Structural changes in gut microbiome after Ramadan fasting: a pilot study/Experiment 1
From BugSigDB
Reviewed Marked as Reviewed by Chloe on 2023-3-20
Subjects
- Location of subjects
- Turkey
- 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
- Fasting Fast,Fasting,fasting
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Adults before fasting
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Adults after fasting
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- healthy adults who were on Ramadan fast with a fasting period of approximately 17H per day for 29 days.
- Group 0 sample size Number of subjects in the control (unexposed) group
- 9
- Group 1 sample size Number of subjects in the case (exposed) group
- 9
- Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any)
- 8 weeks
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).
- relative abundances
- Statistical test
- LEfSe
- 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
Alpha Diversity
- Shannon Estimator of species richness and species evenness: more weight on species richness
- unchanged
- Richness Number of species
- increased
Signature 1
Reviewed Marked as Reviewed by Atrayees on 2023-6-5
Source: Figure S2
Description: LeFSe analysis and Linear discriminant effect size showing the differential abundance of discriminative taxa at the two-time points I.e before and after fasting.
Abundance in Group 1: increased abundance in Adults after fasting
| NCBI | Quality Control | Links |
|---|---|---|
| Akkermansia | ||
| Allobaculum | ||
| Bacteroides | ||
| Butyricicoccus | ||
| Dialister | ||
| Erysipelotrichia | ||
| Eubacterium | ||
| Faecalibacterium | ||
| Megasphaera | ||
| Roseburia | ||
| Verrucomicrobiia | ||
| Erysipelotrichales |
Revision editor(s): Barakat Dindi, Chloe
Signature 2
Reviewed Marked as Reviewed by Atrayees on 2023-6-5
Source: Figure S2
Description: LeFSe analysis and Linear discriminant effect size showing the differential abundance of discriminative taxa at the two-time points I.e before and after fasting.
Abundance in Group 1: decreased abundance in Adults after fasting
Revision editor(s): Barakat Dindi, Chloe
