White-nose syndrome restructures bat skin microbiomes/Experiment 3
From BugSigDB
Subjects
- Location of subjects
- United States of America
- Host species Species from which microbiome was sampled. Contact us to have more species added.
- Myotis lucifugus
- Body site Anatomical site where microbial samples were extracted from according to the Uber Anatomy Ontology
- Skin epidermis Epidermis,Skin,Vertebrate epidermis,Skin epidermis,skin epidermis
- Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology
- Fungal infectious disease fungal infection,Fungi caused disease or disorder,Fungi disease or disorder,Fungi infection,Fungi infectious disease,infection, fungal,infections, Fungi,mycoses,mycosis,Fungal infectious disease,fungal infectious disease
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Batsskin swaps
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Substrate (Environmental swaps)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Substrate swab samples simultaneously collected from the ceiling or walls of each hibernaculum at least 10 cm from the bat species.
- Group 0 sample size Number of subjects in the control (unexposed) group
- 154
- Group 1 sample size Number of subjects in the case (exposed) group
- 70
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
- LEfSe
- 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
- LDA Score above Threshold for the linear discriminant analysis (LDA) score for studies using the popular LEfSe tool
- 2
Alpha Diversity
- Shannon Estimator of species richness and species evenness: more weight on species richness
- increased
Signature 1
Source: Figure S8
Description: Bacterial differential abundance between bat and substrate samples.
Abundance in Group 1: increased abundance in Substrate (Environmental swaps)
Revision editor(s): MyleeeA
Signature 2
Source: Figure S8
Description: Bacterial differential abundance between bat and substrate samples.
Abundance in Group 1: decreased abundance in Substrate (Environmental swaps)
| NCBI | Quality Control | Links |
|---|---|---|
| Pseudomonadaceae | ||
| Enterobacteriaceae | ||
| Micrococcaceae | ||
| Staphylococcaceae | ||
| Planococcaceae | ||
| Carnobacteriaceae | ||
| Streptococcaceae |
Revision editor(s): MyleeeA
