No rumen fermentation profiles and associated microbial diversities difference were found between Hu sheep and Karakul sheep fed a cottonseed hull diet/Experiment 1
From BugSigDB
Reviewed Marked as Reviewed by Svetlana up on 2025-3-21
Subjects
- Location of subjects
- China
- Host species Species from which microbiome was sampled. Contact us to have more species added.
- Ovis aries
- Body site Anatomical site where microbial samples were extracted from according to the Uber Anatomy Ontology
- Rumen Paunch,Rumen,rumen
- Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology
- Diet Dietary,Diets,Diet,diet
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- IH (Hu sheep in Stage 1)
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- IK (Karakul sheep in Stage 1)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- The sheep in this group were in the weaning period (15 to 30 days) and they were fed a basic diet composed of lamb pellets (60%) and green hay (40%). On the final day, they were fasted for 24 hours (withholding water for 2 hours).
- Group 0 sample size Number of subjects in the control (unexposed) group
- 18
- Group 1 sample size Number of subjects in the case (exposed) group
- 18
Lab analysis
- Sequencing type
- 16S
- 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
- 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
- 4
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 Svetlana up on 2025-3-21
Source: Figure 6 A&B
Description: The cladogram and influence distribution histogram of differential bacterial cladogram and influence distribution histogram showing significant differences in rumen bacteria between Hu sheep and Karakul sheep at stage 1.
Abundance in Group 1: increased abundance in IK (Karakul sheep in Stage 1)
| NCBI | Quality Control | Links |
|---|---|---|
| Bacteroidales | ||
| Bacteroidia | ||
| Bacteroidota |
Revision editor(s): Victoria
Signature 2
Reviewed Marked as Reviewed by Svetlana up on 2025-3-21
Source: Figure 6 A&B
Description: The cladogram and influence distribution histogram of differential bacterial cladogram and influence distribution histogram showing significant differences in rumen bacteria between Hu sheep and Karakul sheep at stage 1.
Abundance in Group 1: decreased abundance in IK (Karakul sheep in Stage 1)
| NCBI | Quality Control | Links |
|---|---|---|
| Lachnospiraceae | ||
| Lachnospirales |
Revision editor(s): Victoria
