Integrative metagenomics and metabolomics reveal age-associated gut microbiota and metabolite alterations in a hamster model of COVID-19/Experiment 2
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
- SARS-CoV-2-related disease COVID-19-related disease,SARS-CoV-2-related disease,sARS-CoV-2-related disease
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Young and Aged D0 non-infected controls (Age effect)
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Young and Aged D7 Infected (Age effect)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Young (2 months old) and Aged (22 months old) SARS-CoV-2-infected hamsters at Day 7 with age effect.
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 3C
Description: Differential abundance of taxa between Young and Aged D0 non-infected controls (Age effect) and Young and Aged D7 Infected (Age effect) hamsters analyzed with Maaslin2 (adjusted P-value < 0.05).
Abundance in Group 1: increased abundance in Young and Aged D7 Infected (Age effect)
| NCBI | Quality Control | Links |
|---|---|---|
| Bacteroides | ||
| Bifidobacterium | ||
| Eggerthellaceae | ||
| Ligilactobacillus | ||
| Odoribacter | ||
| Rikenella | ||
| Streptococcus | ||
| NM07_P.09NM07_P.09 | ||
| RIkenellaceae NOVRIkenellaceae NOV | ||
| Faecalibacterium |
Revision editor(s): MyleeeA
Signature 2
Source: Figure 3C
Description: Differential abundance of taxa between Young and Aged D0 non-infected controls (Age effect) and Young and Aged D7 Infected (Age effect) hamsters analyzed with Maaslin2 (adjusted P-value < 0.05).
Abundance in Group 1: decreased abundance in Young and Aged D7 Infected (Age effect)
Revision editor(s): MyleeeA
