February 20, 2024  |  Metagenomics

High-quality metagenome assembly from long accurate reads with metaMDBG

Authors: Gaëtan Benoit, Sébastien Raguideau, Robert James, Adam M. Phillippy, Rayan Chikhi and Christopher Quince

We introduce metaMDBG, a metagenomics assembler for PacBio HiFi reads. MetaMDBG combines a de Bruijn graph assembly in a minimizer space with an iterative assembly over sequences of minimizers to address variations in genome coverage depth and an abundance-based filtering strategy to simplify strain complexity. For complex communities, we obtained up to twice as many high-quality circularized prokaryotic metagenome-assembled genomes as existing methods and had better recovery of viruses and plasmids.

Journal: Nature Biotechnology
DOI: 10.1038/s41587-023-01983-6
Year: 2024

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