Preconception helminth infection alters offspring microbiota and immune subsets in a mouse model/Experiment 1

From BugSigDB


Reviewed Marked as Reviewed by Svetlana up on 2024-11-5

Curated date: 2024/10/19

Curator: KateRasheed

Revision editor(s): KateRasheed

Subjects

Location of subjects
South Africa
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
Helminthiasis, animal animal Helminthiases,animal helminthiasis,Helminthiases, animal,Helminthiasis, animal,helminthiasis, animal
Group 0 name Corresponds to the control (unexposed) group for case-control studies
Pregnant NvM
Group 1 name Corresponds to the case (exposed) group for case-control studies
Pregnant NbM
Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
Pregnant NbM are those previously infected with 500L3 Nippostrongylus brasiliensis (N brasiliensis) during pregnancy.

Lab analysis

Sequencing type
16S
16S variable region One or more hypervariable region(s) of the bacterial 16S gene
V6
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).
log transformation
Statistical test
DESeq2
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
increased

Signature 1

Reviewed Marked as Reviewed by Svetlana up on 2024-11-5

Curated date: 2024/10/20

Curator: KateRasheed

Revision editor(s): KateRasheed

Source: Figure 1D, S1

Description: Differential abundant bacteria at different taxonomy level

Abundance in Group 1: increased abundance in Pregnant NbM

NCBI Quality ControlLinks
Aerococcaceae
Alcaligenaceae
Bacillales
Burkholderiales
Enterococcaceae
Sphingobacteriaceae
Sphingobacteriales
Staphylococcaceae

Revision editor(s): KateRasheed

Signature 2

Reviewed Marked as Reviewed by Svetlana up on 2024-11-5

Curated date: 2024/10/20

Curator: KateRasheed

Revision editor(s): KateRasheed

Source: Figure 1D, S1

Description: Differential abundant bacteria at different taxonomy level

Abundance in Group 1: decreased abundance in Pregnant NbM

NCBI Quality ControlLinks
Bacteroidaceae
Erysipelotrichaceae
Pasteurellaceae
Prevotellaceae
Pasteurellales
Erysipelotrichales

Revision editor(s): KateRasheed