ArticlemSystems
Phylogenetically Novel Uncultured Microbial Cells Dominate Earth Microbiomes.
Article in mSystems. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 235 papers, 3 of them syntheses that pooled it.
What it found
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
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
235 citing papers in PubMed, 3 syntheses or guidelines pooled it, 449 citations in OpenAlex.
- The microbial dark matter and "wanted list" in worldwide wastewater treatment plants.Microbiome · 2023Pooled it
- A global perspective on bacterial diversity in the terrestrial deep subsurface.Microbiology (Reading, England) · 2023Pooled it
- Reproducible acquisition, management and meta-analysis of nucleotide sequence (meta)data using q2-fondue.Bioinformatics (Oxford, England) · 2022Pooled it
- Challenges and Future Directives of Synthetic Biology in Engineering Plant-Microbe Partnerships for Sustainable Agriculture.Biotechnology and bioengineering · 2026Review
- The Biotechnological Applications of Marine Bacteria.Biology · 2026Review
- Microdroplet-based high-throughput screening for antagonistic bacteria targeting penaeid shrimp pathogenic Vibrio harveyi.Scientific reports · 2026Article
- SuSha: A multi-model ensemble learning framework for predicting microbial salinity adaptation.Engineering microbiology · 2026Article
- Genomic characteristics and geographical distribution of uncultivated soil prokaryotes.BMC genomics · 2026Article
- Influence of heat-non-burn tobacco aerosol on the microbiome of biofilm from human whole saliva bacteria in vitro.Clinical oral investigations · 2026Article
- Microbe Decoder uncovers functional traits of microbes in microbiome datasets.Nucleic acids research · 2026Article
- Evaluation of targeted Massively Parallel Sequencing methods for forensic metagenomics.Applied microbiology and biotechnology · 2026Article
- Community structure and methylation of microbes in an artificially forced sediment core.Microbiology spectrum · 2026Article
- Microfluidic encapsulation of the human gut microbiota-a tool for research and beyond.Microsystems & nanoengineering · 2026Article
- Ecology-microbiome engineering in Sauce-flavor Baijiu via Single-Cell Raman Spectroscopy.Biodesign research · 2026Review
- Euglena gracilis as a high-throughput screening platform for antibacterial activity, cytotoxicity and membrane permeability in a one-step and cost-effective assay.The Journal of antibiotics · 2026Article
- Insights into the microbiota profile of Pediculus humanus capitis using metagenomic next-generation sequencing and molecular detection of unexpected pathogen DNA in Hunan Province, China.Parasites & vectors · 2026Article
- Advances and future directions in identifying specific taxa from microbial meta-omics data: from pipeline to deep learning.mSystems · 2026Review
- Article
- Bee derived Aspergillus oryzae as a novel reservoir for selective anticancer metabolites with integrated bioprocess optimization and multi cell line evaluation.BMC microbiology · 2026Article
- Unbinned contigs expand known diversity in the global microbiome.Nature microbiology · 2026Article
175 more citing papers are in PubMed but not listed here.
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Authors and funding
5 authors at 3 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
To describe a microbe's physiology, including its metabolism, environmental roles, and growth characteristics, it must be grown in a laboratory culture. Unfortunately, many phylogenetically novel groups have never been cultured, so their physiologies have only been inferred from genomics and environmental characteristics. Although the diversity, or number of different taxonomic groups, of uncultured clades has been studied well, their global abundances, or numbers of cells in any given environment, have not been assessed. We quantified the degree of similarity of 16S rRNA gene sequences from diverse environments in publicly available metagenome and metatranscriptome databases, which we show have far less of the culture bias present in primer-amplified 16S rRNA gene surveys, to those of their nearest cultured relatives. Whether normalized to scaffold read depths or not, the highest abundances of metagenomic 16S rRNA gene sequences belong to phylogenetically novel uncultured groups in seawater, freshwater, terrestrial subsurface, soil, hypersaline environments, marine sediment, hot springs, hydrothermal vents, nonhuman hosts, snow, and bioreactors (22% to 87% uncultured genera to classes and 0% to 64% uncultured phyla). The exceptions were human and human-associated environments, which were dominated by cultured genera (45% to 97%). We estimate that uncultured genera and phyla could comprise 7.3 × 10
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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.