Changes in the vaginal microbiome during pregnancy and the postpartum period in South African women: a longitudinal study/Experiment 5

From BugSigDB


Needs review

Curated date: 2025/03/08

Curator: Tosin

Revision editor(s): Tosin

Subjects

Location of subjects
South Africa
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 Distal oviductal region,Distal portion of oviduct,Vaginae,Vagina,vagina
Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology
Sexually transmitted disease disease (VD), venereal,disease, sexually Transmitted,disease, venereal,diseases, sexually Transmitted,diseases, venereal,infection, sexually Transmitted,infections, sexually Transmitted,sexually transmitted disease,sexually Transmitted disorder,sexually Transmitted infection,sexually Transmitted infections,STD,STDs,STI,STIs,Transmitted infection, sexually,Transmitted infections, sexually,VD,VD, venereal disease,venereal disease,venereal disease (VD),venereal diseases,Sexually transmitted disease
Group 0 name Corresponds to the control (unexposed) group for case-control studies
Pregnant women ≥ 18 years of age without any sexually transmitted infection (STI) at Postpartum (PPt) visit
Group 1 name Corresponds to the case (exposed) group for case-control studies
Pregnant women ≥ 18 years of age with any sexually transmitted infection (STI) at Postpartum (PPt) visit.
Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
Pregnant women ≥ 18 years of age with any sexually transmitted infection (STI) diagnosis whose mean gestational age at the postpartum visit was 17 days after delivery.
Group 0 sample size Number of subjects in the control (unexposed) group
162
Group 1 sample size Number of subjects in the case (exposed) group
80

Lab analysis

Sequencing type
16S
16S variable region One or more hypervariable region(s) of the bacterial 16S gene
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).
raw counts
Statistical test
Zero-Inflated Negative Binomial Regression
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)?
Yes


Signature 1

Needs review

Curated date: 2025/03/09

Curator: Tosin

Revision editor(s): Tosin

Source: Supplement S10 a

Description: Differential abundance testing of vaginal microbial species in women with and without any sexually transmitted infection, STI diagnosis (zero-inflated negative binomial model)

Abundance in Group 1: increased abundance in Pregnant women ≥ 18 years of age with any sexually transmitted infection (STI) at Postpartum (PPt) visit.

NCBI Quality ControlLinks
Prevotella sp.

Revision editor(s): Tosin