BARM and BalticMicrobeDB, a reference metagenome and interface to meta-omic data for the Baltic Sea.

Alneberg, Johannes, Sundh, John, Bennke, Christin, Beier, Sara, Lundin, Daniel, Hugerth, Luisa W., Pinhassi, Jarone , Kisand, Veljo, Riemann, Lasse , Jürgens, Klaus, Labrenz, Matthias and Andersson, Anders F. (2018) BARM and BalticMicrobeDB, a reference metagenome and interface to meta-omic data for the Baltic Sea. Open Access Scientific Data, 5 . p. 180146. DOI 10.1038/sdata.2018.146.

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Abstract

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.

Document Type: Article
Keywords: Genome informatics, Environmental sciences, Water microbiology, DNA sequencing, Metagenomics
Refereed: Yes
Open Access Journal?: Yes
DOI etc.: 10.1038/sdata.2018.146
ISSN: 2052-4463
Projects: Boknis Eck
Date Deposited: 11 Dec 2018 10:56
Last Modified: 17 Jan 2019 13:21
URI: http://oceanrep.geomar.de/id/eprint/44920

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