FResources
Genome assembly, gene models and sequences
- Genome assembly (gzipped .fa)
Assembly of Ephydatia muelleri genome - Gene models (gff)
Gene models in gff format, giving co-ordinates and content - Gene sequences (aa, cds, mRNA, exons)
Assorted sequence files representing genome contents - Masked version of genome (hard masked)
Repetitive sequence within genome masked as ‘N’ - jBROWSE website
Browsable version of the E. muelleri genome - BLAST server
Blastable version of the E. muelleri genome and protein set - RNAseq data: Differential gene expression: Transcript and Gene
- Raw RNAseq reads (associated with the above Transcript/Gene data from Kenny et al 2020)
Paper and supplementary files
- Genome paper: Nature Communications
Main text of paper describing the genome of E. muelleri - Supplementary Information File (contains Supplementary Notes 1-11)
- Supplementary Data 1: Flavobacterium sp. sequence, predicted proteins and cds sequences
- Supplementary Data 2: BLAST/functional annotation results, Ephydatia muelleri gene annotations
- Supplementary Data 3: Comparative genome statistics and scripts used in generating figures
- Supplementary Data 4: Synteny analysis, additional plots and data
- Supplementary Data 5: Full lists of genes, gain/loss analyses
- Supplementary Data 6: Full results and orthogroups, positive selection analyses (and more)
- Supplementary Data 7: Clustering analyses, lists of genes in each cluster (and with original fasta here)
- Supplementary Data 8: SNARE data, full gene sequences and annotation
- Supplementary Data 9: Amplicon sequencing data, raw and intermediate results
- High quality versions of all figures are available here
- In case of issues with the above links, a mirror of the data is available here
Additional resources
- Behind the paper – a blog describing how this research unfolded
- ‘Sneezing’ Ephydatia muelleri
Inflation-contraction responses in response to stimuli - Useful papers: a community resource
A Morphological Cell Atlas of Ephydatia muelleri – Provides many images showing the morphology of the sponge and describing their function. This paper also includes single cell RNAseq data for choanocytes, archaeocytes and cystencytes. That data is available here. - Algal symbiosis paper from April Horton’s lab
- A variety of papers from the Leys lab
And freshwater sponges in particular - Other sponge data & videos
- Other Sponge transcriptomes
- Ephydatia muelleri Algal symbiosis transcriptomes
Mirror download site
- In case of issues with the above links, a mirror of the data is available herents