Stunted microbiota and opportunistic pathogen colonization in caesarean-section birth/Experiment 5
From BugSigDB
Needs review
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
- Delivery measurement Delivery measurement,delivery measurement
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Babies delivered vaginally sampled during the neonatal period on day 4 (n = 310)
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Babies delivered by caesarean section sampled during the neonatal period on day 4 (n = 310)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Babies delivered by caesarean section were deprived of maternally transmitted commensal bacteria but had a substantially higher relative abundance of opportunistic pathogens commonly associated with the hospital environment.
- Group 1 sample size Number of subjects in the case (exposed) group
- 282
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
- Fisher's Exact Test
- Mann-Whitney (Wilcoxon)
- 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
Source: Extended Data Fig. 5a
Description: Frequency and abundance of opportunistic pathogens in the neonatal gut microbiota.
Abundance in Group 1: increased abundance in Babies delivered by caesarean section sampled during the neonatal period on day 4 (n = 310)
| NCBI | Quality Control | Links |
|---|---|---|
| Clostridium perfringens | ||
| Enterobacter cloacae | ||
| Enterococcus faecalis | ||
| Enterococcus faecium | ||
| Klebsiella oxytoca | ||
| Klebsiella pneumoniae |
Revision editor(s): Ameenatoloko
