Sampling from four geographically divergent young female populations demonstrates forensic geolocation potential in microbiomes/Experiment 4
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
- Feces Cow dung,Cow pat,Droppings,Dung,Excrement,Excreta,Faeces,Fecal material,Fecal matter,Fewmet,Frass,Guano,Matières fécales@fr,Merde@fr,Ordure,Partie de la merde@fr,Piece of shit,Porción de mierda@es,Portion of dung,Portion of excrement,Portion of faeces,Portion of fecal material,Portion of fecal matter,Portion of feces,Portion of guano,Portion of scat,Portionem cacas,Scat,Spoor,Spraint,Stool,Teil der fäkalien@de,Feces,feces
- 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
- Chile, South Africa, Thailand
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Barbados
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Barbados refers to the samples from healthy females aged between 18 and 26 years, based in Barbados.
- Group 0 sample size Number of subjects in the control (unexposed) group
- 174
- Group 1 sample size Number of subjects in the case (exposed) group
- 32
- 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 S9
Description: Differentially abundant taxa in stool samples for Barbados location.
Abundance in Group 1: increased abundance in Barbados
| NCBI | Quality Control | Links |
|---|---|---|
| uncultured Pseudobutyrivibrio sp. | ||
| Bacteroides ovatus | ||
| Lachnospiraceae_UCG-004Lachnospiraceae_UCG-004 | ||
| Lachnospiraceae_UCG-005Lachnospiraceae_UCG-005 | ||
| uncultured Bacteroides sp. |
Revision editor(s): KateRasheed
Signature 2
Reviewed Marked as Reviewed by Svetlana up on 2024-11-18
Source: Table S9
Description: Differentially abundant taxa in stool samples for Barbados location.
Abundance in Group 1: decreased abundance in Barbados
Revision editor(s): KateRasheed
