ArticleNature communications2020
A high-resolution transcriptome map identifies small RNA regulation of metabolism in the gut microbe Bacteroides thetaiotaomicron.
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 51 papers.
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Who cites it
51 citing papers in PubMed.
- Overall Structural Alteration of Gut Microbiota and Relationships with Risk Factors in Patients with Metabolic Syndrome Treated with Inulin Alone and with Other Agents: An Open-Label Pilot Study.Mediators of inflammation · 2022Trial
- Bacterial small RNAs and extracellular vesicles in inflammatory and osteoimmune diseases: regulatory mechanisms and host-microbe communication.Archives of microbiology · 2026Review
- Small Regulatory RNAs in Prokaryotes: Key Features, Identification, Environmental Roles, and Applications.Microorganisms · 2026Review
- A nitrite-responsive regulatory RNA locus sustains commensal resilience against nitrosative stress.bioRxiv : the preprint server for biology · 2026Article
- A family of RRM-1 RNA binding proteins enables cold adaptation and environmental resilience inbioRxiv : the preprint server for biology · 2026Article
- Single-bacterium RNA-seq protocol to uncover heterogeneous expression of coding and noncoding genes in Bacteroides thetaiotaomicron.STAR protocols · 2026Article
- Constitutive activation of a hybrid two-component regulator reveals cross-regulation of polysaccharide utilization genes in Bacteroides.The Journal of biological chemistry · 2026Article
- Article
- Degradation of mucinbioRxiv : the preprint server for biology · 2026Article
- Perinatal antibiotics in a db/db mouse model impact obesity and hyperglycemia in a microbiome-dependent manner.Frontiers in microbiomes · 2026Article
- TSSpredator-Web: A web-application for transcription start site prediction and exploration.PloS one · 2026Article
- Gene regulation inMicrobiology and molecular biology reviews : MMBR · 2025Review
- Transcriptional regulatory networks of the human gut symbiont Bacteroides thetaiotaomicron are uncovered using machine learning.Nucleic acids research · 2025Article
- Cappable-Seq reveals the transcriptional landscape of stress responses in the bacterial endosymbiontMicrobial genomics · 2025Article
- DNA uptake and twitching motility are controlled by the small RNA Arp through repression of pilin translation inbioRxiv : the preprint server for biology · 2025Article
- An sRNA overexpression library reveals AbnZ as a negative regulator of an essential translocation module in Caulobacter crescentus.Nucleic acids research · 2025Article
- Article
- Rfam 15: RNA families database in 2025.Nucleic acids research · 2025Article
- The global RNA-binding protein RbpB is a regulator of polysaccharide utilization in Bacteroides thetaiotaomicron.Nature communications · 2025Article
- TSS-Captur: a user-friendly pipeline for characterizing unclassified RNA transcripts.NAR genomics and bioinformatics · 2024Article
Corrections and comments
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Authors and funding
5 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Bacteria of the genus Bacteroides are common members of the human intestinal microbiota and important degraders of polysaccharides in the gut. Among them, the species Bacteroides thetaiotaomicron has emerged as the model organism for functional microbiota research. Here, we use differential RNA sequencing (dRNA-seq) to generate a single-nucleotide resolution transcriptome map of B. thetaiotaomicron grown under defined laboratory conditions. An online browser, called 'Theta-Base' ( www.helmholtz-hiri.de/en/datasets/bacteroides ), is launched to interrogate the obtained gene expression data and annotations of ~4500 transcription start sites, untranslated regions, operon structures, and 269 noncoding RNA elements. Among the latter is GibS, a conserved, 145 nt-long small RNA that is highly expressed in the presence of N-acetyl-D-glucosamine as sole carbon source. We use computational predictions and experimental data to determine the secondary structure of GibS and identify its target genes. Our results indicate that sensing of N-acetyl-D-glucosamine induces GibS expression, which in turn modifies the transcript levels of metabolic enzymes.
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