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Recovery of genomes from metagenomes via a dereplication, aggregation and scoring strategy

  • Author(s): Sieber, CMK
  • Probst, AJ
  • Sharrar, A
  • Thomas, BC
  • Hess, M
  • Tringe, SG
  • Banfield, JF
  • et al.

Published Web Location

http://dx.doi.org/10.1038/s41564-018-0171-1
No data is associated with this publication.
Abstract

© 2018 The Author(s). Microbial communities are critical to ecosystem function. A key objective of metagenomic studies is to analyse organism-specific metabolic pathways and reconstruct community interaction networks. This requires accurate assignment of assembled genome fragments to genomes. Existing binning methods often fail to reconstruct a reasonable number of genomes and report many bins of low quality and completeness. Furthermore, the performance of existing algorithms varies between samples and biotopes. Here, we present a dereplication, aggregation and scoring strategy, DAS Tool, that combines the strengths of a flexible set of established binning algorithms. DAS Tool applied to a constructed community generated more accurate bins than any automated method. Indeed, when applied to environmental and host-associated samples of different complexity, DAS Tool recovered substantially more near-complete genomes, including previously unreported lineages, than any single binning method alone. The ability to reconstruct many near-complete genomes from metagenomics data will greatly advance genome-centric analyses of ecosystems.

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