Gastrointestinal Dysmotility Predisposes to Colitis through Regulation of Gut Microbial Composition and Linoleic Acid Metabolism/Experiment 1
From BugSigDB
Reviewed Marked as Reviewed by Svetlana up on 2025-4-24
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
- Colitis Colitides,colitis,colitis (disease),colon inflammation,inflammation of colon,Colitis
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Wild Type (WT) Mice
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Kit wsh/wsh mice
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- c-Kit receptor dysfunction-based ICC-deficient murine model (Kitwsh/wsh) before Dextran Sulfate Sodium (DSS) treatment. Kitwsh/wsh C57BL/6J mice were from Jackson Laboratory (BarHarbor, ME).
- 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
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
- 2.5
- Matched on Factors on which subjects have been matched on in a case-control study
- age, sex
Alpha Diversity
- Shannon Estimator of species richness and species evenness: more weight on species richness
- increased
- Chao1 Abundance-based estimator of species richness
- increased
Signature 1
Reviewed Marked as Reviewed by Svetlana up on 2025-4-24
Source: Figure 3C
Description: Differences in microbial taxa at species levels between Wild Type (WT) and Kit wsh/wsh mice were calculated by LDA effect size (LEfSe).
Abundance in Group 1: increased abundance in Kit wsh/wsh mice
Revision editor(s): MyleeeA
Signature 2
Reviewed Marked as Reviewed by Svetlana up on 2025-4-24
Source: Figure 3C
Description: Differences in microbial taxa at species levels between Wild Type (WT) and Kit wsh/wsh mice were calculated by LDA effect size (LEfSe).
Abundance in Group 1: decreased abundance in Kit wsh/wsh mice
| NCBI | Quality Control | Links |
|---|---|---|
| Clostridium sp. Culture-54 | ||
| Ligilactobacillus animalis | ||
| Mucispirillum schaedleri | ||
| Parabacteroides goldsteinii | ||
| Adlercreutzia mucosicola | ||
| Lachnospiraceae bacterium A4 |
Revision editor(s): MyleeeA
