Gut microbiota-derived LCA mediates the protective effect of PEDV infection in piglets/Experiment 6
From BugSigDB
Subjects
- Location of subjects
- China
- Host species Species from which microbiome was sampled. Contact us to have more species added.
- Sus scrofa domesticus
- 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
- Infectious diarrheal disease infectious diarrhea,infectious diarrheal disease,infective diarrhea,Infectious diarrheal disease
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- M-CON (min-control) pigs
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- M-PEDV(min-Porcine epidemic diarrhea virus) pigs
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Min pigs in china challenged with PEDV (Porcine epidemic diarrhea virus).
- Group 0 sample size Number of subjects in the control (unexposed) group
- 8
- Group 1 sample size Number of subjects in the case (exposed) group
- 8
Lab analysis
- Sequencing type
- 16S
- 16S variable region One or more hypervariable region(s) of the bacterial 16S gene
- V3-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
- Metastats
- 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
- increased
- Chao1 Abundance-based estimator of species richness
- increased
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- increased
- Richness Number of species
- increased
Signature 1
Source: Figure 4B
Description: Analysis of significantly upregulated (top 4) and downregulated (top 4) species in the abundance table between M-CON (min-control) and M-PEDV (min- porcine epidemic diarrhea virus) pigs.
Abundance in Group 1: increased abundance in M-PEDV(min-Porcine epidemic diarrhea virus) pigs
| NCBI | Quality Control | Links |
|---|---|---|
| Faecalibacterium prausnitzii | ||
| Lactobacillus amylovorus | ||
| Limosilactobacillus reuteri | ||
| Prevotella sp. CAG:604 |
Revision editor(s): Tosin
Signature 2
Source: Figure 4B
Description: Analysis of significantly upregulated (top 4) and downregulated (top 4) species in the abundance table between M-CON and M-PEDV (min- porcine epidemic diarrhea virus) pigs.
Abundance in Group 1: decreased abundance in M-PEDV(min-Porcine epidemic diarrhea virus) pigs
| NCBI | Quality Control | Links |
|---|---|---|
| Phocaeicola plebeius | ||
| Segatella copri | ||
| Prevotella sp. CAG:520 | ||
| Phocaeicola plebeius CAG:211 |
Revision editor(s): Tosin
