Toxic metals impact gut microbiota and metabolic risk in five African-origin populations/Experiment 26

From BugSigDB


Needs review

Curated date: 2025/08/05

Curator: Anne-mariesharp

Revision editor(s): Anne-mariesharp

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
Group 1 name Corresponds to the case (exposed) group for case-control studies
Diabetic
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)
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

Curated date: 2025/08/05

Curator: Anne-mariesharp

Revision editor(s): Anne-mariesharp

Source: Figure 5A

Description: Top 50 taxa associated with all high metal exposures and cardiometabolic factors

Abundance in Group 1: increased abundance in Diabetic

NCBI Quality ControlLinks
Howardella ureilytica
Mediterraneibacter gnavus
Parolsenella massiliensis
Rothia
Rothia mucilaginosa
Streptococcus
Family XIII AD3011 groupFamily XIII AD3011 group
Neisseria
Haemophilus
Megasphaera micronuciformis
Leuconostoc
Clostridium

Revision editor(s): Anne-mariesharp

Signature 2

Needs review

Curated date: 2025/08/05

Curator: Anne-mariesharp

Revision editor(s): Anne-mariesharp

Source: Figure 5A

Description: Top 50 taxa associated with all high metal exposures and cardiometabolic factors

Abundance in Group 1: decreased abundance in Diabetic

NCBI Quality ControlLinks
Dialister invisus
Intestinimonas butyriciproducens
Megamonas funiformis
Paraprevotella
Streptococcus
[Clostridium] innocuum
Prevotella_9 copriPrevotella_9 copri
Lachnospiraceae UCG 010Lachnospiraceae UCG 010
Enterorhabdus
Akkermansia muciniphila
Syntrophococcus
Tyzzerella
Thomasclavelia
Peptococcus

Revision editor(s): Anne-mariesharp