Multi-omics analysis reveals gut microbiota-ovary axis contributed to the follicular development difference between Meishan and Landrace × Yorkshire sows/Experiment 1
From BugSigDB
Reviewed Marked as Reviewed by KateRasheed on 2025-6-3
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
- Reproductive behaviour measurement Reproductive behaviour measurement,reproductive behaviour measurement
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- L×Y (Landrace × Yorkshire sows)
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- MS (Meishan sows)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Meishan sows were defined as the case group based on their breed-specific reproductive characteristics, including a significantly greater number of antral follicles and higher serum estradiol levels compared to Landrace x Yorkshire sows.
- 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
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
- LDA Score above Threshold for the linear discriminant analysis (LDA) score for studies using the popular LEfSe tool
- 2
Alpha Diversity
- Shannon Estimator of species richness and species evenness: more weight on species richness
- increased
- Chao1 Abundance-based estimator of species richness
- unchanged
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- decreased
- Richness Number of species
- unchanged
Signature 1
Reviewed Marked as Reviewed by KateRasheed on 2025-6-3
Source: Figure 5A, B
Description: LefSe analysis showing differentially abundant taxa between MS and L × Y sows
Abundance in Group 1: increased abundance in MS (Meishan sows)
| NCBI | Quality Control | Links |
|---|---|---|
| Bacteroidaceae | ||
| Clostridiaceae | ||
| Fibrobacter | ||
| Oscillospira | ||
| Porphyromonadaceae | ||
| Spirochaetales | ||
| Turicibacteraceae | ||
| TuricibacteralesTuricibacterales | ||
| Spirochaetota |
Revision editor(s): Anne-mariesharp
Signature 2
Reviewed Marked as Reviewed by KateRasheed on 2025-6-3
Source: Figure 5A,B
Description: LefSe analysis showing differentially abundant taxa between MS and L × Y sows
Abundance in Group 1: decreased abundance in MS (Meishan sows)
| NCBI | Quality Control | Links |
|---|---|---|
| Bacilli | ||
| Erysipelotrichaceae | ||
| Erysipelotrichales | ||
| Erysipelotrichia | ||
| Lachnospiraceae | ||
| Lactobacillales | ||
| Streptococcaceae | ||
| Veillonellaceae |
Revision editor(s): Ese
