Modulating the human gut microbiome and health markers through kombucha consumption: a controlled clinical study/Experiment 3
From BugSigDB
Subjects
- Location of subjects
- United States of America
- 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
- Response to diet Response to diet,response to diet
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Kombucha T-2 (time point 2)
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Kombucha T-3 (time point 3)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Participants on a beige diet, drinking 16 oz of kombucha daily at the end of the treatment, 4 weeks (time point 3).
- Group 0 sample size Number of subjects in the control (unexposed) group
- 8
- Group 1 sample size Number of subjects in the case (exposed) group
- 16
- Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any)
- 3 months
Lab analysis
- Sequencing type
- WMS
- 16S variable region One or more hypervariable region(s) of the bacterial 16S gene
- Not specified
- 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
- Statistical test
- ANCOM-BC
- 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
- Confounders controlled for Confounding factors that have been accounted for by stratification or model adjustment
- age, body mass index, sex
Alpha Diversity
- Shannon Estimator of species richness and species evenness: more weight on species richness
- unchanged
- Richness Number of species
- unchanged
Signature 1
Source: Figure 4c
Description: Log-fold-change for differentially abundant features at the species level in gut microbiome samples from kombucha treatment subjects at time point 3 vs time point 2.
Abundance in Group 1: increased abundance in Kombucha T-3 (time point 3)
| NCBI | Quality Control | Links |
|---|---|---|
| Leuconostoc kimchii IMSNU 11154 | ||
| Weissella soli |
Revision editor(s): YokoC
Signature 2
Source: Figure 4c
Description: Log-fold-change for differentially abundant features at the species level in gut microbiome samples from kombucha treatment subjects at time point 3 vs time point 2.
Abundance in Group 1: decreased abundance in Kombucha T-3 (time point 3)
Revision editor(s): YokoC
