Family SES Is Associated with the Gut Microbiome in Infants and Children/Experiment 1
Subjects
- Location of subjects
- United States of America
- 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 socioeconomic status
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Increasing socioeconomic status
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- 588 Metagenomics from infants and children of high and low socioeconomic families as continuous variables.
- Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any)
- 2 weeks
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
- Structural Equation Modelling Statistical test: "Structural Equation Modelling" is not in the list (ANCOM, ANOSIM, ANOVA, Beta Binomial Regression, Chi-Square, Cox Proportional-Hazards Regression, Dunn's test, DESeq2, edgeR, Fisher's Exact Test, ...) of allowed values.
- Significance threshold p-value or FDR threshold used for differential abundance testing (if any)
- .05
- Confounders controlled for Confounding factors that have been accounted for by stratification or model adjustment
- age, delivery procedure, race, sex, Confounders controlled for: "polygenic gene score" is not in the list (abnormal glucose tolerance, acetaldehyde, acute graft vs. host disease, acute lymphoblastic leukemia, acute myeloid leukemia, adenoma, age, AIDS, alcohol consumption measurement, alcohol drinking, ...) of allowed values.polygenic gene score
Alpha Diversity
- Shannon Estimator of species richness and species evenness: more weight on species richness
- unchanged
Signature 1
Source: FIGURE 2; FIGURE 3
Description: Figure 2. Model Taxonomic Summaries. Stacked bar plots showing the average relative abundance of the genera assessed with socioeconomic status (SES).
Variables are continuous measures. Each of the gut microbiomes increases for a 1 unit increase in SES.
Figure 3. Parents with higher SES(higher years of education) had children who scored higher in the latent microbiome factor. That is, they were higher on Faecalibacterium, Eubacterium, Anaerostipes, and Lachnospiraceae compared with the scores of infants and children from low SES families.
Abundance in Group 1: increased abundance in Increasing socioeconomic status
| NCBI | Quality Control | Links |
|---|---|---|
| Anaerostipes | ||
| Eubacterium | ||
| Faecalibacterium | ||
| Lachnospiraceae |
Revision editor(s): Kaluifeanyi101
Signature 2
Source: FIGURE 3
Description: Parents with higher SES (higher years of education) had children who scored lower in Bacteroides relative abundance compared with infants and children from families of low SES.
Variables are continuous measures. The gut microbiome decreases for a 1 unit increase in SES.
Abundance in Group 1: decreased abundance in Increasing socioeconomic status
| NCBI | Quality Control | Links |
|---|---|---|
| Bacteroides |
Revision editor(s): Kaluifeanyi101
