Cigarette Smoking Modulation of Saliva Microbial Composition and Cytokine Levels/Experiment 1
From BugSigDB
Reviewed Marked as Reviewed by Mcarlson on 2023-3-21
Subjects
- Location of subjects
- United States of America
- 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
- Smoking behavior smoking,Smoking behavior,smoking behavior
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Non-smokers
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Smokers
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Current smokers.
- Group 0 sample size Number of subjects in the control (unexposed) group
- 16
- Group 1 sample size Number of subjects in the case (exposed) group
- 18
- Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any)
- None of the participants were taking antibiotics.
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)?
- No
- LDA Score above Threshold for the linear discriminant analysis (LDA) score for studies using the popular LEfSe tool
- 3
Signature 1
Reviewed Marked as Reviewed by Mcarlson on 2023-3-21
Source: Figure 4
Description: Differential LEfSe-associated bacteria between the smoker and nonsmoker groups.
Abundance in Group 1: increased abundance in Smokers
| NCBI | Quality Control | Links |
|---|---|---|
| Actinobacillus | ||
| Alloiococcus | ||
| Bacteroidaceae | ||
| Bulleidia | ||
| Chryseobacterium | ||
| Erysipelothrix | ||
| Fusobacterium | ||
| Gemella | ||
| Leminorella | ||
| Necropsobacter | ||
| Serratia | ||
| Sutterella | ||
| MCG-15 |
Revision editor(s): Dupe, Mcarlson, Peace Sandy
Signature 2
Reviewed Marked as Reviewed by Mcarlson on 2023-3-21
Source: Figure 4
Description: Differential LEfSe-associated bacteria between the smoker and nonsmoker groups.
Abundance in Group 1: decreased abundance in Smokers
Revision editor(s): Dupe, Mcarlson, Peace Sandy
