Spotting disease disrupts the microbiome of infected purple sea urchins, Strongylocentrotus purpuratus/Experiment 5
From BugSigDB
Reviewed Marked as Reviewed by Svetlana up on 2024-8-2
Subjects
- Location of subjects
- United States of America
- Host species Species from which microbiome was sampled. Contact us to have more species added.
- Strongylocentrotus purpuratus
- Body site Anatomical site where microbial samples were extracted from according to the Uber Anatomy Ontology
- Coelomic fluid , Body wall Coelomic fluid,coelomic fluid,Trunk wall,Wall fo trunk,Wall of trunk,Body wall,body wall
- Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology
- Sampling site Sampling site,sampling site
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Healthy coelomic fluid (HCF) and lesion body wall (LBW)
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Diseased coelomic fluid (DCF)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Diseased coelomic fluid (DCF) samples from sea urchins with spotting disease
- Group 0 sample size Number of subjects in the control (unexposed) group
- 10
- Group 1 sample size Number of subjects in the case (exposed) group
- 3
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
- 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)?
- Yes
- LDA Score above Threshold for the linear discriminant analysis (LDA) score for studies using the popular LEfSe tool
- 2
Signature 1
Reviewed Marked as Reviewed by Svetlana up on 2024-8-2
Source: Supplementary Table S9
Description: Significantly differentially abundance taxa as identified by LEfSe in the tissue microbiome samples
Abundance in Group 1: increased abundance in Diseased coelomic fluid (DCF)
| NCBI | Quality Control | Links |
|---|---|---|
| Pseudoalteromonas | ||
| Pseudophaeobacter |
Revision editor(s): Scholastica, WikiWorks
