Respiratory Disease following Viral Lung Infection Alters the Murine Gut Microbiota/Experiment 1
Curated date: 2021/06/12
Curator: Claregrieve1
Revision editor(s): WikiWorks, LGeistlinger, Claregrieve1, Folakunmi, Victoria
Subjects
- Location of subjects
- United Kingdom
- 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
- Sampling time sampling_time_point,Sampling time,sampling time
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Day 0
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Day 7
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Mice assessed 7 days after infection with respiratory syncytial virus (RSV)
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).
- raw counts
- 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
- unchanged
- Inverse Simpson Modification of Simpsons index D as 1/D to obtain high values in datasets of high diversity and vice versa
- unchanged
Signature 1
Source: Figure 2A&2B, within results text (The Composition of the Gut Microbiota Is Altered following Lung Infection, paragraph 2)
Description: Differential abundance of gut microbiota of respiratory syncytial virus (RSV) infected mice between Day 0 and Day 7 of infection
Abundance in Group 1: decreased abundance in Day 7
| NCBI | Quality Control | Links |
|---|---|---|
| Bacillota | ||
| Lachnospiraceae | ||
| Lactobacillaceae |
Revision editor(s): Claregrieve1, Folakunmi
Signature 2
Source: Figure 2A&2B, within results text (The Composition of the Gut Microbiota Is Altered following Lung Infection, paragraph 2)
Description: Differential abundance of gut microbiota of respiratory syncytial virus (RSV) infected mice between Day 0 and Day 7 of infection
Abundance in Group 1: increased abundance in Day 7
| NCBI | Quality Control | Links |
|---|---|---|
| Bacteroidaceae | ||
| Bacteroidia | ||
| Muribaculaceae |
Revision editor(s): Claregrieve1, Folakunmi
