Integrative metagenomics and metabolomics reveal age-associated gut microbiota and metabolite alterations in a hamster model of COVID-19/Experiment 1
From BugSigDB
Subjects
- Location of subjects
- France
- Host species Species from which microbiome was sampled. Contact us to have more species added.
- Mesocricetus auratus
- Body site Anatomical site where microbial samples were extracted from according to the Uber Anatomy Ontology
- Caecum Blind intestine,Blindgut,Caeca,Caecum,Ceca,Cecum,Intestinum caecum,Intestinum crassum caecum,Intestinum crassum cecum,caecum
- Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology
- Age Age,age
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Young Hamsters
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Aged Hamsters
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Hamsters in the aged group were 22 months old.
- Group 0 sample size Number of subjects in the control (unexposed) group
- 3
- Group 1 sample size Number of subjects in the case (exposed) group
- 6
Lab analysis
- Sequencing type
- WMS
- 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
- MaAsLin2
- 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
Signature 1
Source: Figure 1C
Description: Differential abundance of taxa between Young and Aged hamsters analyzed with Maaslin2 (adjusted P-value < 0.05).
Abundance in Group 1: increased abundance in Aged Hamsters
Revision editor(s): MyleeeA
Signature 2
Source: Figure 1C
Description: Differential abundance of taxa between Young and Aged hamsters analyzed with Maaslin2 (adjusted P-value < 0.05).
Abundance in Group 1: decreased abundance in Aged Hamsters
| NCBI | Quality Control | Links |
|---|---|---|
| Acetatifactor | ||
| Clostridium sp. CAG:127 | ||
| Cutibacterium modestum | ||
| Ruminiclostridium ERuminiclostridium E | ||
| UBA9502UBA9502 | ||
| Lachnospiraceae bacterium MD335 | ||
| Lachnospiraceae bacterium |
Revision editor(s): MyleeeA
