Cigarette smoking and the oral microbiome in a large study of American adults/Experiment 1
From BugSigDB
Reviewed Marked as Reviewed by Claregrieve1 on 2022/09/29
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
- Mouth Adult mouth,Cavital oralis,Cavitas oris,Cavum oris,Mouth cavity,Oral region,Oral vestibule,Regio oralis,Rima oris,Stoma,Stomatodaeum,Trophic apparatus,Vestibule of mouth,Vestibulum oris,Mouth,mouth
- 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
- former smoker
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- current smoker
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- participants who developed head and neck or pancreatic cancer at any point after collection of the oral wash samples
- Group 0 sample size Number of subjects in the control (unexposed) group
- 521
- Group 1 sample size Number of subjects in the case (exposed) group
- 112
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
- Roche454
Statistical Analysis
- Statistical test
- Kruskall-Wallis
- 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
- 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
- unchanged
Signature 1
Reviewed Marked as Reviewed by Claregrieve1 on 2022/09/29
Source: Table 2
Description: Differential microbial abundance between current and former smokers
Abundance in Group 1: increased abundance in current smoker
| NCBI | Quality Control | Links |
|---|---|---|
| Actinomycetota | ||
| Coriobacteriia |
Revision editor(s): Claregrieve1, WikiWorks
Signature 2
Reviewed Marked as Reviewed by Claregrieve1 on 2022/09/29
Source: Table 2
Description: Differential microbial abundance between current and former smokers
Abundance in Group 1: decreased abundance in current smoker
| NCBI | Quality Control | Links |
|---|---|---|
| Betaproteobacteria | ||
| Flavobacteriia | ||
| Gammaproteobacteria | ||
| Pseudomonadota |
Revision editor(s): Claregrieve1, WikiWorks
