Integrating metagenomics with metabolomics for gut microbiota and metabolites profiling in acute pancreatitis/Experiment 6
From BugSigDB
Reviewed Marked as Reviewed by Folakunmi on 2024-11-4
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
- Acute pancreatitis acute necrotizing pancreatitis,acute pancreatic necrosis,acute pancreatitis,acute pancreatitis (disorder) [ambiguous],pancreatitis necrotizing,pancreatitis, acute,Acute pancreatitis
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Control group
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- L-arginine group
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Mice in the L-arginine group received 2 times i.p. injection of L-arginine (4 g/kg, once an hour, twice in total).
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
- MGISEQ-2000
Statistical Analysis
- Data transformation Data transformation applied to microbial abundance measurements prior to differential abundance testing (if any).
- centered log-ratio
- Statistical test
- ANCOM
- 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
- decreased
- Chao1 Abundance-based estimator of species richness
- decreased
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- unchanged
Signature 1
Reviewed Marked as Reviewed by Folakunmi on 2024-11-4
Source: Table S1
Description: Differential abundance in the gut microbiota between control group and L-arginine group
Abundance in Group 1: decreased abundance in L-arginine group
| NCBI | Quality Control | Links |
|---|---|---|
| Candidatus Bipolaricaulota | ||
| Caldisericota | ||
| Promethearchaeota | ||
| Nitrososphaerota | ||
| Methanobacteriota |
Revision editor(s): KateRasheed
Signature 2
Reviewed Marked as Reviewed by Folakunmi on 2024-11-4
Source: Table S1
Description: Differential abundance in the gut microbiota between control group and L-arginine group
Abundance in Group 1: increased abundance in L-arginine group
| NCBI | Quality Control | Links |
|---|---|---|
| Bacteroidota | ||
| Chlorobiota | ||
| Bacillota | ||
| Candidatus Zixiibacteriota | ||
| Candidatus Micrarchaeota | ||
| Pseudomonadota | ||
| Fibrobacterota |
Revision editor(s): KateRasheed
