ArticleNature communications2020
MetaRibo-Seq measures translation in microbiomes.
Article in Nature communications, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 32 papers.
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
32 citing papers in PubMed, 42 citations in OpenAlex.
- Bridging single-molecule and genome-wide studies of cellular mRNA translation.RNA (New York, N.Y.) · 2026Review
- A Multi-Omics Processing Pipeline (MOPP) for Extracting Taxonomic and Functional Insights from Metaribosome Profiling (metaRibo-Seq) data.bioRxiv : the preprint server for biology · 2026Article
- Abridged Ribosome Profiling for Accurate Bacterial Translation Measurements.Methods and protocols · 2026Article
- A Versatile Ribo-seq Workflow for Enhanced Analysis of Ribosome Dynamics.Methods in molecular biology (Clifton, N.J.) · 2026Article
- Targeting the Gut Microbiota's Role in Host Energy Absorption With Precision Nutrition Interventions for the Prevention and Treatment of Obesity.Nutrition reviews · 2025Review
- Advances in ribosome profiling technologies.Biochemical Society transactions · 2025Review
- AI-Driven Antimicrobial Peptide Discovery: Mining and Generation.Accounts of chemical research · 2025Review
- Sequencing-based analysis of microbiomes.Nature reviews. Genetics · 2024Review
- Article
- Review
- Metaproteomics-informed stoichiometric modeling reveals the responses of wetland microbial communities to oxygen and sulfate exposure.NPJ biofilms and microbiomes · 2024Article
- Ribosome profiling reveals the fine-tuned response ofmSystems · 2023Article
- StORF-Reporter: finding genes between genes.Nucleic acids research · 2023Article
- Human gut metagenomic mining reveals an untapped source of peptide antibiotics.bioRxiv : the preprint server for biology · 2023Article
- Atlas of mRNA translation and decay for bacteria.Nature microbiology · 2023Article
- Elucidating the functional roles of prokaryotic proteins using big data and artificial intelligence.FEMS microbiology reviews · 2023Review
- Identification of over ten thousand candidate structured RNAs in viruses and phages.Computational and structural biotechnology journal · 2023Article
- INRI-seq enables global cell-free analysis of translation initiation and off-target effects of antisense inhibitors.Nucleic acids research · 2022Article
- Thousands of small, novel genes predicted in global phage genomes.Cell reports · 2022Article
- tRNA modification dynamics from individual organisms to metaepitranscriptomics of microbiomes.Molecular cell · 2022Review
Corrections and comments
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Authors and funding
3 authors at 2 institutions in 1 country.
Funding
Abstract
No method exists to measure large-scale translation of genes in uncultured organisms in microbiomes. To overcome this limitation, we develop MetaRibo-Seq, a method for simultaneous ribosome profiling of tens to hundreds of organisms in microbiome samples. MetaRibo-Seq was benchmarked against gold-standard Ribo-Seq in a mock microbial community and applied to five different human fecal samples. Unlike RNA-Seq, Ribo-Seq signal of a predicted gene suggests it encodes a translated protein. We demonstrate two applications of this technique: First, MetaRibo-Seq identifies small genes, whose identification until now has been challenging. For example, MetaRibo-Seq identifies 2,091 translated, previously unannotated small protein families from five fecal samples, more than doubling the number of small proteins predicted to exist in this niche. Second, the combined application of RNA-Seq and MetaRibo-Seq identifies differences in the translation of transcripts. In summary, MetaRibo-Seq enables comprehensive translational profiling in microbiomes and identifies previously unannotated small proteins.
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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.