Cigarette smoke promotes colorectal cancer through modulation of gut microbiota and related metabolites/Experiment 2
From BugSigDB
Reviewed Marked as Reviewed by ChiomaBlessing on 2024-1-10
Curated date: 2023/03/07
Curator: Busayo
Revision editor(s): Mcarlson, Busayo, Dupe, Peace Sandy, ChiomaBlessing
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
- Smoking behavior smoking,Smoking behavior,smoking behavior
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Smoke-free control group intraperitoneally injected with carcinogen azoxymethane (AOM) (10 mg/kg)
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Smoke-exposed group intraperitoneally injected with carcinogen, AOM (AOM + Smoking)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Mice exposed to cigarette smoke directly (4% of 2000 mL/ min airflow) 2 hours per day for 28 weeks (at end time point)
- Group 0 sample size Number of subjects in the control (unexposed) group
- 15
- Group 1 sample size Number of subjects in the case (exposed) group
- 15
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).
- arcsine square-root
- 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
- decreased
- Chao1 Abundance-based estimator of species richness
- decreased
Signature 1
Reviewed Marked as Reviewed by ChiomaBlessing on 2024-1-10
Source: Figure 2c
Description: Differentially abundant bacteria in smoke-free and smoke-exposed mice (AOM vs AOM + Smoking)
Abundance in Group 1: increased abundance in Smoke-exposed group intraperitoneally injected with carcinogen, AOM (AOM + Smoking)
Revision editor(s): Busayo, Mcarlson, ChiomaBlessing
Signature 2
Reviewed Marked as Reviewed by ChiomaBlessing on 2024-1-10
Source: Figure 2c
Description: Differentially abundant bacteria in smoke-free and smoke-exposed mice (AOM vs AOM + Smoking)
Abundance in Group 1: decreased abundance in Smoke-exposed group intraperitoneally injected with carcinogen, AOM (AOM + Smoking)
Revision editor(s): Busayo, Mcarlson, ChiomaBlessing
