Recurrent urinary tract infection and estrogen shape the taxonomic ecology and function of the postmenopausal urogenital microbiome/Experiment 1
From BugSigDB
Reviewed Marked as Reviewed by ChiomaBlessing on 2024-2-22
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
- Urine Urine,urine
- Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology
- Urinary tract infection INFECTION, URINARY TRACT,TRACT, INFECTION OF URINARY,urinary tract infection,urinary tract infection (disease),Urinary tract infection
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- No UTI History
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- rUTI History, UTI (-)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Consists of post menopausal (PM) women with a recent history of recurring urinary tract infection ( rUTI) but no active UTI at the time of urine donation (rUTI History, UTI(−))
- Group 0 sample size Number of subjects in the control (unexposed) group
- 25
- Group 1 sample size Number of subjects in the case (exposed) group
- 25
- Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any)
- 4 weeks
Lab analysis
- Sequencing type
- WMS
- 16S variable region One or more hypervariable region(s) of the bacterial 16S gene
- Not specified
- Sequencing platform Manufacturer and experimental platform used for quantifying microbial abundance
- Sanger
Statistical Analysis
- Data transformation Data transformation applied to microbial abundance measurements prior to differential abundance testing (if any).
- relative abundances
- Statistical test
- 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)?
- No
Alpha Diversity
- Shannon Estimator of species richness and species evenness: more weight on species richness
- unchanged
- Chao1 Abundance-based estimator of species richness
- unchanged
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- unchanged
- Richness Number of species
- unchanged
Signature 1
Reviewed Marked as Reviewed by ChiomaBlessing on 2024-2-22
Source: Fig 3D + 3E
Description: Differentially abundant taxa in the rUTI History, UTI(−) group compared to the No UTI History group
Abundance in Group 1: increased abundance in rUTI History, UTI (-)
| NCBI | Quality Control | Links |
|---|---|---|
| Aerococcus | ||
| Anaerococcus lactolyticus | ||
| Anaerococcus vaginalis | ||
| Lactobacillus | ||
| Lactobacillus crispatus | ||
| Limosilactobacillus vaginalis | ||
| Aerococcus urinae |
Revision editor(s): Tolulopeo, ChiomaBlessing
Signature 2
Reviewed Marked as Reviewed by ChiomaBlessing on 2024-2-22
Curated date: 2023/10/25
Curator: Tolulopeo
Revision editor(s): Chloe, ChiomaBlessing, Tolulopeo, Chinelsy
Source: Fig 3D + 3E
Description: Differentially abundant taxa in the rUTI History, UTI(−) group compared to the No UTI History group
Abundance in Group 1: increased abundance in rUTI History, UTI (-)
Revision editor(s): Chloe, ChiomaBlessing, Tolulopeo, Chinelsy
