Specific gastrointestinal microbiota profiles in Chinese Tan sheep are associated with lauric acid content in muscle/Experiment 4
From BugSigDB
Reviewed Marked as Reviewed by Svetlana up on 2024-7-30
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
- Gut microbiome measurement Gut microbiome measurement,gut microbiome measurement
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Rumen of Dorper sheep (D_R)
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Rumen of Tan Sheep (T_R)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Rumen of Tan sheep bred in Ningxia, China
- Group 0 sample size Number of subjects in the control (unexposed) group
- 6
- Group 1 sample size Number of subjects in the case (exposed) group
- 6
- Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any)
- No antibiotics during the experiment period
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
- 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)?
- Yes
- 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
- unchanged
Signature 1
Reviewed Marked as Reviewed by Svetlana up on 2024-7-30
Source: Supplementary Fig. S6
Description: LEfSe analysis of ruminal microbiota in Tan sheep versus Dorper sheep from 16S data at the genus level.
Abundance in Group 1: increased abundance in Rumen of Tan Sheep (T_R)
| NCBI | Quality Control | Links |
|---|---|---|
| Lachnospiraceae bacterium CG2 | ||
| Papillibacter | ||
| Saccharofermentans | ||
| uncultured Prevotellaceae bacterium | ||
| Lachnospiraceae AC2004 groupLachnospiraceae AC2004 group |
Revision editor(s): Scholastica
