Effects of inhaled air pollution on markers of integrity, inflammation, and microbiota profiles of the intestines in Apolipoprotein E knockout mice/Experiment 1
From BugSigDB
Reviewed Marked as Reviewed by Atrayees on 2023-7-3
Subjects
- Location of subjects
- United States of America
- 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
- Small intestine Anterior intestine,Intestinum tenue,Mid intestine,Small bowel,Small intestine,small intestine
- Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology
- Air pollution air pollution,Air pollution
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- mice exposed to Filtered Air
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- mice exposed to MVE
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- male ApoE−/- mice exposed to mixed diesel and gasoline engine emissions (MVE) or Wood Smoke (WS)
- Group 0 sample size Number of subjects in the control (unexposed) group
- 20
- Group 1 sample size Number of subjects in the case (exposed) group
- 20
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
- Kruskall-Wallis
- 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
- Richness Number of species
- decreased
Signature 1
Reviewed Marked as Reviewed by Atrayees on 2023-7-3
Source: Figure 10 & text
Description: Effects of inhaled filtered air (FA), wood-smoke (WS), and mixed diesel and gasoline vehicle exhaust (MVE) on the relative abundance of gastrointestinal bacteria at the (A) phylum level, and (B) genus level in ApoE−/-mice.
Abundance in Group 1: increased abundance in mice exposed to MVE
| NCBI | Quality Control | Links |
|---|---|---|
| Turicibacter | ||
| Clostridium | ||
| Bacillota |
Signature 2
Reviewed Marked as Reviewed by Atrayees on 2023-7-3
Source: Figure 10 & text
Description: Effects of inhaled filtered air (FA), wood-smoke (WS), and mixed diesel and gasoline vehicle exhaust (MVE) on the relative abundance of gastrointestinal bacteria at the (A) phylum level, and (B) genus level in ApoE−/-mice.
Abundance in Group 1: decreased abundance in mice exposed to MVE
| NCBI | Quality Control | Links |
|---|---|---|
| Lactobacillus | ||
| Oscillospira | ||
| unclassified Lachnospiraceae |
Revision editor(s): Claregrieve1, WikiWorks
