Alcohol and tobacco consumption affects bacterial richness in oral cavity mucosa biofilms/Experiment 2
From BugSigDB
Reviewed Marked as Reviewed by Folakunmi on 2023-12-28
Subjects
- Location of subjects
- Brazil
- 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 mucosa Buccal mucosa,Mouth mucosa,Mouth mucous membrane,Mouth organ mucosa,Mucosa of mouth,Mucosal lining of mouth,Mucous membrane of mouth,Oral mucosa,Oral mucous membrane,Oral part of viscerocranial mucosa,Tunica mucosa oris,mouth mucosa
- Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology
- Alcohol drinking , Smoking behavior alcohol consumption,Alcohol drinking,alcohol drinking,smoking,Smoking behavior,smoking behavior
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Controls (C)
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Smokers/Drinkers (SD)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- All individuals in this group reported the use of at least 20 cigarettes/day with a regular smoking history of at least 10 years. These individuals also reported daily drinking habits (>1×/day, >3 drinks/occasion) and a regular drinking history of at least 10 years.
- Group 0 sample size Number of subjects in the control (unexposed) group
- 9
- Group 1 sample size Number of subjects in the case (exposed) group
- 7
- Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any)
- last 3 months
Lab analysis
- Sequencing type
- 16S
- 16S variable region One or more hypervariable region(s) of the bacterial 16S gene
- V1
- Sequencing platform Manufacturer and experimental platform used for quantifying microbial abundance
- Ion Torrent
Statistical Analysis
- Data transformation Data transformation applied to microbial abundance measurements prior to differential abundance testing (if any).
- relative abundances
- 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
Alpha Diversity
- Shannon Estimator of species richness and species evenness: more weight on species richness
- decreased
- Chao1 Abundance-based estimator of species richness
- decreased
- Richness Number of species
- decreased
Signature 1
Reviewed Marked as Reviewed by Folakunmi on 2023-12-28
Source: Supplementary Table 1, Supplementary Table 2, Figure 5
Description: Relatively abundant phyla and genera found in the groups.
Abundance in Group 1: decreased abundance in Smokers/Drinkers (SD)
Signature 2
Reviewed Marked as Reviewed by Folakunmi on 2023-12-28
Source: Supplementary Table 1, Supplementary Table 2, Figure 5
Description: Relatively abundant phyla and genera found in the groups.
Abundance in Group 1: increased abundance in Smokers/Drinkers (SD)
