Oral and gut microbial biomarkers of susceptibility to respiratory tract infection in adults: A feasibility study/Experiment 3

From BugSigDB


Reviewed Marked as Reviewed by Svetlana up on 2025-3-31

Curated date: 2025/03/27

Curator: UtibeIta

Revision editor(s): UtibeIta

Subjects

Location of subjects
United Kingdom
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
Saliva Sailva normalis,Saliva atomaris,Saliva molecularis,Salivary gland secretion,Saliva,saliva
Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology
Respiratory tract infectious disease infection, respiratory tract,infections, respiratory,infections, respiratory tract,infections, upper respiratory,infections, upper respiratory tract,respiratory infection, upper,respiratory infections,respiratory tract infection,upper respiratory infections,upper respiratory tract infections,Respiratory tract infectious disease,respiratory tract infectious disease
Group 0 name Corresponds to the control (unexposed) group for case-control studies
healthy control
Group 1 name Corresponds to the case (exposed) group for case-control studies
respiratory tract infection(end of study)
Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
participants who acquired Respiratory Tract Infection symptoms at the end of study
Group 0 sample size Number of subjects in the control (unexposed) group
21
Group 1 sample size Number of subjects in the case (exposed) group
17

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)?
No
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
decreased
Chao1 Abundance-based estimator of species richness
decreased

Signature 1

Reviewed Marked as Reviewed by Svetlana up on 2025-3-31

Curated date: 2025/03/27

Curator: UtibeIta

Revision editor(s): UtibeIta

Source: Figure S3A

Description: Difference between microbial biomarkers in oral end-of-study samples from participants who acquired Respiratory Tract Infection symptoms compared to those who remained healthy.

Abundance in Group 1: increased abundance in respiratory tract infection(end of study)

NCBI Quality ControlLinks
Actinomycetales
Actinomycetota
Bacilli
Lactobacillus
Streptococcaceae
Streptococcus

Revision editor(s): UtibeIta

Signature 2

Reviewed Marked as Reviewed by Svetlana up on 2025-3-31

Curated date: 2025/03/27

Curator: UtibeIta

Revision editor(s): UtibeIta

Source: Figure S3A

Description: Difference between microbial biomarkers in oral end-of-study samples from participants who acquired Respiratory Tract Infection symptoms compared to those who remained healthy.

Abundance in Group 1: decreased abundance in respiratory tract infection(end of study)

NCBI Quality ControlLinks
Clostridia
Eubacteriales
Oscillospiraceae

Revision editor(s): UtibeIta