Environmental exposures and child and maternal gut microbiota in rural Malawi/Experiment 1
From BugSigDB
Reviewed Marked as Reviewed by Claregrieve1 on 2022/12/28
Curated date: 2022/07/20
Curator: Kaluifeanyi101
Revision editor(s): Kaluifeanyi101, Claregrieve1, WikiWorks
Subjects
- Location of subjects
- Malawi
- 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
- Seasonal gut microbiome measurement Seasonal gut microbiome measurement,seasonal gut microbiome measurement
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- samples taken in dry/hot or rainy season
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- samples taken in dry/cold season
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- samples taken in the dry/cold season
- Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any)
- NA
Lab analysis
- Sequencing type
- 16S
- 16S variable region One or more hypervariable region(s) of the bacterial 16S gene
- V4
- Sequencing platform Manufacturer and experimental platform used for quantifying microbial abundance
- Illumina
Statistical Analysis
- Statistical test
- Zero-Inflated Beta 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)?
- Yes
- Confounders controlled for Confounding factors that have been accounted for by stratification or model adjustment
- antibiotic exposure, delivery procedure, education level, marital status, maternal age, sex
Signature 1
Reviewed Marked as Reviewed by Claregrieve1 on 2022/12/28
Source: Figure 3
Description: Differential abundance between samples from dry/cold season vs samples from dry/hot or rainy season
Abundance in Group 1: increased abundance in samples taken in dry/cold season
| NCBI | Quality Control | Links |
|---|---|---|
| Prevotella | ||
| Streptococcus porcinus | ||
| Faecalibacterium prausnitzii | ||
| Oscillospiraceae | ||
| Clostridium | ||
| Clostridiales bacterium | ||
| Faecalibacterium |
Revision editor(s): Kaluifeanyi101, Claregrieve1
Signature 2
Reviewed Marked as Reviewed by Claregrieve1 on 2022/12/28
Source: Figure 3
Description: Differential abundance between samples from dry/cold season vs samples from dry/hot or rainy season
Abundance in Group 1: decreased abundance in samples taken in dry/cold season
Revision editor(s): Kaluifeanyi101, Claregrieve1
