The influence of in vitro pectin fermentation on the human fecal microbiome/Experiment 1
From BugSigDB
Reviewed Marked as Reviewed by Folakunmi on 2024-1-19
Subjects
- Location of subjects
- South Korea
- 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
- Diet Dietary,Diets,Diet,diet
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- late pectin incubation time
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- early pectin incubation time
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- before/early pectin incubation
- Group 0 sample size Number of subjects in the control (unexposed) group
- 3
- Group 1 sample size Number of subjects in the case (exposed) group
- 3
- Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any)
- 6 months
Lab analysis
- Sequencing type
- 16S
- 16S variable region One or more hypervariable region(s) of the bacterial 16S gene
- V1-V2
- Sequencing platform Manufacturer and experimental platform used for quantifying microbial abundance
- Ion Torrent
Statistical Analysis
- Data transformation Data transformation applied to microbial abundance measurements prior to differential abundance testing (if any).
- relative abundances
- Statistical test
- Linear Regression
- Significance threshold p-value or FDR threshold used for differential abundance testing (if any)
- 0.1
- MHT correction Have statistical tests be corrected for multiple hypothesis testing (MHT)?
- Yes
Signature 1
Reviewed Marked as Reviewed by Folakunmi on 2024-1-19
Source: Figure 4 and text
Description: Significantly changed taxa according to pectin incubation time (q value < 0.1)
Abundance in Group 1: increased abundance in early pectin incubation time
Revision editor(s): WikiWorks
Signature 2
Reviewed Marked as Reviewed by Folakunmi on 2024-1-19
Source: Figure 4 and text
Description: Significantly changed taxa according to pectin incubation time (q value < 0.1)
Abundance in Group 1: decreased abundance in early pectin incubation time
| NCBI | Quality Control | Links |
|---|---|---|
| Lachnospira | ||
| Sutterella | ||
| Dorea | ||
| Clostridium | ||
| Burkholderiales | ||
| Bacteroidales |
Revision editor(s): WikiWorks
