The potential mechanism of the progression from latent to active tuberculosis based on the intestinal microbiota alterations/Experiment 3
From BugSigDB
Subjects
- Location of subjects
- China
- Host species Species from which microbiome was sampled. Contact us to have more species added.
- Homo sapiens
- 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
- Tuberculosis active tuberculosis,Kochs disease,TB,tuberculosis,tuberculosis disease,Tuberculosis
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- combination of healthy controls (HC) and active tuberculosis (ATB)
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- latent tuberculosis infection (LTBI)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Positive IGRAs and/or TST (nodule ≥15 mm, blister or necrosis), but had no clinical symptoms of TB.
- Group 0 sample size Number of subjects in the control (unexposed) group
- 40
- Group 1 sample size Number of subjects in the case (exposed) group
- 13
- Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any)
- previous history of treatment using antibiotics
Lab analysis
- Sequencing type
- 16S
- 16S variable region One or more hypervariable region(s) of the bacterial 16S gene
- V3-V5
- Sequencing platform Manufacturer and experimental platform used for quantifying microbial abundance
- Illumina
Statistical Analysis
- Statistical test
- LEfSe
- Significance threshold p-value or FDR threshold used for differential abundance testing (if any)
- 0.05
- LDA Score above Threshold for the linear discriminant analysis (LDA) score for studies using the popular LEfSe tool
- 4
Alpha Diversity
- Shannon Estimator of species richness and species evenness: more weight on species richness
- decreased
- Chao1 Abundance-based estimator of species richness
- decreased
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- decreased
- Richness Number of species
- decreased
Signature 1
Source: Figure 5A-B
Description: The enrichment deviation diagram of three groups based on LEfSe analysis (selection criteria: P<0.05; LDA score ≥ 4). Histogram of LDA value of intestinal microbiota in three groups. The column represents LDA Score, and the colors represent the microbiota in three groups, respectively. LEfSe cladogram of LEfSe analysis.
Abundance in Group 1: increased abundance in latent tuberculosis infection (LTBI)
| NCBI | Quality Control | Links |
|---|---|---|
| Bifidobacterium | ||
| Bifidobacteriales | ||
| Bifidobacteriaceae | ||
| Lactobacillus | ||
| unclassified Lactobacillaceae | ||
| Romboutsia |
Revision editor(s): Nuerteye
