Amphimedon queenslandica Assembly and Gene Annotation
About Amphimedon queenslandica
Amphimedon queenslandica (formerly A. reniera) is a sponge, discovered in 1998 and formally described in 2006 . Despite its recent identification, this native of Great Barrier Reef has already proved itself a useful subject for the study of the evolutionary origins of metazoan development [2,3], and is the first member of phylum Porifera to have had its genome sequenced.
Picture credit (Creative Commons BY 2.5): Wikimedia Commons 2007
Genomic DNA was isolated from ~1,500 embryos and larvae obtained from the brood chambers of a single mother sponge and the genome was sequenced and assembled by the Joint Genome Institute in 2010. This ~167 Mb assembly was constructed from ~9x coverage Sanger shotgun sequencing and covers ~97% of the protein-coding regions. The genome has a scaffold N50 of 120kb and contig N50 of 11.2kb.
Ensembl Metazoa displays the latest, v2.1 gene set . The original gene set  is available as a separate track in the genome browser.
- A new species of Amphimedon (Porifera, Demospongiae,
Haplosclerida, Niphatidae) from the Capricorn-Bunker Group of
Islands, Great Barrier Reef, Australia: target species for the
'sponge genome project'.
Hooper JNA and Van Soest RWM. 2006. Zootaxa. 1314:31-29.
- The demosponge Amphimedon queenslandica: reconstructing the
ancestral metazoan genome and deciphering the origin of animal
Degnan BM, Adamska M, Craigie A, Degnan SM, Fahey B, Gauthier M, Hooper JN, Larroux C, Leys SP, Lovas E et al. 2008. Cold Spring Harbor Protocols. 2008:pdb.emo108.
- The Amphimedon queenslandica genome and the evolution of animal
Srivastava M, Simakov O, Chapman J, Fahey B, Gauthier ME, Mitros T, Richards GS, Conaco C, Dacre M, Hellsten U et al. 2010. Nature. 466:720-726.
- Deep developmental transcriptome sequencing uncovers numerous new
genes and enhances gene annotation in the sponge Amphimedon
Fernandez-Valverde SL, Calcino AD, Degnan BM. 2015. BMC Genomics. 16:387.
General information about this species can be found in Wikipedia.