Process / pipelineMetagenomics
Metagenomic Binning
Metagenomic binning partitions assembled contigs from complex microbial communities into distinct genome bins, each representing an individual organism or strain. Pioneered by Banfield and colleagues, this pipeline isolates single-organism genomes (metagenome-assembled genomes or MAGs) from environmental samples without requiring cultivated isolates.
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Sources
- Kang, D. D., Froula, J., Egan, R., & Wang, Z. (2015). MetaBAT, an efficient tool for accurately reconstructing single genomes from complex microbial communities. PeerJ, 3, e1165. DOI: 10.7717/peerj.1165 ↗
- Jain, C., Rodriguez-R, L. M., Phillippy, A. M., Konstantinidis, K. T., & Aluru, S. (2018). High throughput ANI analysis of 90K prokaryotic genomes reveals clear species boundaries. Nature Communications, 9(1), 4045. DOI: 10.1038/s41467-018-07641-w ↗
- Sieber, C. M. K., Probst, A. J., Sharrar, A., Thomas, B. C., Hess, M., Tringe, S. G., & Banfield, J. F. (2018). Recovery of genomes from metagenomes via a dereplication, aggregation and scoring strategy. Nature Microbiology, 3(7), 836-843. DOI: 10.1038/s41564-018-0171-1 ↗