Longitudinal and Comparative Analysis of Gut Microbiota of Tunisian Newborns According to Delivery Mode/Experiment 2
Subjects
- Location of subjects
- Tunisia
- 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 method DeliveryMethod,Delivery method,delivery method
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Vaginally Delivered(VD) at Day 0
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Elective Cesarean Section (ECS) at Day 0
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Participants whose delivery mode (DM) was through elective cesarean section (ECS)
- Group 0 sample size Number of subjects in the control (unexposed) group
- 5
- Group 1 sample size Number of subjects in the case (exposed) group
- 5
- Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any)
- Last trimester of pregnancy.
Lab analysis
- Sequencing type
- WMS
- 16S variable region One or more hypervariable region(s) of the bacterial 16S gene
- Not specified
Statistical Analysis
- Data transformation Data transformation applied to microbial abundance measurements prior to differential abundance testing (if any).
- relative abundances
- Statistical test
- LEfSe
- 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
- LDA Score above Threshold for the linear discriminant analysis (LDA) score for studies using the popular LEfSe tool
- 3
Signature 1
Source: Figure 4 A.
Description: Differentially abundant taxa between ECS and VD newborns at each collection data. Linear discriminant analysis effect size (LEfSe) analysis of metagenomic sequences from ECS and VD newborn stool samples at Day 0 (A). Relative abundance of ESKAPE members in ECS newborns at each collection time point.
Abundance in Group 1: increased abundance in Elective Cesarean Section (ECS) at Day 0
| NCBI | Quality Control | Links |
|---|---|---|
| Citrobacter | ||
| Citrobacter freundii | ||
| Clostridia | ||
| Eubacteriales |
Revision editor(s): Ayibatari
Signature 2
Source: Figure 4 A.
Description: Differentially abundant taxa between ECS and VD newborns at each collection data. Linear discriminant analysis effect size (LEfSe) analysis of metagenomic sequences from ECS and VD newborn stool samples at Day 0 (A). Relative abundance of ESKAPE members in ECS newborns at each collection time point.
Abundance in Group 1: decreased abundance in Elective Cesarean Section (ECS) at Day 0
| NCBI | Quality Control | Links |
|---|---|---|
| Methylorubrum | ||
| Methylorubrum populi |
Revision editor(s): Ayibatari
