ArticleMicrobiome2024
Genomic representativeness and chimerism in large collections of SAGs and MAGs of marine prokaryoplankton.
Article in Microbiome, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 16 papers.
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Who cites it
16 citing papers in PubMed.
- Single-contig bacterial genomes recovered from cattle fecal metagenomes at farms with variable antibiotic use.Research square · 2026Article
- Noncanonical genetic markers resolve the pre-GOE emergence of aerobic bacteria in Earth's history.Proceedings of the National Academy of Sciences of the United States of America · 2026Article
- Global deep-sea hydrothermal deposit metagenomes and metagenome-assembled genomes over time and space.Scientific data · 2026Article
- Troubleshooting common errors in assemblies of long-read metagenomes.Nature biotechnology · 2026Article
- New SAR11 isolate genomes and global marine metagenomes resolve ecologically relevant units within the Pelagibacterales.Nature communications · 2025Article
- A high-resolution diel survey of surface ocean metagenomes, metatranscriptomes, and transfer RNA transcripts.Scientific data · 2025Article
- Single-particle genomics uncovers abundant non-canonical marine viruses from nanolitre volumes.Nature microbiology · 2025Article
- Complete genome sequences of 34 Arctic marine bacteria.Microbiology resource announcements · 2025Article
- Carotenoids bind rhodopsins and act as photocycle-accelerating pigments in marine Bacteroidota.Nature microbiology · 2025Article
- Article
- Insights into putative alginate lyases from epipelagic and mesopelagic communities of the global ocean.Scientific reports · 2025Article
- Extensive paralogism in the environmental pangenome: a key factor in the ecological success of natural SAR11 populations.Microbiome · 2025Article
- Article
- Net rate of lateral gene transfer in marine prokaryoplankton.The ISME journal · 2025Article
- Leveraging artificial intelligence community analytics and nanopore metagenomic surveillance to monitor early enteropathogen outbreaks.Frontiers in public health · 2025Article
- kMetaShot: a fast and reliable taxonomy classifier for metagenome-assembled genomes.Briefings in bioinformatics · 2024Article
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4 authors.
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Abstract
backgroundSingle amplified genomes (SAGs) and metagenome-assembled genomes (MAGs) are the predominant sources of information about the coding potential of uncultured microbial lineages, but their strengths and limitations remain poorly understood. Here, we performed a direct comparison of two previously published collections of thousands of SAGs and MAGs obtained from the same, global environment.
resultsWe found that SAGs were less prone to chimerism and more accurately reflected the relative abundance and the pangenome content of microbial lineages inhabiting the epipelagic of the tropical and subtropical ocean, as compared to MAGs. SAGs were also better suited to link genome information with taxa discovered through 16S rRNA amplicon analyses. Meanwhile, MAGs had the advantage of more readily recovering genomes of rare lineages.
conclusionsOur analyses revealed the relative strengths and weaknesses of the two most commonly used genome recovery approaches in environmental microbiology. These considerations, as well as the need for better tools for genome quality assessment, should be taken into account when designing studies and interpreting data that involve SAGs or MAGs. Video Abstract.
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