Altered Composition of Microbiota in Women with Ovarian Endometrioma: Microbiome Analyses of Extracellular Vesicles in the Peritoneal Fluid/Experiment 1
From BugSigDB
Reviewed Marked as Reviewed by Claregrieve1 on 2022/07/8
Curated date: 2021/08/09
Curator: Samara.Khan
Revision editor(s): Samara.Khan, Claregrieve1, WikiWorks
Subjects
- Location of subjects
- South Korea
- 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
- Uterovesical pouch Excavatio vesico-uterina,Excavatio vesicouterina,Excavatio vesiocuterina,Vesico-uterine pouch,Vesicouterine,Vesicouterine excavation,Vesicouterine pouch,Uterovesical pouch,uterovesical pouch
- Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology
- Endometriosis endometriosis,Endometriosis (clinical),endometriosis (disease),Endometriosis (disorder),Endometriosis (morphologic abnormality),ENDOMETRIOSIS NEC,Endometriosis NOS,Endometriosis NOS (disorder),Endometriosis of other specified sites,Endometriosis, site unspecified,Endometriosis
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Surgical controls
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Stage 3/4 endometriosis patients
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Stage 3/4 endometriosis patients that were diagnosed with endometriosis via laparoscopic surgery; stages were categorized according to the revised American Society for Reproductive Medicine scoring system (r-ASRM).
- Group 0 sample size Number of subjects in the control (unexposed) group
- 45
- Group 1 sample size Number of subjects in the case (exposed) group
- 45
- Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any)
- Patients were excluded if they had taken antibiotics 12 weeks prior to sample collection
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
- Statistical test
- PERMANOVA
- 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)?
- No
Alpha Diversity
- Shannon Estimator of species richness and species evenness: more weight on species richness
- unchanged
- Chao1 Abundance-based estimator of species richness
- unchanged
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- unchanged
- Richness Number of species
- unchanged
Signature 1
Reviewed Marked as Reviewed by Claregrieve1 on 2022/07/8
Source: Table 1 and Results section
Description: Differential microbial abundance between peritoneal fluid samples among women with endometriosis when compared to surgical controls.
Abundance in Group 1: decreased abundance in Stage 3/4 endometriosis patients
| NCBI | Quality Control | Links |
|---|---|---|
| Actinomycetota | ||
| Actinomyces | ||
| Actinomycetaceae | ||
| Actinomycetales | ||
| Propionibacteriaceae | ||
| Propionibacterium | ||
| Rothia | ||
| Veillonellaceae |
Revision editor(s): Samara.Khan, Claregrieve1
Signature 2
Reviewed Marked as Reviewed by Claregrieve1 on 2022/07/8
Source: Table 1 and Results section
Description: Differential microbial abundance between peritoneal fluid samples among women with endometriosis when compared to surgical controls.
Abundance in Group 1: increased abundance in Stage 3/4 endometriosis patients
| NCBI | Quality Control | Links |
|---|---|---|
| Acinetobacter | ||
| Enhydrobacter | ||
| Pseudomonadaceae | ||
| Pseudomonadales | ||
| Pseudomonas | ||
| Streptococcus |
Revision editor(s): Samara.Khan, Claregrieve1
