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BARM and BalticMicr...
BARM and BalticMicrobeDB, a reference metagenome and interface to meta-omic data for the Baltic Sea
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- Alneberg, Johannes (author)
- KTH,Genteknologi,Science for Life Laboratory, SciLifeLab,KTH Royal Institute of Technology, Sweden
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- Sundh, John (author)
- Stockholms universitet,Institutionen för biokemi och biofysik,Science for Life Laboratory (SciLifeLab)
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- Bennke, Christin (author)
- Leibniz Inst Balt Sea Res Warnemunde, D-18119 Rostock, Germany.
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- Beier, Sara (author)
- Leibniz Inst Balt Sea Res Warnemunde, D-18119 Rostock, Germany.
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- Lundin, Daniel, 1965- (author)
- Linnéuniversitetet,Institutionen för biologi och miljö (BOM),Ctr Ecol & Evolut Microbial Model Syst EEMiS,Linnaeus Univ, Ctr Ecol & Evolut Microbial Model Syst, S-39182 Kalmar, Sweden.
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- Hugerth, Luisa W. (author)
- KTH,Genteknologi,Science for Life Laboratory, SciLifeLab,Karolinska Inst, Dept Mol Tumor & Cell Biol, Ctr Translat Microbiome Res, Sci Life Lab, S-17165 Solna, Sweden.,KTH Royal Institute of Technology, Sweden
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- Pinhassi, Jarone (author)
- Linnéuniversitetet,Institutionen för biologi och miljö (BOM),Ctr Ecol & Evolut Microbial Model Syst EEMiS,Linnaeus Univ, Ctr Ecol & Evolut Microbial Model Syst, S-39182 Kalmar, Sweden.
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- Kisand, Veljo (author)
- Univ Tartu, Inst Technol, EE-50411 Tartu, Estonia.
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- Riemann, Lasse (author)
- Univ Copenhagen, Sect Marine Biol Sect, Dept Biol, DK-3000 Helsingor, Denmark.
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- Juergens, Klaus (author)
- Leibniz Inst Balt Sea Res Warnemunde, D-18119 Rostock, Germany.
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- Labrenz, Matthias (author)
- Leibniz Inst Balt Sea Res Warnemunde, D-18119 Rostock, Germany.
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- Andersson, Anders F. (author)
- KTH,Genteknologi,Science for Life Laboratory, SciLifeLab,KTH Royal Institute of Technology, Sweden
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(creator_code:org_t)
- 2018-07-31
- 2018
- English.
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In: Scientific Data. - : Nature Publishing Group. - 2052-4463. ; 5
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https://doi.org/10.1...
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https://urn.kb.se/re...
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Abstract
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- The Baltic Sea is one of the world's largest brackish water bodies and is characterised by pronounced physicochemical gradients where microbes are the main biogeochemical catalysts. Meta-omic methods provide rich information on the composition of, and activities within, microbial ecosystems, but are computationally heavy to perform. We here present the Baltic Sea Reference Metagenome (BARM), complete with annotated genes to facilitate further studies with much less computational effort. The assembly is constructed using 2.6 billion metagenomic reads from 81 water samples, spanning both spatial and temporal dimensions, and contains 6.8 million genes that have been annotated for function and taxonomy. The assembly is useful as a reference, facilitating taxonomic and functional annotation of additional samples by simply mapping their reads against the assembly. This capability is demonstrated by the successful mapping and annotation of 24 external samples. In addition, we present a public web interface, BalticMicrobeDB, for interactive exploratory analysis of the dataset. [GRAPHICS] .
Subject headings
- NATURVETENSKAP -- Biologi -- Bioinformatik och systembiologi (hsv//swe)
- NATURAL SCIENCES -- Biological Sciences -- Bioinformatics and Systems Biology (hsv//eng)
- NATURVETENSKAP -- Biologi (hsv//swe)
- NATURAL SCIENCES -- Biological Sciences (hsv//eng)
Keyword
- Mikrobiologi
- Microbiology
Publication and Content Type
- ref (subject category)
- art (subject category)
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- By the author/editor
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Alneberg, Johann ...
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Sundh, John
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Bennke, Christin
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Beier, Sara
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Lundin, Daniel, ...
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Hugerth, Luisa W ...
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show more...
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Pinhassi, Jarone
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Kisand, Veljo
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Riemann, Lasse
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Juergens, Klaus
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Labrenz, Matthia ...
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Andersson, Ander ...
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- About the subject
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- NATURAL SCIENCES
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NATURAL SCIENCES
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and Biological Scien ...
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and Bioinformatics a ...
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- NATURAL SCIENCES
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NATURAL SCIENCES
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and Biological Scien ...
- Articles in the publication
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Scientific Data
- By the university
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Linnaeus University
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Royal Institute of Technology
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Stockholm University
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Karolinska Institutet