Gut microbiota-derived metabolites mediate the neuroprotective effect of melatonin in cognitive impairment induced by sleep deprivation/Experiment 2
From BugSigDB
Reviewed Marked as Reviewed by Folakunmi on 2024-2-12
Subjects
- Location of subjects
- China
- Host species Species from which microbiome was sampled. Contact us to have more species added.
- Mus musculus
- 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
- Response to transplant Response to transplant,response to transplant
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- CON-FMT:( receiving control microbiota FMT mice) and SD+Mel-FMT:( receiving SD+Mel (20 mg/kg) microbiota FMT mice)
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- SD-FMT: receiving Sleep deprivation FMT mice
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- This are sleep deprived mice that are also subjected to FMT .
- Group 0 sample size Number of subjects in the control (unexposed) group
- 7
- Group 1 sample size Number of subjects in the case (exposed) group
- 7
- Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any)
- There were no antibiotic
Lab analysis
- Sequencing type
- 16S
- 16S variable region One or more hypervariable region(s) of the bacterial 16S gene
- V1-V9
- Sequencing platform Manufacturer and experimental platform used for quantifying microbial abundance
- PacBio RS
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
- LDA Score above Threshold for the linear discriminant analysis (LDA) score for studies using the popular LEfSe tool
- 3.0
Alpha Diversity
- Shannon Estimator of species richness and species evenness: more weight on species richness
- unchanged
- Chao1 Abundance-based estimator of species richness
- unchanged
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- unchanged
- Richness Number of species
- unchanged
Signature 1
Reviewed Marked as Reviewed by Folakunmi on 2024-2-12
Source: Fig 4C, 4F, 4D
Description: C Linear discriminant analysis efect size (LEfSe) was performed to identify the bacteria that are differentially represented between the different groups
Abundance in Group 1: increased abundance in SD-FMT: receiving Sleep deprivation FMT mice
Signature 2
Reviewed Marked as Reviewed by Folakunmi on 2024-2-12
Source: Fig 4G-J
Description: Linear discriminant analysis effect size (LEfSe) performed to identify the bacteria that are differentially represented between the different groups
Abundance in Group 1: decreased abundance in SD-FMT: receiving Sleep deprivation FMT mice
| NCBI | Quality Control | Links |
|---|---|---|
| Eubacterium xylanophilum | ||
| Lachnospiraceae bacterium NK4A136 | ||
| Ruminococcus | ||
| Lachnospiraceae bacterium A2 |
Revision editor(s): Folakunmi
