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

Curated date: 2021/08/09

Curator: Samara.Khan

Revision editor(s): Samara.Khan, Claregrieve1

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 ControlLinks
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

Curated date: 2021/08/09

Curator: Samara.Khan

Revision editor(s): Samara.Khan, Claregrieve1

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 ControlLinks
Acinetobacter
Enhydrobacter
Pseudomonadaceae
Pseudomonadales
Pseudomonas
Streptococcus

Revision editor(s): Samara.Khan, Claregrieve1