Faecal microbiota and cytokine profiles of rural Cambodian infants linked to diet and diarrhoeal episodes/Experiment 1
From BugSigDB
Subjects
- Location of subjects
- Cambodia
- 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
- Diarrhea , Diarrhea, Infantile , Malnutrition Diarrhea,Diarrhoea,Watery stool,diarrhea,Diarrhea, Infantile,diarrhea, Infantile,Lack of food,Malnutrition,malnutrition
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Infants who are not breast-fed
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Infants who are breast-fed
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Infants that are being breastfed at the time of the research/sample collection
- Group 0 sample size Number of subjects in the control (unexposed) group
- 9
- Group 1 sample size Number of subjects in the case (exposed) group
- 23
Lab analysis
- Sequencing type
- 16S
- 16S variable region One or more hypervariable region(s) of the bacterial 16S gene
- V9
- Sequencing platform Manufacturer and experimental platform used for quantifying microbial abundance
- Illumina
Statistical Analysis
- Statistical test
- PERMANOVA
- MaAsLin2
- Pearson Correlation
- 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
- Confounders controlled for Confounding factors that have been accounted for by stratification or model adjustment
- time
Alpha Diversity
- Pielou Quantifies how equal the community is numerically
- decreased
- Richness Number of species
- decreased
Signature 1
Source: Figure 2C
Description: Bacterial genera differentially abundant between breastfed infants and infants who were not breastfed.
Abundance in Group 1: increased abundance in Infants who are breast-fed
| NCBI | Quality Control | Links |
|---|---|---|
| Bifidobacterium | ||
| Streptococcus |
Revision editor(s): Aishat
Signature 2
Source: Figure 3c
Description: Bacterial species differentially abundant between breastfed infants and infants who were not breastfed.
Abundance in Group 1: increased abundance in Infants who are breast-fed
| NCBI | Quality Control | Links |
|---|---|---|
| Bifidobacterium longum |
Revision editor(s): Aishat
Signature 3
Source: Figure 3c
Description: Bacterial species difference between breastfed infants and infants who were not breastfed
Abundance in Group 1: decreased abundance in Infants who are breast-fed
| NCBI | Quality Control | Links |
|---|---|---|
| Klebsiella pneumoniae |
Revision editor(s): Aishat
