ArticleNature2019
New insights from uncultivated genomes of the global human gut microbiome.
Article in Nature, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 425 papers, 3 of them syntheses that pooled it.
What it found
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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
425 citing papers in PubMed, 3 syntheses or guidelines pooled it.
- Understanding the gut microbiota to shape the future of intestinal failure care: a systematic review of the evidence.European journal of pediatrics · 2026Pooled it
- A human gut metagenome-assembled genome catalogue spanning 41 countries supports genome-scale metabolic models.Nature microbiology · 2026Pooled it
- The microbial dark matter and "wanted list" in worldwide wastewater treatment plants.Microbiome · 2023Pooled it
- A microbiome-directed therapeutic food for children recovering from severe acute malnutrition.Science translational medicine · 2024Trial
- Trial
- metaFun: An analysis pipeline for metagenomic big data with fast and unified functional searches.Gut microbes · 2026Article
- Review
- Compositional and functional differences of gut microbiome and metabolome inform pathogenesis of cholestatic liver disease.Gut microbes · 2026Article
- Article
- Gut microbiomes of tribal communities in India vary with dairy and grain consumption.Gut microbes · 2026Article
- Article
- Phylogeny constrains and environment modulates glycoside hydrolase architecture.Current research in microbial sciences · 2026Article
- A new paradigm of bidirectional regulation of the gut-spinal cord axis.Neural regeneration research · 2026Article
- Global analysis of infant gut microbiota revealed distinctive maturation dynamics across lifestyles.NPJ biofilms and microbiomes · 2026Article
- Genomic characteristics and geographical distribution of uncultivated soil prokaryotes.BMC genomics · 2026Article
- OAPGC: a high-quality oral and airway prokaryotic genome catalog for enhanced ecological resolution and disease inference.NPJ biofilms and microbiomes · 2026Article
- MeioBIOME: A snakemake workflow for the parallel analysis of meiofaunal genomes and host-associated bacteria/archaea.bioRxiv : the preprint server for biology · 2026Article
- Insights Gained by High-throughput Chromosome Conformation Capture (Hi-C) into the Viral Modulation of Methane Production in Anaerobic Digestion.Environmental science & technology · 2026Article
- Enteropathy produced in mice by intergenerational transmission of small intestinal microbiota from undernourished children.Nature microbiology · 2026Article
- The human microbiome as a source of novel bioactive natural products: structures, bioactivities, and biosynthetic insights.Journal of natural medicines · 2026Review
365 more citing papers are in PubMed but not listed here.
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
5 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The genome sequences of many species of the human gut microbiome remain unknown, largely owing to challenges in cultivating microorganisms under laboratory conditions. Here we address this problem by reconstructing 60,664 draft prokaryotic genomes from 3,810 faecal metagenomes, from geographically and phenotypically diverse humans. These genomes provide reference points for 2,058 newly identified species-level operational taxonomic units (OTUs), which represents a 50% increase over the previously known phylogenetic diversity of sequenced gut bacteria. On average, the newly identified OTUs comprise 33% of richness and 28% of species abundance per individual, and are enriched in humans from rural populations. A meta-analysis of clinical gut-microbiome studies pinpointed numerous disease associations for the newly identified OTUs, which have the potential to improve predictive models. Finally, our analysis revealed that uncultured gut species have undergone genome reduction that has resulted in the loss of certain biosynthetic pathways, which may offer clues for improving cultivation strategies in the future.
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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.