Drosophila virilis (Fruit fly, TSC#15010-1051.87) Assembly and Gene Annotation

About Drosophila virilis

Drosophila virilis has a worldwide distribution (probably due to human movements [1]), and was one of 12 fruitfly genomes sequenced for a large comparative study [2]. Ensembl Genomes imports data from FlyBase, who also have more information about the biology of Drosophila virilis, and a phylogeny of the 12 sequenced fruitfly species.

Picture credit (Creative Commons BY-NC-SA 2.0 FR): Nicolas Gompel 2008. Image shows a female fly.

Assembly

This is the August 2005 genome assembly of Drosophila virilis. The 8.0x whole-genome shotgun sequencing was performed and assembly provided by Agencourt Bioscience.

Annotation

Protein-coding and RNA genes, which were annotated with the NCBI eukaryotic genome annotation pipeline, were imported from FlyBase, release dvir_r1.07 (FB2018_05).

Repeats were annotated with the Ensembl Genomes repeat feature pipeline. There are: 400,856 Low complexity (Dust) features, covering 39 Mb (18.7% of the genome); 84,370 RepeatMasker features (with the RepBase library), covering 33 Mb (16.2% of the genome); 207,929 Tandem repeats (TRF) features, covering 32 Mb (15.7% of the genome).

Protein domains were annotated with the Ensembl Genomes protein feature pipeline.

References

1. Signals of demographic expansion in Drosophila virilis.
   Mirol PM, Routtu J, Hoikkala A, Butlin RK. 2008. BMC Evololutionary Biology. 8:59.
2. Evolution of genes and genomes on the Drosophila phylogeny.
   Drosophila 12 Genomes Consortium, Clark AG, Eisen MB, Smith DR, Bergman CM, Oliver B, Markow TA, Kaufman TC, Kellis M, Gelbart W et al. 2007. Nature. 450:203-218.