Insights into the vaginal microbiome in a diverse group of women of African, Asian and European ancestries/Experiment 1
From BugSigDB
Reviewed Marked as Reviewed by ChiomaBlessing on 2024-10-25
Subjects
- Location of subjects
- Germany
- Indonesia
- Kenya
- 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
- Mucosa of vagina Mucosa of organ of vagina,Mucous membrane of vagina,Organ mucosa of vagina,Tunica mucosa vaginae,Vagina mucosa,Vagina mucosa of organ,Vagina mucous membrane,Vagina organ mucosa,Vaginal mucosa,Mucosa of vagina,mucosa of vagina
- Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology
- Vaginal microbiome measurement vaginal flora measurement,vaginal microbiota measurement,Vaginal microbiome measurement,vaginal microbiome measurement
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Combination of groups - African American (AA), Afro-Caribbean (AC), Asian Indonesian (AI) and African Kenyan (AK) women
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Main group - Caucasian German (CG) women
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Caucasian German women with varying vaginal microbiome compositions.
- Group 0 sample size Number of subjects in the control (unexposed) group
- 113
- Group 1 sample size Number of subjects in the case (exposed) group
- 38
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
- LEfSe
- 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
- LDA Score above Threshold for the linear discriminant analysis (LDA) score for studies using the popular LEfSe tool
- 2
Signature 1
Reviewed Marked as Reviewed by ChiomaBlessing on 2024-10-25
Source: Figure 3
Description: Linear discriminant analysis plot showing differentiating bacterial taxa of the vaginal microbiomes of the five ethnic groups (AA, African American; AC, Afro-Caribbean; AI, Asian Indonesian; AK, African Kenyan and CG, Caucasian German).
Abundance in Group 1: increased abundance in Main group - Caucasian German (CG) women
| NCBI | Quality Control | Links |
|---|---|---|
| Bifidobacterium breve | ||
| Gardnerella vaginalis | ||
| Gemella | ||
| Gemelliphila asaccharolytica | ||
| Prevotella amnii | ||
| Veillonella montpellierensis | ||
| family XIfamily XI |
Revision editor(s): Chrisawoke
