Immunoregulatory role of the gut microbiota in inflammatory depression/Experiment 9
From BugSigDB
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 , Blood , Colonic mucosa , Brain 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,Portion of blood,Vertebrate blood,Whole blood,Blood,blood,Colon mucosa,Colon mucous membrane,Colonic mucosa,Colonic mucous membrane,Large bowel mucosa,Mucosa of colon,Mucosa of large bowel,colonic mucosa,Encephalon,Suprasegmental levels of nervous system,Suprasegmental structures,Synganglion,The brain,Brain,brain
- Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology
- Major depressive disorder major depression,major depressive disorder,recurrent major depression,single major depressive episode,unipolar depression,Major depressive disorder
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- High inflammatory
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Clostridium butyricum (CB)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Mice classified into the Clostridium butyricum (CB)group
- Group 0 sample size Number of subjects in the control (unexposed) group
- 7
- Group 1 sample size Number of subjects in the case (exposed) group
- 7
- Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any)
- NONE
Lab analysis
- Sequencing type
- 16S
- 16S variable region One or more hypervariable region(s) of the bacterial 16S gene
- V3-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).
- relative abundances
- Statistical test
- LEfSe
- 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
- LDA Score above Threshold for the linear discriminant analysis (LDA) score for studies using the popular LEfSe tool
- 4.22
Alpha Diversity
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- increased
Signature 1
Source: FIG 6 (C)
Description: The LEfSe analysis between the CB group (Mice) and High-inflammatory group(Mice).
Abundance in Group 1: increased abundance in Clostridium butyricum (CB)
| NCBI | Quality Control | Links |
|---|---|---|
| Clostridia | ||
| Eubacteriales | ||
| Bacillota | ||
| Lachnospiraceae | ||
| Oscillospiraceae | ||
| Desulfovibrio | ||
| Deltaproteobacteria |
Revision editor(s): Rahila
Signature 2
Source: FIG 6 (C)
Description: The LEfSe analysis between the CB group (Mice) and High-inflammatory group(Mice).
Abundance in Group 1: decreased abundance in Clostridium butyricum (CB)
| NCBI | Quality Control | Links |
|---|---|---|
| Gammaproteobacteria | ||
| Pseudomonadota | ||
| Bacteroidaceae | ||
| Bacteroides | ||
| Enterobacteriaceae | ||
| Enterobacterales | ||
| Shigella | ||
| Butyricimonas | ||
| Odoribacteraceae |
Revision editor(s): Rahila
