Stunted microbiota and opportunistic pathogen colonization in caesarean-section birth/Experiment 14
From BugSigDB
Reviewed Marked as Reviewed by KateRasheed on 2025-9-16
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
- Feces Cow dung,Cow pat,Droppings,Dung,Excrement,Excreta,Faeces,Fecal material,Fecal matter,Fewmet,Frass,Guano,Matières fécales@fr,Merde@fr,Ordure,Partie de la merde@fr,Piece of shit,Porción de mierda@es,Portion of dung,Portion of excrement,Portion of faeces,Portion of fecal material,Portion of fecal matter,Portion of feces,Portion of guano,Portion of scat,Portionem cacas,Scat,Spoor,Spraint,Stool,Teil der fäkalien@de,Feces,feces
- Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology
- Breastfeeding duration Breastfeeding duration,breastfeeding duration
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- No Breastfeeding_status on day 7
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Breastfeeding_status on day 7
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Babies that were breastfed during the neonatal period (≤1 month).
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
- Illumina
Statistical Analysis
- Data transformation Data transformation applied to microbial abundance measurements prior to differential abundance testing (if any).
- relative abundances
- Statistical test
- Linear Regression
- Significance threshold p-value or FDR threshold used for differential abundance testing (if any)
- 0.25
- MHT correction Have statistical tests be corrected for multiple hypothesis testing (MHT)?
- Yes
- Confounders controlled for Confounding factors that have been accounted for by stratification or model adjustment
- breast feeding
Signature 1
Reviewed Marked as Reviewed by KateRasheed on 2025-9-16
Source: Table S5
Description: Significant metagenomic species associated with clinical covariates after adjusting for potentially confounding covariates with MaAsLin.
Abundance in Group 1: increased abundance in Breastfeeding_status on day 7
| NCBI | Quality Control | Links |
|---|---|---|
| Gemella haemolysans | ||
| Haemophilus parainfluenzae | ||
| Streptococcus oralis | ||
| Staphylococcus epidermidis |
Revision editor(s): Ameenatoloko
Signature 2
Reviewed Marked as Reviewed by KateRasheed on 2025-9-16
Source: Table S5
Description: Significant metagenomic species associated with clinical covariates after adjusting for potentially confounding covariates with MaAsLin.
Abundance in Group 1: decreased abundance in Breastfeeding_status on day 7
| NCBI | Quality Control | Links |
|---|---|---|
| Klebsiella oxytoca | ||
| Streptococcus parasanguinis | ||
| Streptococcus vestibularis | ||
| Streptococcus thermophilus |
Revision editor(s): Ameenatoloko
