Earth and Planetary Science
EPS Atmosphere, Oceans, and Climate

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

Sunday, August 5, 2018

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 …


Authors:  Christian MK Sieber, Alexander J Probst, Allison Sharrar, Brian C Thomas, Matthias Hess, Susannah G Tringe, Jillian F Banfield


2018/5/28,  Nature Microbiology