Alterations in the intestinal microbiota associated with active tuberculosis and latent tuberculosis infection

From BugSigDB
Needs review
study design
Citation
PMID PubMed identifier for scientific articles.
DOI Digital object identifier for electronic documents.
URI Uniform resource identifier for web resources.
Authors
Huang Y, Tang J, Cai Z, Qi Y, Jiang S, Ma T, Yue Y, Huang F, Yang H, Ma Y
Journal
Heliyon
Year
2023
Keywords:
16S rDNA sequencing, Active tuberculosis (ATB), Human gut microbiota, Latent tuberculosis infection (LTBI), Microbial diversity, Mycobacterium tuberculosis
OBJECTIVES: To study the characteristics of intestinal microbiota at different stages of Mycobacterium tuberculosis infection. METHODS: Fecal samples of 19 active tuberculosis (ATB) patients, 21 latent tuberculosis infection (LTBI) individuals, and 20 healthy controls (HC) were collected. Gut microbiota of all the participants were analyzed by 16S rDNA sequencing. Clinical information of ATB patients was also collected and analyzed. RESULTS: Both ATB and LTBI groups showed significant decreases in microbial diversity and decline of Clostridia. For ATB patients, bacteria within phylum Proteobacteria increased. While for LTBI individuals, genera Prevotella and Rosburia enriched. The abundance of Faecalibacterium, Clostridia and Gammaproteobacteria has the potential to diagnose ATB, with the area under the curve (AUC) of 0.808, 0.784 and 0.717. And Prevotella and Rosburia has the potential to diagnose LTBI, with the AUC of 0.689 and 0.689. Notably, in ATB patients, the relative abundance of Blautia was negatively correlated with the proportions of peripheral T cells and CD8+T cells. And serum direct bilirubin was positively correlated with Bacteroidales, while negatively correlated with Clostridiales in ATB patients. CONCLUSIONS: The specifically changed bacteria are promising markers for ATB and LTBI diagnosis. Some gut bacteria contribute to anti-MTB immunity through interactions with T cells and bilirubin.

Experiment 1


Needs review

Curated date: 2025/06/27

Curator: Nuerteye

Revision editor(s): Nuerteye

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
Pulmonary tuberculosis lung TB,lung tuberculosis,pulmonary TB,pulmonary tuberculosis,Tuberculosis, Pulmonary,Pulmonary tuberculosis
Group 0 name Corresponds to the control (unexposed) group for case-control studies
Healthy controls
Group 1 name Corresponds to the case (exposed) group for case-control studies
Active TB
Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
Clinical and microbiologically confirmed pulmonary TB, treatment-naïve.
Group 0 sample size Number of subjects in the control (unexposed) group
20
Group 1 sample size Number of subjects in the case (exposed) group
19
Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any)
Exclusion criteria included receiving more than one week of antibiotic or probiotic treatment within the previous two months.

Lab analysis

Sequencing type
PCR
16S variable region One or more hypervariable region(s) of the bacterial 16S gene
Not specified
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
Linear Discriminant Analysis
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
Matched on Factors on which subjects have been matched on in a case-control study
age, sex

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

Needs review

Curated date: 2025/06/27

Curator: Nuerteye

Revision editor(s): Nuerteye

Source: Figure 5A and B

Description: (A) Column diagram of LDA analysis of fecal microbiome in the three groups (HC, LTBI and ATB) (P < 0.05; LDA score >4.0). (B) Pairwise LDA effect size (LEfSe) analysis table of fecal microbiome. The phyla and subsequent taxonomic levels are sorted alphabetically, and the corresponding LDA score for each pairwise analysis is indicated in the column (P < 0.05; LDA score >4.0)

Abundance in Group 1: increased abundance in Active TB

NCBI Quality ControlLinks
Enterobacteriaceae
EnterobacterialesEnterobacteriales
Gammaproteobacteria
ProteobacteriaProteobacteria
ErysipelatoclostridiumErysipelatoclostridium

Revision editor(s): Nuerteye

Signature 2

Needs review

Curated date: 2025/06/27

Curator: Nuerteye

Revision editor(s): Nuerteye

Source: Figure 5A and B

Description: (A) Column diagram of LDA analysis of fecal microbiome in the three groups (HC, LTBI and ATB) (P < 0.05; LDA score >4.0). (B) Pairwise LDA effect size (LEfSe) analysis table of fecal microbiome. The phyla and subsequent taxonomic levels are sorted alphabetically, and the corresponding LDA score for each pairwise analysis is indicated in the column (P < 0.05; LDA score >4.0).

Abundance in Group 1: decreased abundance in Active TB

NCBI Quality ControlLinks
BifidobacterialeBifidobacteriale
Bifidobacteriaceae
Bifidobacterium
Clostridia
ClostridialesClostridiales
OscillospiraceaeOscillospiraceae
Ruminococcus
Faecalibacterium
Lachnospiraceae
Agathobacter
Fusicatenibacter

Revision editor(s): Nuerteye