Environmental and intrinsic factors shaping gut microbiota composition and diversity and its relation to metabolic health in children and early adolescents: A population-based study/Experiment 1
From BugSigDB
Reviewed Marked as Reviewed by Atrayees on 2023-7-3
Subjects
- Location of subjects
- Mexico
- 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
- Socioeconomic status class,Socioeconomic status,socioeconomic status,socioeconomic factors
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- lower monthly household income
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- higher monthly household income
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- higher monthly household income
- Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any)
- 6 months
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
- Data transformation Data transformation applied to microbial abundance measurements prior to differential abundance testing (if any).
- relative abundances
- Statistical test
- PERMANOVA
- Significance threshold p-value or FDR threshold used for differential abundance testing (if any)
- .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
- age, household income, sex, antibiotic exposure
Alpha Diversity
- Shannon Estimator of species richness and species evenness: more weight on species richness
- unchanged
- Chao1 Abundance-based estimator of species richness
- unchanged
Signature 1
Reviewed Marked as Reviewed by Atrayees on 2023-7-3
Source: Table 1, text
Description: Taxa significantly associated with monthly household income.
Abundance in Group 1: increased abundance in higher monthly household income
| NCBI | Quality Control | Links |
|---|---|---|
| Eggerthella lenta | ||
| Bacteroides fragilis | ||
| Rikenellaceae | ||
| Holdemania | ||
| Oscillospira | ||
| Amedibacillus dolichus |
Revision editor(s): Kaluifeanyi101, Atrayees
Signature 2
Reviewed Marked as Reviewed by Atrayees on 2023-7-3
Source: Table 1, text
Description: taxa significantly associated with monthly household income.
Abundance in Group 1: decreased abundance in higher monthly household income
| NCBI | Quality Control | Links |
|---|---|---|
| Prevotellaceae | ||
| Prevotella | ||
| Veillonellaceae |
Revision editor(s): Kaluifeanyi101, Atrayees
