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

Curated date: 2022/08/22

Curator: Fatima

Revision editor(s): Fatima, Jacquelynshevin

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

Curated date: 2023/01/09

Curator: Jacquelynshevin

Revision editor(s): Jacquelynshevin

Source: Figure 3 Supplemental Text

Description: Relative Abundance between wildtype and R6/2

Abundance in Group 1: increased abundance in R6/2

NCBI Quality ControlLinks
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

Curated date: 2023/01/09

Curator: Jacquelynshevin

Revision editor(s): Jacquelynshevin

Source: Figure 3 Supplemental Text

Description: Relative abundance between wildtype and R6/2

Abundance in Group 1: decreased abundance in R6/2

NCBI Quality ControlLinks
Adlercreutzia
Coriobacteriaceae
Coriobacteriia
Actinomycetota
Coriobacteriales
Desulfovibrio
Deltaproteobacteria
Desulfovibrionales
Desulfovibrionaceae

Revision editor(s): Jacquelynshevin