Suppression of MyD88 disturbs gut microbiota and activates the NLR pathway and hence fails to ameliorate DSS-induced colitis/Experiment 2

From BugSigDB


Needs review

Curated date: 2025/05/05

Curator: Tosin

Revision editor(s): Tosin

Subjects

Location of subjects
China
Host species Species from which microbiome was sampled. Contact us to have more species added.
Mus musculus
Body site Anatomical site where microbial samples were extracted from according to the Uber Anatomy Ontology
Feces Cow dung,Cow pat,Droppings,Dung,Excrement,Excreta,Faeces,Fecal material,Fecal matter,Fewmet,Frass,Guano,Matières fécales@fr,Merde@fr,Ordure,Partie de la merde@fr,Piece of shit,Porción de mierda@es,Portion of dung,Portion of excrement,Portion of faeces,Portion of fecal material,Portion of fecal matter,Portion of feces,Portion of guano,Portion of scat,Portionem cacas,Scat,Spoor,Spraint,Stool,Teil der fäkalien@de,Feces,feces
Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology
Treatment outcome measurement Treatment outcome measurement,treatment outcome measurement
Group 0 name Corresponds to the control (unexposed) group for case-control studies
Combination of DSS + TJ5 (dextran sodium sulfate + MyD88 inhibitor), DSS + PBS (dextran sodium sulfate + phosphate buffer saline), H20 + TJ5 (water + MyD88 inhibitor) groups
Group 1 name Corresponds to the case (exposed) group for case-control studies
H20 + PBS( water + Phosphate buffer saline) group
Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
A treatment group that received H20 (water) and PBS (Phosphate buffer saline)

Lab analysis

Sequencing type
16S
16S variable region One or more hypervariable region(s) of the bacterial 16S gene
V3-V4
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
LEfSe
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)?
No
LDA Score above Threshold for the linear discriminant analysis (LDA) score for studies using the popular LEfSe tool
2.5


Signature 1

Needs review

Curated date: 2025/05/05

Curator: Tosin

Revision editor(s): Tosin

Source: Supplementary Figure 3

Description: Significant changes in functional profiles were suggested based on phylogenetic investigations of communities through Lefse analysis.

Abundance in Group 1: increased abundance in H20 + PBS( water + Phosphate buffer saline) group

NCBI Quality ControlLinks
Actinomycetota
Allobaculum
Candidatus Saccharimonadota
Coriobacteriaceae
Coriobacteriales
Coriobacteriia
Desulfovibrio
Erysipelotrichaceae
Erysipelotrichales
Erysipelotrichia
Gemmiger
Prevotella
Prevotellaceae
Rikenella
TM7 phylum sp. oral clone CW040
Thermacetogenium
Thermoanaerobacteraceae
Thermoanaerobacterales
CF231CF231
TM73TM73
bacterium F16

Revision editor(s): Tosin