Oral microbial dysbiosis linked to worsened periodontal condition in rheumatoid arthritis patients/Experiment 1
From BugSigDB
Reviewed Marked as Reviewed by Fatima on 2021/08/5
Subjects
- Location of subjects
- Brazil
- 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
- Subgingival dental plaque Subgingival plaque,Subgingival dental plaque,subgingival dental plaque
- Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology
- Periodontitis chronic pericementitis,inflammation of periodontium,Pericementitides,Pericementitis,Periodontitides,periodontitis,Periodontitis (disorder),Periodontitis, NOS,periodontium inflammation,periodontosis,Periodontitis
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- patients with no rheumatoid arthritis
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- patients with rheumatoid arthritis
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- patients with rheumatoid arthritis
- 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
- 21
- 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
- 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
- Matched on Factors on which subjects have been matched on in a case-control study
- age, sex
Alpha Diversity
- Shannon Estimator of species richness and species evenness: more weight on species richness
- increased
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- increased
- Richness Number of species
- increased
Signature 1
Reviewed Marked as Reviewed by Fatima on 2021/08/5
Source: Figure 3b, text
Description: OTUs with different relative abundance based on LEfSe among subjects with periodontitis
Abundance in Group 1: increased abundance in patients with rheumatoid arthritis
Signature 2
Reviewed Marked as Reviewed by Fatima on 2021/08/5
Source: Figure 3b, text
Description: OTUs with different relative abundance based on LEfSe among subjects with periodontitis
Abundance in Group 1: decreased abundance in patients with rheumatoid arthritis
| NCBI | Quality Control | Links |
|---|---|---|
| Hoylesella marshii | ||
| Schaalia meyeri | ||
| Streptococcus anginosus | ||
| Treponema sp. |
