Bacteroides uniformis degrades β-glucan to promote Lactobacillus johnsonii improving indole-3-lactic acid levels in alleviating colitis
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Study information
-
Quality control
- Retracted paper
- Contamination issues suspected
- Batch effect issues suspected
- Uncontrolled confounding suspected
- Results are suspect (various reasons)
- Tags applied
study design
Citation
PMID PubMed identifier for scientific articles.
DOI Digital object identifier for electronic documents.
URI
Authors
Zhang S, Nie Q, Sun Y, Zuo S, Chen C, Li S, Yang J, Hu J, Zhou X, Yu Y, Huang P, Lian L, Xie M, Nie S
Journal
Microbiome
Year
2024
Keywords:
Bacteroides uniformis, Lactobacillus johnsonii, β-glucan, Aryl hydrocarbon receptor, Cross-feeding, Indole-3-lactic acid, Inflammatory bowel disease, Nicotinamide
BACKGROUND: Intake of dietary fiber is associated with a reduced risk of inflammatory bowel disease. β-Glucan (BG), a bioactive dietary fiber, has potential health-promoting effects on intestinal functions; however, the underlying mechanism remains unclear. Here, we explore the role of BG in ameliorating colitis by modulating key bacteria and metabolites, confirmed by multiple validation experiments and loss-of-function studies, and reveal a novel bacterial cross-feeding interaction. RESULTS: BG intervention ameliorates colitis and reverses Lactobacillus reduction in colitic mice, and Lactobacillus abundance was significantly negatively correlated with the severity of colitis. It was confirmed by further studies that Lactobacillus johnsonii was the most significantly enriched Lactobacillus spp. Multi-omics analysis revealed that L. johnsonii produced abundant indole-3-lactic acid (ILA) leading to the activation of aryl hydrocarbon receptor (AhR) responsible for the mitigation of colitis. Interestingly, L. johnsonii cannot utilize BG but requires a cross-feeding with Bacteroides uniformis, which degrades BG and produces nicotinamide (NAM) to promote the growth of L. johnsonii. A proof-of-concept study confirmed that BG increases L. johnsonii and B. uniformis abundance and ILA levels in healthy individuals. CONCLUSIONS: These findings demonstrate the mechanism by which BG ameliorates colitis via L. johnsonii-ILA-AhR axis and reveal the important cross-feeding interaction between L. johnsonii and B. uniformis. Video Abstract.
Experiment 1
Needs review
Subjects
- Location of subjects
- China
- Host species Species from which microbiome was sampled. Contact us to have more species added.
- Mus musculus
- Body site Anatomical site where microbial samples were extracted from according to the Uber Anatomy Ontology
- Feces Cow dung,Cow pat,Droppings,Dung,Excrement,Excreta,Faeces,Fecal material,Fecal matter,Fewmet,Frass,Guano,Matières fécales@fr,Merde@fr,Ordure,Partie de la merde@fr,Piece of shit,Porción de mierda@es,Portion of dung,Portion of excrement,Portion of faeces,Portion of fecal material,Portion of fecal matter,Portion of feces,Portion of guano,Portion of scat,Portionem cacas,Scat,Spoor,Spraint,Stool,Teil der fäkalien@de,Feces,feces
- Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology
- Colitis Colitides,colitis,colitis (disease),colon inflammation,inflammation of colon,Colitis
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- DSS group
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- BG + DSS group
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Mice treated with β-glucan (BG) alongside dextran sulfate sodium (DSS) to study the potential therapeutic effects of BG on DSS-induced colitis.
- Group 0 sample size Number of subjects in the control (unexposed) group
- 6
- Group 1 sample size Number of subjects in the case (exposed) group
- 6
Lab analysis
- Sequencing type
- 16S
- 16S variable region One or more hypervariable region(s) of the bacterial 16S gene
- V4
- Sequencing platform Manufacturer and experimental platform used for quantifying microbial abundance
- Illumina
Statistical Analysis
- Data transformation Data transformation applied to microbial abundance measurements prior to differential abundance testing (if any).
- relative abundances
- Statistical test
- LEfSe
- Significance threshold p-value or FDR threshold used for differential abundance testing (if any)
- 0.05
- MHT correction Have statistical tests be corrected for multiple hypothesis testing (MHT)?
- Yes
- LDA Score above Threshold for the linear discriminant analysis (LDA) score for studies using the popular LEfSe tool
- 2
Alpha Diversity
- Shannon Estimator of species richness and species evenness: more weight on species richness
- unchanged
- Chao1 Abundance-based estimator of species richness
- unchanged
Signature 1
Reviewed Marked as Reviewed by Svetlana up on 2024-11-5
Source: figure 2d
Description: Comparison of relative abundance of bacteria between DSS and BG + DSS group was calculated by linear discriminant analysis effect size (LEfSe). Taxa meeting an LDA score threshold > 2.0 is shown.
Abundance in Group 1: increased abundance in BG + DSS group
| NCBI | Quality Control | Links |
|---|---|---|
| Bacilli | ||
| Bacteroides uniformis | ||
| Lactobacillaceae | ||
| Lactobacillales | ||
| Lactobacillus | ||
| Porphyromonadaceae |
Signature 2
Reviewed Marked as Reviewed by Svetlana up on 2024-11-5
Source: figure 2d
Description: Comparison of relative abundance of bacteria between DSS and BG + DSS group was calculated by linear discriminant analysis effect size (LEfSe). Taxa meeting an LDA score threshold > 2.0 is shown.
Abundance in Group 1: decreased abundance in BG + DSS group
| NCBI | Quality Control | Links |
|---|---|---|
| Clostridia | ||
| Coriobacteriaceae | ||
| Coriobacteriales | ||
| Coriobacteriia | ||
| Lachnospiraceae | ||
| Actinomycetota |
Experiment 2
Needs review
Curated date: 2024/10/16
Curator:
Revision editor(s):
Differences from previous experiment shown
Subjects
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- 0-h fermented samples
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- 24-h fermented samples
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Samples taken 24 hours after the intervention has been administered.
- Group 0 sample size Number of subjects in the control (unexposed) group
- 3
- Group 1 sample size Number of subjects in the case (exposed) group
- 3
Lab analysis
Statistical Analysis
Signature 1
Reviewed Marked as Reviewed by Svetlana up on 2024-11-5
Source: figure 2i
Description: Comparison of relative abundance of bacteria between 0 and 24 h in the fermented sample by LEfSe.
Abundance in Group 1: increased abundance in
Signature 2
Reviewed Marked as Reviewed by Svetlana up on 2024-11-5
Source: figure 2i
Description: Comparison of relative abundance of bacteria between 0 and 24 h in the fermented sample by LEfSe.
Abundance in Group 1: decreased abundance in
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