Assessing the Tsetse Fly Microbiome Composition and the Potential Association of Some Bacteria Taxa with Trypanosome Establishment/Experiment 1
From BugSigDB
Needs review
Subjects
- Location of subjects
- Cameroon
- Host species Species from which microbiome was sampled. Contact us to have more species added.
- Glossina palpalis palpalis
- Body site Anatomical site where microbial samples were extracted from according to the Uber Anatomy Ontology
- Insect head , Body proper Insect head,insect head,Body,Whole body,Body proper,body proper
- Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology
- Human african trypanosomiasis Africam sleeping sickness,African sleeping sickness,African Trypanosomiasis,African trypanosomiasis,human African trypanosomiasis,sleeping sickness,Human african trypanosomiasis,human african trypanosomiasis
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Non-infected
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Infected
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Tsetse flies with midguts infected with trypanosomes.
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).
- 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)?
- No
Alpha Diversity
- Shannon Estimator of species richness and species evenness: more weight on species richness
- unchanged
Signature 1
Needs review
Source: Table 2
Description: Operational Taxonomic Units (at the genus level) displaying a significant difference in abundance between tsetse flies with midguts non-infected vs. infected with trypanosomes.
Abundance in Group 1: increased abundance in Infected
| NCBI | Quality Control | Links |
|---|---|---|
| Serratia | ||
| Staphylococcus | ||
| Wigglesworthia |
Revision editor(s): Anne-mariesharp
Signature 2
Needs review
Source: Table 2
Description: Operational Taxonomic Units (at the genus level) displaying a significant difference in abundance between tsetse flies with midguts non-infected vs. infected with trypanosomes.
Abundance in Group 1: decreased abundance in Infected
| NCBI | Quality Control | Links |
|---|---|---|
| Aquabacterium | ||
| Bacillus | ||
| Cupriavidus | ||
| Dechloromonas | ||
| Enterococcus | ||
| Listeria | ||
| Methylophilus | ||
| Pseudomonas | ||
| Ralstonia | ||
| Pseudomonas_ EscherichiaPseudomonas_ Escherichia | ||
| Roseateles |
Revision editor(s): Anne-mariesharp
