Fecal microbiota composition differs between children with β-cell autoimmunity and those without/Experiment 1
From BugSigDB
Reviewed Marked as Reviewed by Svetlana up on 2025-3-5
Subjects
- Location of subjects
- Finland
- 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
- Autoimmune disease Autoimmune disease,autoimmune disease
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Controls
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Cases
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Children who had the development of signs of progressive β-cell autoimmunity, i.e., tested positive for at least two diabetes-associated autoantibodies.
- Group 0 sample size Number of subjects in the control (unexposed) group
- 18
- Group 1 sample size Number of subjects in the case (exposed) group
- 18
- 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
- V1-V3
- 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).
- relative abundances
- Statistical test
- Mann-Whitney (Wilcoxon)
- 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)?
- No
- Matched on Factors on which subjects have been matched on in a case-control study
- age, feeding practices, sex, Matched on: "HLA risk genotype" 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.HLA risk genotype
Alpha Diversity
- Chao1 Abundance-based estimator of species richness
- decreased
- Richness Number of species
- decreased
Signature 1
Reviewed Marked as Reviewed by Svetlana up on 2025-3-5
Source: Table 2
Description: Association between bacterial species and signs of β-cell autoimmunity
Abundance in Group 1: increased abundance in Cases
| NCBI | Quality Control | Links |
|---|---|---|
| Bifidobacterium animalis | ||
| Lactobacillus acidophilus | ||
| Clostridium perfringens | ||
| Bacteroides | ||
| Phocaeicola vulgatus | ||
| Bacteroides ovatus | ||
| Bacteroides fragilis |
Revision editor(s): Aleru Divine
Signature 2
Reviewed Marked as Reviewed by Svetlana up on 2025-3-5
Source: Table 2
Description: Association between bacterial species and signs of β-cell autoimmunity
Abundance in Group 1: decreased abundance in Cases
| NCBI | Quality Control | Links |
|---|---|---|
| Roseburia faecis | ||
| Bacteroides thetaiotaomicron | ||
| Anaerocolumna xylanovorans | ||
| Peptoniphilus gorbachii | ||
| Acetanaerobacterium elongatum |
Revision editor(s): Aleru Divine
