Differential effects of depot medroxyprogesterone acetate administration on vaginal microbiome in Hispanic White and Black women/Experiment 2

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Reviewed Marked as Reviewed by Claregrieve1 on 2023-5-22

Curated date: 2021/01/10

Curator: WikiWorks

Revision editor(s): Claregrieve1, WikiWorks

Subjects

Location of subjects
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
Vagina Vagina,vagina,Distal oviductal region,Distal portion of oviduct,Vaginae
Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology
Medroxyprogesterone acetate (6alpha)-6-methyl-3,20-dioxopregn-4-en-17-yl acetate,Medroxyprogesterone acetate,medroxyprogesterone acetate
Group 0 name Corresponds to the control (unexposed) group for case-control studies
black naive vaginal microbiome (baseline visit )
Group 1 name Corresponds to the case (exposed) group for case-control studies
white naiive vaginal microbiome (baseline)
Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
white participants at baseline
Group 0 sample size Number of subjects in the control (unexposed) group
16
Group 1 sample size Number of subjects in the case (exposed) group
9
Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any)
before 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
Mann-Whitney (Wilcoxon)
Significance threshold p-value or FDR threshold used for differential abundance testing (if any)
0.2
MHT correction Have statistical tests be corrected for multiple hypothesis testing (MHT)?
Yes

Alpha Diversity

Shannon Estimator of species richness and species evenness: more weight on species richness
unchanged
Chao1 Abundance-based estimator of species richness
unchanged
Richness Number of species
unchanged

Signature 1

Reviewed Marked as Reviewed by Claregrieve1 on 2023-5-22

Curated date: 2021/01/10

Curator: Shaimaa Elsafoury

Revision editor(s): Claregrieve1, WikiWorks

Source: Figure 3

Description: Differential genera between Hispanic White and Black women at baseline

Abundance in Group 1: increased abundance in white naiive vaginal microbiome (baseline)

NCBI Quality ControlLinks
Finegoldia

Revision editor(s): Claregrieve1, WikiWorks

Signature 2

Reviewed Marked as Reviewed by Claregrieve1 on 2022/09/1

Curated date: 2021/01/10

Curator: Shaimaa Elsafoury

Revision editor(s): Claregrieve1, WikiWorks

Source: Figure 3

Description: Differential genera between Hispanic White and Black women at baseline

Abundance in Group 1: decreased abundance in white naiive vaginal microbiome (baseline)

NCBI Quality ControlLinks
Clostridium
Shuttleworthia

Revision editor(s): Claregrieve1, WikiWorks