Integrative metagenomics and metabolomics reveal age-associated gut microbiota and metabolite alterations in a hamster model of COVID-19/Experiment 5

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
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 (Time effect)
Group 1 name Corresponds to the case (exposed) group for case-control studies
Young and Aged D22 Infected (Time 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 22 of infection with time of infection 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

Needs review

Curated date: 2025/05/04

Curator: MyleeeA

Revision editor(s): MyleeeA

Source: Figure 3D

Description: Differential abundance of taxa between Young and Aged D0 non-infected controls (Time effect) and Young and Aged D22 Infected (Time effect) hamsters analyzed with MaAslin2 (adjusted P-value < 0.05).

Abundance in Group 1: decreased abundance in Young and Aged D22 Infected (Time effect)

NCBI Quality ControlLinks
Allobaculum
Anaerotignum
Angelakisella
Dubosiella
Enterococcus
Leuconostoc
Longicatena
Mailhella
Muribaculaceae
Odoribacter
Parvibacter
Proteobacteria bacterium CAG:495
Paenibacillus APaenibacillus A
Marseile.P3106Marseile.P3106
Mycoplasmoidaceae NOVMycoplasmoidaceae NOV
Gastranaerophilales NOVGastranaerophilales NOV

Revision editor(s): MyleeeA