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Nat Methods. 2013 Dec;10(12):1196-9. doi: 10.1038/nmeth.2693. Epub 2013 Oct 20.

Metagenomic species profiling using universal phylogenetic marker genes.

Author information

1
European Molecular Biology Laboratory, Heidelberg, Germany.

Abstract

To quantify known and unknown microorganisms at species-level resolution using shotgun sequencing data, we developed a method that establishes metagenomic operational taxonomic units (mOTUs) based on single-copy phylogenetic marker genes. Applied to 252 human fecal samples, the method revealed that on average 43% of the species abundance and 58% of the richness cannot be captured by current reference genome-based methods. An implementation of the method is available at http://www.bork.embl.de/software/mOTU/.

PMID:
24141494
DOI:
10.1038/nmeth.2693
[Indexed for MEDLINE]

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