A comprehensive analysis of gut and skin microbiota in canine atopic dermatitis in Shiba Inu dogs/Experiment 6
From BugSigDB
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
- Mouth Adult mouth,Cavital oralis,Cavitas oris,Cavum oris,Mouth cavity,Oral region,Oral vestibule,Regio oralis,Rima oris,Stoma,Stomatodaeum,Trophic apparatus,Vestibule of mouth,Vestibulum oris,Mouth,mouth
- 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
- Healthy dogs
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- cADPre dogs
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Dogs that were newly diagnosed with cAD (canine atopic dermatitis) without any previous medical treatments
- Group 0 sample size Number of subjects in the control (unexposed) group
- 20
- 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
- V1-V2
- 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
- decreased
Signature 1
Source: Table S4
Description: Differentially abundant bacterial taxa at the genus level between two groups; healthy dogs and cADpre dogs
Abundance in Group 1: increased abundance in cADPre dogs
| NCBI | Quality Control | Links |
|---|---|---|
| Arthrobacter | ||
| Blastococcus | ||
| Buchananella | ||
| Capnocytophaga | ||
| Cutibacterium | ||
| Fusobacterium | ||
| Gemella | ||
| Nocardioides | ||
| Rubrobacter | ||
| Spirosoma | ||
| Streptococcus |
Revision editor(s): Deacme
Signature 2
Source: Table S4
Description: Differentially abundant bacterial taxa at the genus level between two groups; healthy dogs and cADpre dogs
Abundance in Group 1: decreased abundance in cADPre dogs
| NCBI | Quality Control | Links |
|---|---|---|
| Skermanella | ||
| Staphylococcus |
Revision editor(s): Deacme
