Antibiotics in early life alter the gut microbiome and increase disease incidence in a spontaneous mouse model of autoimmune insulin-dependent diabetes/Experiment 1
From BugSigDB
Needs review
Subjects
- Location of subjects
- France
- 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
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Control group
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Vancomycin treated group
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Feces samples were collected from 8-week-old mice treated with vancomycin.
- Group 0 sample size Number of subjects in the control (unexposed) group
- 13
- 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
- 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
- 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
- Chao1 Abundance-based estimator of species richness
- decreased
Signature 1
Needs review
Source: Figure 4a
Description: Variation of bacterial taxa at genus level when mice are treated with vancomycin.
Abundance in Group 1: increased abundance in Vancomycin treated group
| NCBI | Quality Control | Links |
|---|---|---|
| Anaeroplasma | ||
| Escherichia | ||
| Lactobacillus | ||
| Sutterella | ||
| unclassified Bacteria | ||
| unclassified Enterobacteriaceae | ||
| unclassified Muribaculaceae | ||
| Mucispirillum |
Revision editor(s): Aleru Divine, WikiWorks
Signature 2
Needs review
Source: Figure 4a
Description: Variation of bacterial taxa at genus level when mice are treated with vancomycin.
Abundance in Group 1: decreased abundance in Vancomycin treated group
| NCBI | Quality Control | Links |
|---|---|---|
| Bacteroides | ||
| Oscillospira | ||
| Prevotella | ||
| unclassified Bacteroidales | ||
| unclassified Eubacteriales | ||
| unclassified Lachnospiraceae | ||
| unclassified Prevotellaceae | ||
| unclassified Rikenellaceae |
Revision editor(s): Aleru Divine, WikiWorks
