Ambient temperature alters body size and gut microbiota of Xenopus tropicalis/Experiment 1
From BugSigDB
Reviewed Marked as Reviewed by Folakunmi on 2024-1-14
Subjects
- Location of subjects
- China
- Host species Species from which microbiome was sampled. Contact us to have more species added.
- Xenopus tropicalis
- Body site Anatomical site where microbial samples were extracted from according to the Uber Anatomy Ontology
- Midgut Mesenteron,Midgut,midgut
- Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology
- Temperature Temperature,temperature
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Cool Gut
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Warm Gut
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Xenopus tropicalis gut microbiota response to warm environmental conditions
- Group 0 sample size Number of subjects in the control (unexposed) group
- 23
- Group 1 sample size Number of subjects in the case (exposed) group
- 28
- Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any)
- None
Lab analysis
- Sequencing type
- 16S
- 16S variable region One or more hypervariable region(s) of the bacterial 16S gene
- V4-V5
- 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).
- raw counts
- Statistical test
- DESeq2
- 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
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
Signature 1
Reviewed Marked as Reviewed by Folakunmi on 2024-1-14
Source: Table S4 (Genus level)
Description: Different abundance of gut microbiota between warm (group 1) and cool (group 0) environment (Warm Gut vs. Cool Gut)
Abundance in Group 1: increased abundance in Warm Gut
| NCBI | Quality Control | Links |
|---|---|---|
| Akkermansia | ||
| Anaerotruncus | ||
| Coprobacillus | ||
| Parabacteroides | ||
| Thalassospira |
Revision editor(s): Chikamso, Peace Sandy, Folakunmi
Signature 2
Reviewed Marked as Reviewed by Folakunmi on 2024-1-14
Curated date: 2023/10/12
Curator: Chikamso
Revision editor(s): Peace Sandy, Folakunmi, Chikamso, OdigiriGreat, Chinelsy
Source: Table S4 (Genus level)
Description: Different abundance of gut microbiota between warm (group 1) and cool (group 0) environment (Warm Gut vs. Cool Gut)
Abundance in Group 1: decreased abundance in Warm Gut
| NCBI | Quality Control | Links |
|---|---|---|
| Citrobacter | ||
| Anoxybacillus | ||
| Escherichia/Shigella sp. | ||
| Anaerosporobacter | ||
| Romboutsia | ||
| Acinetobacter | ||
| Janthinobacterium |
Revision editor(s): Peace Sandy, Folakunmi, Chikamso, OdigiriGreat, Chinelsy
