ArticleBMC genomics2013
Polysaccharides utilization in human gut bacterium Bacteroides thetaiotaomicron: comparative genomics reconstruction of metabolic and regulatory networks.
Article in BMC genomics, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 82 papers.
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Who cites it
82 citing papers in PubMed, 143 citations in OpenAlex.
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- Constitutive activation of a hybrid two-component regulator reveals cross-regulation of polysaccharide utilization genes in Bacteroides.The Journal of biological chemistry · 2026Article
- Evolutionary Genomics of Human Gut Bacteria: Ecological Plasticity Across the Mutualism-Pathogenicity Spectrum.International journal of molecular sciences · 2026Review
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- An electron transport complex required in the gut sensitizesProceedings of the National Academy of Sciences of the United States of America · 2025Article
- Captive environments reshape the compositions of carbohydrate active enzymes and virulence factors in wolf gut microbiome.BMC microbiology · 2025Article
- Effects ofFoods (Basel, Switzerland) · 2025Article
- The global RNA-binding protein RbpB is a regulator of polysaccharide utilization in Bacteroides thetaiotaomicron.Nature communications · 2025Article
- Microbial transcriptional responses to host diet maintain gut microbiome homeostasis in the American cockroach.bioRxiv : the preprint server for biology · 2024Article
- Determinants of raffinose family oligosaccharide use inJournal of bacteriology · 2024Article
- Exploring the resilience and stability of a defined human gut microbiota consortium: An isothermal microcalorimetric study.MicrobiologyOpen · 2024Article
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- Enrichment and characterization of human-associated mucin-degrading microbial consortia by sequential passage.FEMS microbiology ecology · 2024Article
- Determinants of raffinose family oligosaccharide use inbioRxiv : the preprint server for biology · 2024Article
- Quantifying the adaptive landscape of commensal gut bacteria using high-resolution lineage tracking.Nature communications · 2024Article
- Article
22 more citing papers are in PubMed but not listed here.
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Authors and funding
4 authors at 2 institutions in 2 countries.
Funding
Abstract
backgroundBacteroides thetaiotaomicron, a predominant member of the human gut microbiota, is characterized by its ability to utilize a wide variety of polysaccharides using the extensive saccharolytic machinery that is controlled by an expanded repertoire of transcription factors (TFs). The availability of genomic sequences for multiple Bacteroides species opens an opportunity for their comparative analysis to enable characterization of their metabolic and regulatory networks.
resultsA comparative genomics approach was applied for the reconstruction and functional annotation of the carbohydrate utilization regulatory networks in 11 Bacteroides genomes. Bioinformatics analysis of promoter regions revealed putative DNA-binding motifs and regulons for 31 orthologous TFs in the Bacteroides. Among the analyzed TFs there are 4 SusR-like regulators, 16 AraC-like hybrid two-component systems (HTCSs), and 11 regulators from other families. Novel DNA motifs of HTCSs and SusR-like regulators in the Bacteroides have the common structure of direct repeats with a long spacer between two conserved sites.
conclusionsThe inferred regulatory network in B. thetaiotaomicron contains 308 genes encoding polysaccharide and sugar catabolic enzymes, carbohydrate-binding and transport systems, and TFs. The analyzed TFs control pathways for utilization of host and dietary glycans to monosaccharides and their further interconversions to intermediates of the central metabolism. The reconstructed regulatory network allowed us to suggest and refine specific functional assignments for sugar catabolic enzymes and transporters, providing a substantial improvement to the existing metabolic models for B. thetaiotaomicron. The obtained collection of reconstructed TF regulons is available in the RegPrecise database (http://regprecise.lbl.gov).
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