Endometriosis induces gut microbiota alterations in mice/Experiment 2

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Reviewed Marked as Reviewed by Chloe on 2023-3-9

Curated date: 2022/03/14

Curator: Fatima

Revision editor(s): WikiWorks, Fatima, Chloe

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
Endometriosis endometriosis,Endometriosis (clinical),endometriosis (disease),Endometriosis (disorder),Endometriosis (morphologic abnormality),ENDOMETRIOSIS NEC,Endometriosis NOS,Endometriosis NOS (disorder),Endometriosis of other specified sites,Endometriosis, site unspecified,Endometriosis
Group 0 name Corresponds to the control (unexposed) group for case-control studies
Healthy mice
Group 1 name Corresponds to the case (exposed) group for case-control studies
Mice who were injected with endometrial tissues
Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
Researchers induced endometriosis models by intraperitoneal injection of endometrial tissues to mimic endometriosis formation in humans.
Group 0 sample size Number of subjects in the control (unexposed) group
4
Group 1 sample size Number of subjects in the case (exposed) group
4
Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any)
N/A

Lab analysis

Sequencing type
16S
16S variable region One or more hypervariable region(s) of the bacterial 16S gene
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
LDA Score above Threshold for the linear discriminant analysis (LDA) score for studies using the popular LEfSe tool
4

Alpha Diversity

Shannon Estimator of species richness and species evenness: more weight on species richness
unchanged
Chao1 Abundance-based estimator of species richness
unchanged
Simpson Estimator of species richness and species evenness: more weight on species evenness
unchanged

Signature 1

Reviewed Marked as Reviewed by Chloe on 2023-3-9

Curated date: 2022/03/14

Curator: Fatima

Revision editor(s): WikiWorks, Fatima

Source: Figure 4

Description: LDA coupled with effect size measurements identified the most differentially abundant taxa between the two groups

Abundance in Group 1: increased abundance in Mice who were injected with endometrial tissues

NCBI Quality ControlLinks
Bacillota

Revision editor(s): WikiWorks, Fatima

Signature 2

Reviewed Marked as Reviewed by Chloe on 2023-3-9

Curated date: 2022/03/14

Curator: Fatima

Revision editor(s): WikiWorks, Fatima

Source: Figure 4

Description: LDA coupled with effect size measurements identified the most differentially abundant taxa between the two groups

Abundance in Group 1: decreased abundance in Mice who were injected with endometrial tissues

NCBI Quality ControlLinks
Alloprevotella
Bacteroidia
Bacteroidales
Bacteroidota

Revision editor(s): WikiWorks, Fatima