The Impact of Mouthwash on the Oropharyngeal Microbiota of Men Who Have Sex with Men: a Substudy of the OMEGA Trial/Experiment 2
From BugSigDB
Subjects
- Location of subjects
- Australia
- 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
- Tonsillar fossa Tonsillar bed,Tonsillar sinus,Tonsillar fossa,tonsillar fossa
- Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology
- Gonorrhea Neisseria gonorrhoeae infection,chronic gonococcal infectious disease of lower genitourinary tract,chronic gonococcal infectious disease of upper genitourinary tract,Crosti-gianotti syndrome,Gianotti Crosti syndrome,acrodermatitis, infantile lichenoid,acrodermatitis, papular infantile,infections, Neisseria gonorrhoeae,papular acrodermatitis of childhood,Gonorrhea,gonorrhea
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- did not have gonorrhea detected
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- gonorrhea detected by NAAT at baseline
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- the oropharyngeal microbial communities at week-0 in men with and without oropharyngeal N. gonorrhoeae detected by NAAT
- Group 0 sample size Number of subjects in the control (unexposed) group
- 99
- Group 1 sample size Number of subjects in the case (exposed) group
- 54
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).
- centered log-ratio
- 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
- increased
Signature 1
Source: supplementary figure 4b
Description: The oropharyngeal microbiota of men with oropharyngeal N. gonorrhoeae at baseline compared to men without oropharyngeal N. gonorrhoeae Using ALDEx2, with a detected at week-0 by NAAT.
Abundance in Group 1: decreased abundance in gonorrhea detected by NAAT at baseline
| NCBI | Quality Control | Links |
|---|---|---|
| Bergeyella | ||
| Candidatus Absconditabacteria | ||
| Fusobacterium | ||
| Haemophilus | ||
| Peptostreptococcus |
Revision editor(s): Uhabiba14
