MaxBin 2.0: an automated binning algorithm to recover genomes from multiple metagenomic datasets

Wu, Yu-Wei; Simmons, Blake A.; Singer, Steven W.

doi:10.1093/bioinformatics/btv638

MaxBin 2.0: an automated binning algorithm to recover genomes from multiple metagenomic datasets

Journal Article · Thu Oct 29 00:00:00 EDT 2015 · Bioinformatics

DOI:https://doi.org/10.1093/bioinformatics/btv638· OSTI ID:1407392

Wu, Yu-Wei ^[1]; Simmons, Blake A. ^[1]; Singer, Steven W. ^[1]

Joint BioEnergy Inst. (JBEI), Emeryville, CA (United States); Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States)

The recovery of genomes from metagenomic datasets is a critical step to defining the functional roles of the underlying uncultivated populations. We previously developed MaxBin, an automated binning approach for high-throughput recovery of microbial genomes from metagenomes. Here, we present an expanded binning algorithm, MaxBin 2.0, which recovers genomes from co-assembly of a collection of metagenomic datasets. Tests on simulated datasets revealed that MaxBin 2.0 is highly accurate in recovering individual genomes, and the application of MaxBin 2.0 to several metagenomes from environmental samples demonstrated that it could achieve two complementary goals: recovering more bacterial genomes compared to binning a single sample as well as comparing the microbial community composition between different sampling environments. Availability and implementation: MaxBin 2.0 is freely available at http://sourceforge.net/projects/maxbin/ under BSD license. Supplementary information: Supplementary data are available at Bioinformatics online.

Research Organization:: Lawrence Berkeley National Laboratory (LBNL), Berkeley, CA (United States)

Sponsoring Organization:: USDOE Office of Science (SC), Biological and Environmental Research (BER) (SC-23)

DOE Contract Number:: AC02-05CH11231

OSTI ID:: 1407392

Journal Information:: Bioinformatics, Journal Name: Bioinformatics Journal Issue: 4 Vol. 32; ISSN 1367-4803

Publisher:: Oxford University Press

Country of Publication:: United States

Language:: English

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