Lower Neighborhood Socioeconomic Status Associated with Reduced Diversity of the Colonic Microbiota in Healthy Adults/Experiment 1
Curated date: 2022/06/11
Curator: Kaluifeanyi101
Revision editor(s): Kaluifeanyi101, Peace Sandy, Victoria
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
- High SES
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Low SES
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- 44 healthy participants from low-income neighborhoods with a median annual income of $20,100 and a 35% unemployment rate and neighborhoods at the high end, with a median income of $129,570 and an unemployment rate under 5%). (Income level as a continuous variable.)
- Group 0 sample size Number of subjects in the control (unexposed) group
- 44
- Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any)
- 3 months
Lab analysis
- Sequencing type
- 16S
- 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
- Roche454
Statistical Analysis
- Data transformation Data transformation applied to microbial abundance measurements prior to differential abundance testing (if any).
- raw counts
- Statistical test
- Linear Regression
- Spearman Correlation
- Significance threshold p-value or FDR threshold used for differential abundance testing (if any)
- 0.05
- Confounders controlled for Confounding factors that have been accounted for by stratification or model adjustment
- age, alcohol drinking, body mass index, race, sex, smoking status
Alpha Diversity
- Shannon Estimator of species richness and species evenness: more weight on species richness
- decreased
Signature 1
Source: FIGURE 3
Description: Scatter-plot of neighborhood SES and bacterial genera. Figs depict associations between neighborhood SES and Prevotella to Bacteroides ratio (upper panel), as well as the relative abundance of Prevotella (middle panel) and Bacteroides (lower panel). Specimens are biopsies excised from sigmoid mucosa.
Abundance in Group 1: increased abundance in Low SES
| NCBI | Quality Control | Links |
|---|---|---|
| Prevotella |
Revision editor(s): Kaluifeanyi101
Signature 2
Source: FIGURE 3
Description: Scatter-plot of neighborhood SES and bacterial genera. Figs depict associations between neighborhood SES and Prevotella to Bacteroides ratio (upper panel), as well as the relative abundance of Prevotella (middle panel) and Bacteroides (lower panel). Specimens are biopsies excised from sigmoid mucosa.
Abundance in Group 1: decreased abundance in Low SES
| NCBI | Quality Control | Links |
|---|---|---|
| Bacteroides |
Revision editor(s): Kaluifeanyi101
