Toxic metals impact gut microbiota and metabolic risk in five African-origin populations/Experiment 16
From BugSigDB
Needs review
Subjects
- Location of subjects
- Ghana
- Jamaica
- Seychelles
- South Africa
- 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
- Metabolic toxicity Metabolic toxicity,metabolic toxicity
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Non-diabetic (high cadmium exposure)
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Diabetic (high cadmium exposure)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Participants diagnosed with T2DM (Type 2 Diabetes Mellitus) within the high cadmium exposure group
- 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
- 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).
- arcsine square-root
- Statistical test
- MaAsLin2
- 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
- age, sex, Confounders controlled for: "site" 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.site
Signature 1
Needs review
Source: Figure 3C
Description: Differential taxa by individual metal exposure and cardiometabolic disease
Abundance in Group 1: increased abundance in Diabetic (high cadmium exposure)
| NCBI | Quality Control | Links |
|---|---|---|
| Pediococcus | ||
| Family XIII AD3011 groupFamily XIII AD3011 group | ||
| Rothia mucilaginosa | ||
| Neisseria | ||
| Rothia | ||
| Haemophilus | ||
| Collinsella | ||
| Intestinimonas | ||
| Blautia | ||
| Clostridium |
Revision editor(s): Anne-mariesharp
Signature 2
Needs review
Source: Figure 3C
Description: Differential taxa by individual metal exposure and cardiometabolic disease
Abundance in Group 1: decreased abundance in Diabetic (high cadmium exposure)
Revision editor(s): Anne-mariesharp
