Gut bacterial and fungal dysbiosis in tuberculosis patients

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
Han M, Wang X, Zhang J, Su L, Ishaq HM, Li D, Cui J, Zhao H, Yang F
Journal
BMC microbiology
Year
2024
Keywords:
Dysbiosis, Gut microbiota, Gut mycobiota, IFN-γ, IL-17, Tuberculosis
BACKGROUND: Recent studies have more focused on gut microbial alteration in tuberculosis (TB) patients. However, no detailed study on gut fungi modification has been reported till now. So, current research explores the characteristics of gut microbiota (bacteria)- and mycobiota (fungi)-dysbiosis in TB patients and also assesses the correlation between the gut microbiome and serum cytokines. It may help to screen the potential diagnostic biomarker for TB. RESULTS: The results show that the alpha diversity of the gut microbiome (including bacteria and fungi) decreased and altered the gut microbiome composition of TB patients. The bacterial genera Bacteroides and Prevotella were significantly increased, and Blautia and Bifidobacterium decreased in the TB patients group. The fungi genus Saccharomyces was increased while decreased levels of Aspergillus in TB patients. It indicates that gut microbial equilibrium between bacteria and fungi has been altered in TB patients. The fungal-to-bacterial species ratio was significantly decreased, and the bacterial-fungal trans-kingdom interactions have been reduced in TB patients. A set model including Bacteroides, Blautia, Eubacterium_hallii_group, Apiotrichum, Penicillium, and Saccharomyces may provide a better TB diagnostics option than using single bacterial or fungi sets. Also, gut microbial dysbiosis has a strong correlation with the alteration of IL-17 and IFN-γ. CONCLUSIONS: Our results demonstrate that TB patients exhibit the gut bacterial and fungal dysbiosis. In the clinics, some gut microbes may be considered as potential biomarkers for auxiliary TB diagnosis.

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
Tuberculosis (TB) patients
Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
Smear/culture-confirmed pulmonary tuberculosis.
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
33
Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any)
None within 1 month prior

Lab analysis

Sequencing type
16S
16S variable region One or more hypervariable region(s) of the bacterial 16S gene
V3-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
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 1e and 2e

Description: 1e) Identified the differentially abundant taxa between the TB patients and HC (LDA > 4, P < 0.05). The taxa enriched in the HC were characterized by a positive LDA score (red), and the TB-enriched taxa were indicated with a negative LDA score (blue). 2e) The LEfSe analysis identified the differentially abundant taxa between the TB patients and HC (LDA > 4, P < 0.05).

Abundance in Group 1: increased abundance in Tuberculosis (TB) patients

NCBI Quality ControlLinks
Prevotella
Saccharomyces
Bacteroides

Revision editor(s): Nuerteye

Signature 2

Needs review

Curated date: 2025/06/27

Curator: Nuerteye

Revision editor(s): Nuerteye

Source: Figure 1e and 2e

Description: 1e) Identified the differentially abundant taxa between the TB patients and HC (LDA > 4, P < 0.05). The taxa enriched in the HC were characterized by a positive LDA score (red), and the TB-enriched taxa were indicated with a negative LDA score (blue). 2e) The LEfSe analysis identified the differentially abundant taxa between the TB patients and HC (LDA > 4, P < 0.05).

Abundance in Group 1: decreased abundance in Tuberculosis (TB) patients

NCBI Quality ControlLinks
Blautia
Bifidobacterium
Eubacterium halliiEubacterium hallii
Romboutsia
Dorea
Subdoligranulum
Fusicatenibacter
Klebsiella
ClustridiumClustridium
Ascomycota
unclassified k fungiunclassified k fungi
Aspergillus
ApiotrichumApiotrichum
cutaneotrichoporoncutaneotrichoporon

Revision editor(s): Nuerteye