Decreased bacterial diversity characterizes the altered gut microbiota in patients with psoriatic arthritis, resembling dysbiosis in inflammatory bowel disease/Experiment 1
From BugSigDB
Reviewed Marked as Reviewed by Claregrieve1 on 2022/11/12
Subjects
- Location of subjects
- United States of America
- Host species Species from which microbiome was sampled. Contact us to have more species added.
- Homo sapiens
- 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
- Psoriatic arthritis Arthritic Psoriasis,arthritis psoriatica,Arthritis, Psoriatic,arthropathic psoriasis,Psoriasis Arthropathica,Psoriasis, Arthritic,psoriatic arthritis,psoriatic arthritis, susceptibility to,psoriatic arthritis, susceptibility to, 1,psoriatic arthropathy,susceptibility to psoriatic arthritis,Psoriatic arthritis
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- healthy controls
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- psoriatic arthiritis
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- patients fulfilling the criteria of the Classification of Psoriatic arthritis (CASPAR)
- Group 0 sample size Number of subjects in the control (unexposed) group
- 17
- Group 1 sample size Number of subjects in the case (exposed) group
- 16
- Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any)
- 3 months
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
- Roche454
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)
- 0.2
- MHT correction Have statistical tests be corrected for multiple hypothesis testing (MHT)?
- Yes
- LDA Score above Threshold for the linear discriminant analysis (LDA) score for studies using the popular LEfSe tool
- 2
- Matched on Factors on which subjects have been matched on in a case-control study
- age, ethnic group, sex
Alpha Diversity
- Shannon Estimator of species richness and species evenness: more weight on species richness
- decreased
Signature 1
Reviewed Marked as Reviewed by Claregrieve1 on 2022/11/12
Source: Figure 1a, Figure 2a
Description: Differences in bacterial taxa between patients with psoriatic arthritis (PsA) compared to healthy controls (HLT)
Abundance in Group 1: decreased abundance in psoriatic arthiritis
| NCBI | Quality Control | Links |
|---|---|---|
| Akkermansia | ||
| Clostridia | ||
| Coprococcus | ||
| Pseudobutyrivibrio | ||
| Ruminococcus | ||
| Verrucomicrobiota | ||
| Verrucomicrobiia | ||
| Verrucomicrobiales |
Revision editor(s): Claregrieve1, WikiWorks
