ArticleNature communications2018
Microbiome characterization by high-throughput transfer RNA sequencing and modification analysis.
Article in Nature communications, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 40 papers.
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
40 citing papers in PubMed, 62 citations in OpenAlex.
- Dietary effects on cytosolic and mitochondrial tRNA abundance and modification patterns across mouse tissues.Genome research · 2026Article
- Maternal trans-vaccenic acid shapes neonatal T cell development and early-life immune imprinting.Science (New York, N.Y.) · 2026Article
- A transfer RNA inosine modification drives genome-wide synonymous recoding across human commensal bacterial families.PNAS nexus · 2026Article
- Modifications of microbiome-derived cell-free RNA in plasma discriminates colorectal cancer samples.Nature biotechnology · 2026Article
- A high-resolution diel survey of surface ocean metagenomes, metatranscriptomes, and transfer RNA transcripts.Scientific data · 2025Article
- The Secret Life of NJournal of molecular biology · 2025Review
- From Images to Genes: Radiogenomics Based on Artificial Intelligence to Achieve Non-Invasive Precision Medicine in Cancer Patients.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2025Review
- Review
- The modification landscape ofRNA (New York, N.Y.) · 2024Article
- The modification landscape ofbioRxiv : the preprint server for biology · 2024Article
- Precision run-on sequencing (PRO-seq) for microbiome transcriptomics.Nature microbiology · 2024Article
- A tRNA modification ineLife · 2023Article
- A tRNA modification inbioRxiv : the preprint server for biology · 2023Article
- Article
- Analysis of queuosine and 2-thio tRNA modifications by high throughput sequencing.Nucleic acids research · 2022Article
- Dietary Carbohydrate as Glycemic Load, Not Fat, Coupled withNutrients · 2022Article
- TRMT6/61A-dependent base methylation of tRNA-derived fragments regulates gene-silencing activity and the unfolded protein response in bladder cancer.Nature communications · 2022Article
- tRNA modification dynamics from individual organisms to metaepitranscriptomics of microbiomes.Molecular cell · 2022Review
- Article
- Cell type-specific analysis by single-cell profiling identifies a stable mammalian tRNA-mRNA interface and increased translation efficiency in neurons.Genome research · 2022Article
Corrections and comments
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Authors and funding
15 authors at 6 institutions in 2 countries.
Funding
Abstract
Advances in high-throughput sequencing have facilitated remarkable insights into the diversity and functioning of naturally occurring microbes; however, current sequencing strategies are insufficient to reveal physiological states of microbial communities associated with protein translation dynamics. Transfer RNAs (tRNAs) are core components of protein synthesis machinery, present in all living cells, and are phylogenetically tractable, which make them ideal targets to gain physiological insights into environmental microbes. Here we report a direct sequencing approach, tRNA-seq, and a software suite, tRNA-seq-tools, to recover sequences, abundance profiles, and post-transcriptional modifications of microbial tRNA transcripts. Our analysis of cecal samples using tRNA-seq distinguishes high-fat- and low-fat-fed mice in a comparable fashion to 16S ribosomal RNA gene amplicons, and reveals taxon- and diet-dependent variations in tRNA modifications. Our results provide taxon-specific in situ insights into the dynamics of tRNA gene expression and post-transcriptional modifications within complex environmental microbiomes.
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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.