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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.

Titel:	Recovery of genomes from metagenomes via a dereplication, aggregation and scoring strategy.
Autor/in / Beteiligte Person:	Sieber, CMK ; Probst, AJ ; Sharrar, A ; Thomas, BC ; Hess, M ; Tringe, SG ; Banfield, JF
Link:	View record at Springer (Volltext)
Zeitschrift:	Nature microbiology, Jg. 3 (2018-07-01), Heft 7, S. 836-843
Veröffentlichung:	[London] : Nature Publishing Group, [2016]-, 2018
Medientyp:	academicJournal
ISSN:	2058-5276 (electronic)
DOI:	10.1038/s41564-018-0171-1
Schlagwort:	Algorithms Animals Data Curation Gastrointestinal Microbiome Genome, Bacterial Humans Microbiota Soil Microbiology User-Computer Interface Water Microbiology Computational Biology methods Metagenomics methods
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(PMID: 10.1093/bioinformatics/btg41214734327) Grant Information: R01 AI092531 United States AI NIAID NIH HHS; 5R01AI092531 United States NH NIH HHS Entry Date(s): Date Created: 20180530 Date Completed: 20190610 Latest Revision: 20240421 Update Code: 20240421 PubMed Central ID: PMC6786971

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