Correlation of fecal metabolomics and gut microbiota in mice with endometriosis/Experiment 1
From BugSigDB
Reviewed Marked as Reviewed by Claregrieve1 on 2022/12/23
Curated date: 2021/08/09
Curator: Samara.Khan
Revision editor(s): Samara.Khan, WikiWorks, Peace Sandy
Subjects
- Location of subjects
- China
- Host species Species from which microbiome was sampled. Contact us to have more species added.
- Mus musculus
- 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
- Endometriosis endometriosis,Endometriosis (clinical),endometriosis (disease),Endometriosis (disorder),Endometriosis (morphologic abnormality),ENDOMETRIOSIS NEC,Endometriosis NOS,Endometriosis NOS (disorder),Endometriosis of other specified sites,Endometriosis, site unspecified,Endometriosis
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Non-endo mice
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Endo mice
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Endometriosis was induced in female mice via transplantation of endometrial fragments.
- Group 0 sample size Number of subjects in the control (unexposed) group
- 6
- Group 1 sample size Number of subjects in the case (exposed) group
- 6
- Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any)
- N/A
Lab analysis
- Sequencing type
- 16S
- 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).
- relative abundances
- Statistical test
- Mann-Whitney (Wilcoxon)
- 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)?
- No
Alpha Diversity
- Shannon Estimator of species richness and species evenness: more weight on species richness
- decreased
Signature 1
Reviewed Marked as Reviewed by Claregrieve1 on 2022/12/23
Source: Figure 3 and Results section
Description: Differential microbial abundance of mice with simulated endometriosis compared to controls.
Abundance in Group 1: decreased abundance in Endo mice
| NCBI | Quality Control | Links |
|---|---|---|
| Anaerostipes | ||
| Bacteroides | ||
| Blautia | ||
| Eisenbergiella | ||
| Faecalitalea | ||
| Bacillota | ||
| Gordonibacter | ||
| Lachnospiraceae bacterium NK4A136 | ||
| Lactobacillus | ||
| Prevotellaceae | ||
| Roseburia | ||
| Tyzzerella |
Revision editor(s): Samara.Khan, Claregrieve1
Signature 2
Reviewed Marked as Reviewed by Claregrieve1 on 2022/12/23
Source: Figure 3
Description: Differential microbial abundance of mice with simulated endometriosis compared to controls.
Abundance in Group 1: increased abundance in Endo mice
| NCBI | Quality Control | Links |
|---|---|---|
| Akkermansia | ||
| Allobaculum | ||
| Citrobacter | ||
| Parabacteroides | ||
| Parasutterella | ||
| Pseudomonadota | ||
| Rikenella | ||
| Verrucomicrobiota |
Revision editor(s): Samara.Khan, Claregrieve1
