Bald sea urchin disease shifts the surface microbiome on purple sea urchins in an aquarium/Experiment 6
From BugSigDB
Needs review
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
- Cellular bone tissue Cellular bone tissue,cellular bone tissue
- Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology
- Bacterial disease Bacteria caused disease or disorder,Bacteria disease or disorder,Bacteria infectious disease,bacterial disease,bacterial disorder,bacterial infection,bacterial infectious disease,infection, bacterial,infections, bacterial,Bacterial disease
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Recovered sea urchins
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Diseased sea urchins
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Bald sea urchin disease (BSUD) is a bacterial infection that occurs in a wide range of sea urchin species and causes the loss of surface appendages.
- Group 0 sample size Number of subjects in the control (unexposed) group
- 4
- Group 1 sample size Number of subjects in the case (exposed) group
- 4
Lab analysis
- Sequencing type
- PCR
- 16S variable region One or more hypervariable region(s) of the bacterial 16S gene
- Not specified
- Sequencing platform Manufacturer and experimental platform used for quantifying microbial abundance
- RT-qPCR
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
- unchanged
- Chao1 Abundance-based estimator of species richness
- unchanged
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- unchanged
Signature 1
Needs review
Source: Supplementary Data file 3, figure 6A & TableS4-5.
Description: Taxa have different abundances in microbiomes from samples collected from diseased sea urchins compared to recovered sea urchins
Abundance in Group 1: increased abundance in Diseased sea urchins
Revision editor(s): Omojokunoluwatomisin
Signature 2
Needs review
Source: Supplementary Data file 3, figure 6A & TableS4-5.
Description: Taxa have different abundances in microbiomes from samples collected from diseased sea urchins compared to recovered sea urchins
Abundance in Group 1: decreased abundance in Diseased sea urchins
Revision editor(s): Omojokunoluwatomisin
