
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Lombard, Vincent (author)
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- de Bruijn, Ino (author)
- KTH,Genteknologi,Science for Life Laboratory, SciLifeLab
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- Malmsten, Jonas (author)
- Swedish University of Agricultural Sciences,Sveriges lantbruksuniversitet,Institutionen för kliniska vetenskaper (KV),Department of Clinical Sciences,National Veterinary Institute (SVA)
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- Dalin, Anne-Marie (author)
- Swedish University of Agricultural Sciences,Sveriges lantbruksuniversitet,Institutionen för kliniska vetenskaper (KV),Department of Clinical Sciences
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El Muller, Emilie (author)
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Shah, Pranjul (author)
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Wilmes, Paul (author)
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Henrissat, Bernard (author)
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- Aspeborg, Henrik (author)
- KTH,Industriell bioteknologi
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- Andersson, Anders F. (author)
- KTH,Genteknologi,Science for Life Laboratory, SciLifeLab
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(creator_code:org_t)
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- 2017-07-21
- 2017
- English.
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In: The ISME Journal. - : Nature Publishing Group. - 1751-7362 .- 1751-7370. ; 11:11, s. 2538-2551
- Related links:
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https://www.nature.c...
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https://urn.kb.se/re...
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https://doi.org/10.1...
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https://res.slu.se/i...
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Abstract
Subject headings
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- The moose (Alces alces) is a ruminant that harvests energy from fiber-rich lignocellulose material through carbohydrate-active enzymes (CAZymes) produced by its rumen microbes. We applied shotgun metagenomics to rumen contents from six moose to obtain insights into this microbiome. Following binning, 99 metagenome-assembled genomes (MAGs) belonging to 11 prokaryotic phyla were reconstructed and characterized based on phylogeny and CAZyme profile. The taxonomy of these MAGs reflected the overall composition of the metagenome, with dominance of the phyla Bacteroidetes and Firmicutes. Unlike in other ruminants, Spirochaetes constituted a significant proportion of the community and our analyses indicate that the corresponding strains are primarily pectin digesters. Pectin-degrading genes were also common in MAGs of Ruminococcus, Fibrobacteres and Bacteroidetes and were overall overrepresented in the moose microbiome compared with other ruminants. Phylogenomic analyses revealed several clades within the Bacteriodetes without previously characterized genomes. Several of these MAGs encoded a large numbers of dockerins, a module usually associated with cellulosomes. The Bacteroidetes dockerins were often linked to CAZymes and sometimes encoded inside polysaccharide utilization loci, which has never been reported before. The almost 100 CAZyme-annotated genomes reconstructed in this study provide an in-depth view of an efficient lignocellulose-degrading microbiome and prospects for developing enzyme technology for biorefineries.
Subject headings
- NATURVETENSKAP -- Geovetenskap och miljövetenskap -- Miljövetenskap (hsv//swe)
- NATURAL SCIENCES -- Earth and Related Environmental Sciences -- Environmental Sciences (hsv//eng)
- NATURVETENSKAP -- Biologi -- Ekologi (hsv//swe)
- NATURAL SCIENCES -- Biological Sciences -- Ecology (hsv//eng)
- NATURVETENSKAP -- Biologi -- Mikrobiologi (hsv//swe)
- NATURAL SCIENCES -- Biological Sciences -- Microbiology (hsv//eng)
- LANTBRUKSVETENSKAPER -- Veterinärmedicin -- Klinisk vetenskap (hsv//swe)
- AGRICULTURAL SCIENCES -- Veterinary Science -- Clinical Science (hsv//eng)
Publication and Content Type
- ref (subject category)
- art (subject category)
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To the university's database
- By the author/editor
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Svartström, Olov
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Alneberg, Johann ...
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Terrapon, Nicola ...
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Lombard, Vincent
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de Bruijn, Ino
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Malmsten, Jonas
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show more...
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Dalin, Anne-Mari ...
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El Muller, Emili ...
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Shah, Pranjul
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Wilmes, Paul
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Henrissat, Berna ...
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Aspeborg, Henrik
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Andersson, Ander ...
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show less...
- About the subject
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- NATURAL SCIENCES
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NATURAL SCIENCES
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and Earth and Relate ...
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and Environmental Sc ...
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- NATURAL SCIENCES
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NATURAL SCIENCES
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and Biological Scien ...
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and Ecology
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- NATURAL SCIENCES
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NATURAL SCIENCES
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and Biological Scien ...
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and Microbiology
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- AGRICULTURAL SCIENCES
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AGRICULTURAL SCI ...
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and Veterinary Scien ...
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and Clinical Science
- Articles in the publication
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The ISME Journal
- By the university
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Royal Institute of Technology
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Swedish University of Agricultural Sciences