Structural changes in the oral microbiome of the adolescent patients with moderate or severe dental fluorosis/Experiment 4
From BugSigDB
Needs review
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
- Saliva Sailva normalis,Saliva atomaris,Saliva molecularis,Salivary gland secretion,Saliva,saliva
- Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology
- Dental fluorosis dental fluorosis,fluorosis,Fluorosis, Dental,Intrinsic enamel discolouration of fluorosis,intrinsic enamel discolouration of fluorosis,Mottled teeth,mottled teeth,Mottling of enamel,mottling of enamel,Dental fluorosis
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Mild
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- M&S (Moderate/Severe)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- This group includes participants diagnosed with dental fluorosis according to the Dean’s Index, specifically those categorized as Code 4 (moderate) and Code 5 (severe). Code 4 (Moderate): Characterized by extensive brown or yellow-brown staining with mild enamel wear. Code 5 (Severe): Characterized by deep stains, obvious pits, and increased enamel brittleness.
- Group 0 sample size Number of subjects in the control (unexposed) group
- 14
- 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)
- 6 months
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
- Mann-Whitney (Wilcoxon)
- 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
Alpha Diversity
- Shannon Estimator of species richness and species evenness: more weight on species richness
- unchanged
- Richness Number of species
- unchanged
- Faith Phylogenetic diversity, takes into account phylogenetic distance of all taxa identified in a sample
- unchanged
Signature 1
Needs review
Source: Fig. 4C, 4E, 4G-H
Description: Significantly different bacterial species between Mild and M&S group based on Wilcoxon analysis.
Abundance in Group 1: increased abundance in M&S (Moderate/Severe)
| NCBI | Quality Control | Links |
|---|---|---|
| Fusobacterium nucleatum | ||
| Gemella parahaemolysans | ||
| Lactococcus lactis | ||
| Streptococcus mitis |
Revision editor(s): KateRasheed
Signature 2
Needs review
Source: Fig. 4D
Description: Significantly different bacterial species between Mild and M&S group based on Wilcoxon analysis.
Abundance in Group 1: decreased abundance in M&S (Moderate/Severe)
| NCBI | Quality Control | Links |
|---|---|---|
| Prevotella melaninogenica |
Revision editor(s): KateRasheed
