Microbiota assembly, structure, and dynamics among Tsimane horticulturalists of the Bolivian Amazon/Experiment 1
From BugSigDB
Subjects
- Location of subjects
- Bolivia
- 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
- Restricted to specific location localized,Restricted to specific location,restricted to specific location
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Proximal River Village
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Distal River Village
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Tsimane adults (>14 years old) that live in a village along the Maniqui river, that is more than 20 km away from the regional market and have access to the market via 6-12 hour trips by foot or boat.
- Group 0 sample size Number of subjects in the control (unexposed) group
- 19
- Group 1 sample size Number of subjects in the case (exposed) group
- 77
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).
- log transformation
- Significance threshold p-value or FDR threshold used for differential abundance testing (if any)
- 0.05
Signature 1
Source: Figure 5C and Sprockett_Tsimane_ps.rds
Description: Discriminatory ASVs for proximal and distal river villages identified using a tree-based LDA algorithm.
Abundance in Group 1: increased abundance in Distal River Village
Revision editor(s): YokoC
Signature 2
Source: Figure 5C and Sprockett_Tsimane_ps.rds
Description: Discriminatory ASVs for proximal and distal river villages identified using a tree-based LDA algorithm.
Abundance in Group 1: decreased abundance in Distal River Village
| NCBI | Quality Control | Links |
|---|---|---|
| Prevotellaceae UCG-003Prevotellaceae UCG-003 |
Revision editor(s): YokoC
