Increased intestinal permeability and gut dysbiosis in the R6/2 mouse model of Huntington's disease/Experiment 1
From BugSigDB
Reviewed Marked as Reviewed by Fatima on 2023/01/25
Subjects
- Location of subjects
- Sweden
- 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
- Huntington disease HD,Huntington chorea,Huntington disease,Huntington's chorea,Huntington's disease,huntington disease
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Wild type
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- R6/2
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- The CAG-repeat lengths of the R6/2 mice used in this study ranged between 242 and 257, resulting in a disease progression slower than that of the R6/2 mouse with 150 CAG repeats as described previously.
- Group 0 sample size Number of subjects in the control (unexposed) group
- 10
- Group 1 sample size Number of subjects in the case (exposed) group
- 10
Lab analysis
- Sequencing type
- 16S
- 16S variable region One or more hypervariable region(s) of the bacterial 16S gene
- 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)
- .05
- MHT correction Have statistical tests be corrected for multiple hypothesis testing (MHT)?
- Yes
Alpha Diversity
- Shannon Estimator of species richness and species evenness: more weight on species richness
- unchanged
Signature 1
Reviewed Marked as Reviewed by Fatima on 2023/01/25
Source: Figure 3 Supplemental Text
Description: Relative Abundance between wildtype and R6/2
Abundance in Group 1: increased abundance in R6/2
NCBI | Quality Control | Links |
---|---|---|
Bacilli | ||
Bacteroidaceae | ||
Bacteroides | ||
Coprobacillus | ||
Enterobacteriaceae | ||
Gammaproteobacteria | ||
Lactobacillales | ||
Lactobacillus | ||
Parabacteroides | ||
Enterobacterales | ||
Lactobacillaceae |
Revision editor(s): Jacquelynshevin
Signature 2
Reviewed Marked as Reviewed by Fatima on 2023/01/25
Source: Figure 3 Supplemental Text
Description: Relative abundance between wildtype and R6/2
Abundance in Group 1: decreased abundance in R6/2
NCBI | Quality Control | Links |
---|---|---|
Adlercreutzia | ||
Coriobacteriaceae | ||
Coriobacteriia | ||
Actinomycetota | ||
Coriobacteriales | ||
Desulfovibrio | ||
Deltaproteobacteria | ||
Desulfovibrionales | ||
Desulfovibrionaceae |
Revision editor(s): Jacquelynshevin