Integrative metagenomics and metabolomics reveal age-associated gut microbiota and metabolite alterations in a hamster model of COVID-19/Experiment 1

From BugSigDB


Needs review

Curated date: 2025/05/04

Curator: MyleeeA

Revision editor(s): MyleeeA

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

Needs review

Curated date: 2025/05/04

Curator: MyleeeA

Revision editor(s): MyleeeA

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

NCBI Quality ControlLinks
Alistipes
Alistipes onderdonkii
Bifidobacterium animalis
Firmicutes bacterium CAG:95
Lactobacillales
Ligilactobacillus
Ligilactobacillus murinus
Paramuribaculum
Parasutterella sp.
Prevotella sp. CAG:873
uncultured Alistipes sp.
UBA7173UBA7173
Porphyromonadaceae bacterium UBA7173

Revision editor(s): MyleeeA

Signature 2

Needs review

Curated date: 2025/05/04

Curator: MyleeeA

Revision editor(s): MyleeeA

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 ControlLinks
Acetatifactor
Clostridium sp. CAG:127
Cutibacterium modestum
Ruminiclostridium ERuminiclostridium E
UBA9502UBA9502
Lachnospiraceae bacterium MD335
Lachnospiraceae bacterium

Revision editor(s): MyleeeA