A comprehensive analysis of gut and skin microbiota in canine atopic dermatitis in Shiba Inu dogs/Experiment 13
From BugSigDB
Needs review
Subjects
- Location of subjects
- Japan
- Host species Species from which microbiome was sampled. Contact us to have more species added.
- Canis lupus familiaris
- 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
- Atopic eczema allergic,allergic dermatitis,allergic form of dermatitis,Atopic Dermatitides,Atopic Dermatitis,Atopic dermatitis,atopic dermatitis and related conditions,Atopic dermatitis and related conditions (disorder),atopic eczema,Atopic Neurodermatitides,Atopic Neurodermatitis,Atopic neurodermatitis,Besnier's prurigo,Dermatitides, Atopic,Dermatitis, Atopic,Disseminated Neurodermatitides,Disseminated Neurodermatitis,eczema,Eczema, Atopic,Eczema, Infantile,eczematous dermatitis,Infantile Eczema,Neurodermatitides, Atopic,Neurodermatitides, Disseminated,Neurodermatitis, Atopic,Neurodermatitis, Disseminated,OTHER ATOPIC DERMATITIS,Other atopic dermatitis and related conditions,Atopic eczema
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- cADpre
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- cADpost dogs
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- cADpre dogs that were consequently placed under oclacitinib treatment for two weeks after the diagnosis
- 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
- Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any)
- Not applicable.
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).
- centered log-ratio
- Statistical test
- Beta Binomial Regression
- 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)?
- Yes
Alpha Diversity
- Shannon Estimator of species richness and species evenness: more weight on species richness
- unchanged
Signature 1
Source: Table 2
Description: Differentially abundant bacterial taxa at the genus level between two groups; cADpre dogs and cADpost dogs
Abundance in Group 1: increased abundance in cADpost dogs
| NCBI | Quality Control | Links |
|---|---|---|
| Amedibacterium | ||
| Bacteroides | ||
| Blautia | ||
| Escherichia/Shigella sp. | ||
| Faecalimonas | ||
| Flavonifractor | ||
| Terrisporobacter | ||
| Thomasclavelia | ||
| Clostridium |
Signature 2
Source: Table 2
Description: Differentially abundant bacterial taxa at the genus level between two groups; cADpre dogs and cADpost dogs
Abundance in Group 1: decreased abundance in cADpost dogs
| NCBI | Quality Control | Links |
|---|---|---|
| Anaerotignum | ||
| Enterocloster | ||
| Fusobacterium | ||
| Porphyromonas | ||
| Proteus | ||
| Romboutsia | ||
| Roseburia | ||
| Staphylococcus | ||
| Lachnospiraceae incertae sedis |
Revision editor(s): Barrakat
