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
- Body external integument structure , Coelomic fluid Body external integument structure,body external integument structure,Coelomic fluid,coelomic fluid
- Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology
- Strongylocentrotus purpuratus purple sea urchin,purple urchin,Strongylocentrotus purpuratus (Stimpson, 1857),Strongylocentrotus purpuratus,strongylocentrotus purpuratus
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- healthy 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
- sea urchins with spotting disease
- 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
- Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any)
- no antibiotics exclusion
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
- Significance threshold p-value or FDR threshold used for differential abundance testing (if any)
- 0.05
- LDA Score above Threshold for the linear discriminant analysis (LDA) score for studies using the popular LEfSe tool
- 2
Alpha Diversity
- Chao1 Abundance-based estimator of species richness
- decreased
- Richness Number of species
- decreased
Signature 1
Needs review
Source: Figure 4
Description: Significant differential abundance of taxa for individual sample groups using LEfSe
Abundance in Group 1: increased abundance in diseased sea urchins
| NCBI | Quality Control | Links |
|---|---|---|
| CyclobacteriaceaeCyclobacteriaceae | ||
| LutibacterLutibacter | ||
| PseudoteredinibacterPseudoteredinibacter |
Revision editor(s): Ndruscilla
Signature 2
Needs review
Source: Figure 4
Description: Significant differential abundance of taxa for individual sample groups using LEfSe
Abundance in Group 1: decreased abundance in diseased sea urchins
| NCBI | Quality Control | Links |
|---|---|---|
| Enterobacterales | ||
| GastranaerophilalesGastranaerophilales |
Revision editor(s): Ndruscilla
