Sampling from four geographically divergent young female populations demonstrates forensic geolocation potential in microbiomes/Experiment 7
From BugSigDB
Reviewed Marked as Reviewed by Svetlana up on 2024-11-18
Subjects
- Location of subjects
- Barbados
- Chile
- South Africa
- Thailand
- 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
- Cheek Buccae,Jowl,Cheek,cheek
- Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology
- Lifestyle measurement Lifestyle measurement,lifestyle measurement
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Barbados, Chile, and South Africa
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Thailand
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Thailand refers to the oral samples from healthy females aged between 18 and 26 years, based in Thailand.
- Group 0 sample size Number of subjects in the control (unexposed) group
- 138
- Group 1 sample size Number of subjects in the case (exposed) group
- 68
- Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any)
- Participants currently taking antibiotics were excluded from the study.
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
Signature 1
Reviewed Marked as Reviewed by Svetlana up on 2024-11-18
Source: Table S12
Description: Differentially abundant taxa in oral samples between Thailand and other location.
Abundance in Group 1: increased abundance in Thailand
| NCBI | Quality Control | Links |
|---|---|---|
| Streptococcus sanguinis | ||
| unclassified Haemophilus | ||
| uncultured Aggregatibacter sp. | ||
| uncultured Bergeyella sp. | ||
| uncultured gemellauncultured gemella | ||
| uncultured Neisseria sp. |
Revision editor(s): KateRasheed
Signature 2
Reviewed Marked as Reviewed by Svetlana up on 2024-11-18
Source: Table S12
Description: Differentially abundant taxa in oral samples between Thailand and other location.
Abundance in Group 1: decreased abundance in Thailand
Revision editor(s): KateRasheed
