The Endobiota Study: Comparison of Vaginal, Cervical and Gut Microbiota Between Women with Stage 3/4 Endometriosis and Healthy Controls/Experiment 1
From BugSigDB
Reviewed Marked as Reviewed by Peace Sandy on 2024-2-5
Curated date: 2021/06/24
Curator: Samara.Khan
Revision editor(s): Samara.Khan, WikiWorks, Peace Sandy
Subjects
- Location of subjects
- Turkey
- 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
- Vaginal fluid , Feces , Endocervix Vaginal discharge,Vaginal secretion,Vaginal fluid,vaginal fluid,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,Endocervix,endocervix
- 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
- Healthy 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
- Women with histology-proven stage 3/4 endometriosis
- Group 0 sample size Number of subjects in the control (unexposed) group
- 14
- Group 1 sample size Number of subjects in the case (exposed) group
- 14
- Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any)
- Participants were excluded if they had taken antibiotics within the past 8 weeks
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
- Data transformation Data transformation applied to microbial abundance measurements prior to differential abundance testing (if any).
- relative abundances
- Statistical test
- Mann-Whitney (Wilcoxon)
- 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
Signature 1
Reviewed Marked as Reviewed by Peace Sandy on 2024-2-5
Source: Table 1
Description: Diferences between microbiota in women with endometriosis and healthy controls.
Abundance in Group 1: increased abundance in Stage 3/4 endometriosis patients
| NCBI | Quality Control | Links |
|---|---|---|
| Gardnerella | ||
| Escherichia/Shigella sp. | ||
| Alloprevotella | ||
| Streptococcus | ||
| Ureaplasma |
Revision editor(s): Samara.Khan, Peace Sandy
Signature 2
Reviewed Marked as Reviewed by Peace Sandy on 2024-2-5
Source: Table 1
Description: Diferences between microbiota in women with endometriosis and healthy controls.
Abundance in Group 1: decreased abundance in Stage 3/4 endometriosis patients
| NCBI | Quality Control | Links |
|---|---|---|
| Sneathia | ||
| Prevotella | ||
| Dialister | ||
| Megasphaera | ||
| Gardnerella | ||
| Barnesiella |
Revision editor(s): Peace Sandy
