ACR: metagenome-assembled prokaryotic and eukaryotic genome refinement tool
- Authors
- Seong, Hoon Je; Kim, Jin Ju; Sul, Woo Jun
- Issue Date
- Sep-2023
- Publisher
- OXFORD UNIV PRESS
- Keywords
- genome binning; genome-centric metagenomics; metagenome-assembled genomes; metagenomics; microbiome
- Citation
- Briefings in bioinformatics, v.24, no.6
- Journal Title
- Briefings in bioinformatics
- Volume
- 24
- Number
- 6
- URI
- https://scholarworks.bwise.kr/cau/handle/2019.sw.cau/68669
- DOI
- 10.1093/bib/bbad381
- ISSN
- 1467-5463
1477-4054
- Abstract
- Microbial genome recovery from metagenomes can further explain microbial ecosystem structures, functions and dynamics. Thus, this study developed the Additional Clustering Refiner (ACR) to enhance high-purity prokaryotic and eukaryotic metagenome-assembled genome (MAGs) recovery. ACR refines low-quality MAGs by subjecting them to iterative k-means clustering predicated on contig abundance and increasing bin purity through validated universal marker genes. Synthetic and real-world metagenomic datasets, including short- and long-read sequences, evaluated ACR's effectiveness. The results demonstrated improved MAG purity and a significant increase in high- and medium-quality MAG recovery rates. In addition, ACR seamlessly integrates with various binning algorithms, augmenting their strengths without modifying core features. Furthermore, its multiple sequencing technology compatibilities expand its applicability. By efficiently recovering high-quality prokaryotic and eukaryotic genomes, ACR is a promising tool for deepening our understanding of microbial communities through genome-centric metagenomics. © The Author(s) 2023. Published by Oxford University Press. All rights reserved. For Permissions, please email: journals.permissions@oup.com.
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Collections - College of Biotechnology & Natural Resource > Department of Systems Biotechnology > 1. Journal Articles
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