Establishment of vaginal microbiota composition in early pregnancy and its association with subsequent preterm prelabor rupture of the fetal membranes/Experiment 1
From BugSigDB
Reviewed Marked as Reviewed by Atrayees on 2023-7-3
Subjects
- Location of subjects
- United Kingdom
- 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
- Vagina Vagina,vagina,Distal oviductal region,Distal portion of oviduct,Vaginae
- Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology
- Preterm premature rupture of the membranes PPROM,preterm premature rupture of the membranes,Preterm premature rupture of the membranes
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- controls
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- PPROM
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- (PPROM) preterm premature rupture of the membranes
- Group 0 sample size Number of subjects in the control (unexposed) group
- 36
- Group 1 sample size Number of subjects in the case (exposed) group
- 60
- Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any)
- 9 months
Lab analysis
- Sequencing type
- 16S
- 16S variable region One or more hypervariable region(s) of the bacterial 16S gene
- V1-V2
- 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
- Matched on Factors on which subjects have been matched on in a case-control study
- body mass index, ethnic group, gestational age, maternal age
Alpha Diversity
- Inverse Simpson Modification of Simpsons index D as 1/D to obtain high values in datasets of high diversity and vice versa
- unchanged
Signature 1
Reviewed Marked as Reviewed by Atrayees on 2023-7-3
Source: Figure 3
Description: The effect size for each of the differentially abundant species was estimated using LDA
Abundance in Group 1: increased abundance in PPROM
Revision editor(s): WikiWorks
Signature 2
Reviewed Marked as Reviewed by Atrayees on 2023-7-3
Source: Figure 3
Description: The effect size for each of the differentially abundant species was estimated using LDA
Abundance in Group 1: decreased abundance in PPROM
| NCBI | Quality Control | Links |
|---|---|---|
| Limosilactobacillus vaginalis | ||
| Lactobacillus | ||
| Lactobacillaceae | ||
| Lactobacillales | ||
| Bacilli | ||
| Bacillota |
Revision editor(s): WikiWorks
