ArticlemSystems
Rare Taxa Exhibit Disproportionate Cell-Level Metabolic Activity in Enriched Anaerobic Digestion Microbial Communities.
Article in mSystems. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 10 papers.
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Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
10 citing papers in PubMed.
- From dividing to dormant: embracing the full activity spectrum for environmental microorganisms.Microbiology and molecular biology reviews : MMBR · 2026Review
- Cytokine release and NLRP3 inflammasome activation induced by low-abundance oral bacterial biofilms.Journal of oral microbiology · 2025Article
- Sequencing introduced false positive rare taxa lead to biased microbial community diversity, assembly, and interaction interpretation in amplicon studies.Environmental microbiome · 2022Article
- Bacterial low-abundant taxa are key determinants of a healthy airway metagenome in the early years of human life.Computational and structural biotechnology journal · 2022Article
- The role of microbial ecology in improving the performance of anaerobic digestion of sewage sludge.Frontiers in microbiology · 2022Review
- Review
- Microbiota and Ocular Diseases.Frontiers in cellular and infection microbiology · 2021Review
- RNA-Based Analysis Reveals High Diversity of Plant-Associated Active Fungi in the Atmosphere.Frontiers in microbiology · 2021Article
- The new microbiology: cultivating the future of microbiome-directed medicine.American journal of physiology. Gastrointestinal and liver physiology · 2020Review
- The Total and Active Bacterial Community of the ChlorolichenFrontiers in microbiology · 2020Article
Corrections and comments
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Authors and funding
5 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Microbial communities are composed of populations with vastly different abundances and levels of metabolic and replicative activity, ranging from actively metabolizing and dividing to dormant or nonviable. The 16S rRNA/rDNA ratio is an emerging tool for evaluating cell-level metabolic activity independent of abundance. In this study, we used five long-term enriched model anaerobic digestion (AD) communities to investigate community composition, diversity, structure, and in particular activity based on the rRNA/rDNA ratio. We cross-validated the 16S amplicon-based results using two alternative operational taxonomic unit (OTU) formation methods (conventional 97% sequence similarity and 100% sequence similar zero-radius OTUs by UNOISE3) and compared these to metagenome-derived population genomes and metatranscriptomes. Significant positive correlations were observed between microbial total activity and abundance with both the amplicon- and omic-based methods. All three methods revealed disproportionately high transcription/abundance ratios for some rare taxa but lower ratios for most abundant taxa for all the communities, which was further corroborated by the high replication rate (iRep) of most low-abundance population genomes.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.