Types of tobacco consumption and the oral microbiome in the United Arab Emirates Healthy Future (UAEHFS) Pilot Study/Experiment 1
From BugSigDB
Reviewed Marked as Reviewed by Claregrieve1 on 2023-5-4
Subjects
- Location of subjects
- United Arab Emirates
- 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
- Nonsmokers
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Cigarette Smokers
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- People consuming tobacco in the form of cigarettes (CS)
- Group 0 sample size Number of subjects in the control (unexposed) group
- 225
- 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
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).
- raw counts
- Statistical test
- DESeq2
- 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
Alpha Diversity
- Shannon Estimator of species richness and species evenness: more weight on species richness
- unchanged
- Chao1 Abundance-based estimator of species richness
- increased
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- increased
- Richness Number of species
- increased
Signature 1
Reviewed Marked as Reviewed by Claregrieve1 on 2023-5-4
Source: Table 2
Description: Differentially abundant taxa at selected taxonomical levels by type of tobacco use, compared to nonsmokers
Abundance in Group 1: increased abundance in Cigarette Smokers
| NCBI | Quality Control | Links |
|---|---|---|
| Atopobium | ||
| Bifidobacterium | ||
| Campylobacter | ||
| Dialister | ||
| Enhydrobacter | ||
| Megasphaera | ||
| Mycoplasma | ||
| Paludibacter | ||
| Prevotella | ||
| Treponema | ||
| uncultured Synergistes sp. |
Revision editor(s): Adi13, ChiomaBlessing
Signature 2
Reviewed Marked as Reviewed by Claregrieve1 on 2023-5-4
Source: Table 2
Description: Differentially abundant taxa at selected taxonomical levels by type of tobacco use, compared to nonsmokers
Abundance in Group 1: decreased abundance in Cigarette Smokers
Revision editor(s): Adi13
