Gut microbiome signatures of vegan, vegetarian and omnivore diets and associated health outcomes across 21,561 individuals
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Quality control
- Retracted paper
- Contamination issues suspected
- Batch effect issues suspected
- Uncontrolled confounding suspected
- Results are suspect (various reasons)
- Tags applied
Experiment 1
Subjects
- Location of subjects
- Italy
- United Kingdom
- 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
- Diet Dietary,Diets,Diet,diet
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Omnivore
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Vegetarian
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Participants whose diet pattern excludes meat
- Group 0 sample size Number of subjects in the control (unexposed) group
- 19817
- Group 1 sample size Number of subjects in the case (exposed) group
- 1088
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
- Wald Test
- Significance threshold p-value or FDR threshold used for differential abundance testing (if any)
- 0.1
- MHT correction Have statistical tests be corrected for multiple hypothesis testing (MHT)?
- Yes
Signature 1
Source: Figure 3b
Description: Meta-analysed correlations between SGB relative abundance and diet pattern (omnivore n = 19,817 in pink vs vegetarian n = 1,088 in purple).
Abundance in Group 1: increased abundance in Vegetarian
| NCBI | Quality Control | Links |
|---|---|---|
| Dialister hominis | ||
| Lachnospira | ||
| Thomasclavelia saccharogumia | ||
| Bifidobacterium longum | ||
| Lachnospiraceae bacterium |
Revision editor(s): Tosin
Signature 2
Source: Figure 3b
Description: Meta-analysed correlations between SGB relative abundance and diet pattern (omnivore n = 19,817 in pink vs vegetarian n = 1,088 in purple).
Abundance in Group 1: decreased abundance in Vegetarian
Revision editor(s): Tosin
Experiment 2
Subjects
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Omnivores
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Vegan
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Participants whose diet patterns excludes both meat, dairy and other animal products
- Group 1 sample size Number of subjects in the case (exposed) group
- 656
Lab analysis
Statistical Analysis
Signature 1
Source: Figure 3h
Description: Meta-analysed correlations between SGB relative abundance and diet pattern between omnivores (n = 19,817 in pink) and vegans (n = 656 in green)
Abundance in Group 1: increased abundance in Vegan
Revision editor(s): Tosin
Signature 2
Source: Figure 3h
Description: Meta-analysed correlations between SGB relative abundance and diet pattern between omnivores (n = 19,817 in pink) and vegans (n = 656 in green)
Abundance in Group 1: decreased abundance in Vegan
Revision editor(s): Tosin
Experiment 3
Subjects
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Vegetarian
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Participants whose diet patterns exclude both meat, dairy and other animal products.
- Group 0 sample size Number of subjects in the control (unexposed) group
- 1088
Lab analysis
Statistical Analysis
Signature 1
Source: Figure 4b
Description: Meta-analysed correlations between SGB relative abundance and diet pattern (vegetarian, n= 1,088 in purple vs vegan, n= 656 in green).
Abundance in Group 1: increased abundance in Vegan
| NCBI | Quality Control | Links |
|---|---|---|
| Lachnospiraceae bacterium | ||
| Clostridia | ||
| Ruminococcus sp. AF41-9 | ||
| Blautia sp. MSK.21.1 | ||
| Bacillota |
Revision editor(s): Victoria
Signature 2
Source: Figure 4b
Description: Meta-analysed correlations between SGB relative abundance and diet pattern (vegetarian, n= 1,088 in purple vs vegan, n= 656 in green).
Abundance in Group 1: decreased abundance in Vegan
Revision editor(s): Victoria
