Microbial, proteomic, and metabolomic profiling of the estrous cycle in wild house mice/Experiment 1
Subjects
- Location of subjects
- Czechia
- 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
- Vagina , Saliva Vagina,vagina,Distal oviductal region,Distal portion of oviduct,Vaginae,Sailva normalis,Saliva atomaris,Saliva molecularis,Salivary gland secretion,Saliva,saliva
- Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology
- Fertilized ovule stage Fertilized ovule stage,fertilized ovule stage
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Oral (saliva)
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Vagina
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Oral and vaginal samples were noninvasively collected by gentle flushing with 2 × 30 µL of sterile dH2O on the day 21
- Group 0 sample size Number of subjects in the control (unexposed) group
- 18
- Group 1 sample size Number of subjects in the case (exposed) group
- 18
Lab analysis
- Sequencing type
- 16S
- 16S variable region One or more hypervariable region(s) of the bacterial 16S gene
- V3-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
- Random Forest Analysis
- ANCOM
Alpha Diversity
- Shannon Estimator of species richness and species evenness: more weight on species richness
- unchanged
- Richness Number of species
- increased
Signature 1
Source: figure 1
Description: Graphical depiction of the relative abundance of dominant bacterial genera (Vagina Microbiome during the proestrus cycle)
Abundance in Group 1: increased abundance in Vagina
| NCBI | Quality Control | Links |
|---|---|---|
| Delftia | ||
| Lactobacillales | ||
| Staphylococcus |
Revision editor(s): Omojokunoluwatomisin
Signature 2
Source: Figure 1
Description: Graphical depiction of the relative abundance of dominant bacterial genera (Vagina Microbiome during the estrus cycle)
Abundance in Group 1: increased abundance in Vagina
| NCBI | Quality Control | Links |
|---|---|---|
| Lactobacillales | ||
| Rodentibacter | ||
| Streptococcus | ||
| unclassified Muribaculaceae |
Revision editor(s): Omojokunoluwatomisin
Signature 3
Source: Figure 1
Description: Graphical depiction of the relative abundance of dominant bacterial genera (Vagina Microbiome during the Metestrus cycle)
Abundance in Group 1: increased abundance in Vagina
| NCBI | Quality Control | Links |
|---|---|---|
| Corynebacterium | ||
| Delftia | ||
| Lactobacillales | ||
| Lactobacillus | ||
| Pseudomonas | ||
| Rodentibacter |
Revision editor(s): Omojokunoluwatomisin
Signature 4
Source: Figure 1
Description: Graphical depiction of the relative abundance of dominant bacterial genera (Vaginal microbiome in the diestrus cycle)
Abundance in Group 1: increased abundance in Vagina
| NCBI | Quality Control | Links |
|---|---|---|
| Delftia | ||
| Rodentibacter | ||
| Pseudomonas |
Revision editor(s): Omojokunoluwatomisin
Signature 5
Source: Figure 1
Description: Graphical depiction of the relative abundance of dominant bacterial genera in oral samples during different phases of the estrous cycle (P, E, M, D = proestrus, estrus, metestrus, diestrus).
Abundance in Group 1: decreased abundance in Vagina
| NCBI | Quality Control | Links |
|---|---|---|
| Gemella | ||
| Streptococcus |
Revision editor(s): Omojokunoluwatomisin
Signature 6
Source: Figure 3a
Description: Significant differences in microbiota on the genus level between oral and vaginal samples. Relative average abundances of the most represented bacterial genera in oral and vaginal samples are graphically depicted in bar plot (A). Random Forest
Abundance in Group 1: increased abundance in Vagina
| NCBI | Quality Control | Links |
|---|---|---|
| Bergeyella | ||
| Cutibacterium | ||
| Delftia | ||
| Enterococcus | ||
| Lactobacillales | ||
| Phyllobacterium | ||
| Pseudomonas | ||
| Rodentibacter | ||
| Staphylococcus | ||
| Muribaculaceae |
Revision editor(s): Omojokunoluwatomisin
Signature 7
Source: Figure 3a
Description: Significant differences in microbiota on the genus level between oral and vaginal samples. Relative average abundances of the most represented bacterial genera in oral and vaginal samples are graphically depicted in bar plot (A). Random Forest
Abundance in Group 1: decreased abundance in Vagina
| NCBI | Quality Control | Links |
|---|---|---|
| Bradyrhizobium | ||
| Corynebacterium | ||
| Gemella | ||
| Lactobacillus | ||
| Methylobacterium | ||
| Streptococcus | ||
| unclassified Muribaculaceae |
Revision editor(s): Omojokunoluwatomisin
