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Drosophila Genome Project

Drosophila
Image source: Wikimedia Commons

The BCM-HGSC has been involved in several Drosophila genome sequence projects.

Drosophila Genetic Reference Panel

In association with Trudy Mackay (North Carolina State University) we are sequencing a number of phenotyped inbred strains of D. melanogaster using new technologies. The aim is to allow whole genome association studies, and make both the fly lines and the sequences available to the entire Drosophila community. As a start to this process, sequences will be made available here as well as in the usual public depositories.

Drosophila melanogaster genome sequence

The BCM-HGSC was a member of the Berkeley Drosophila Genome Project (BDGP), and responsible for sequencing and finishing approximately one third of the D. melanogaster reference sequence. The reference has since been published (Adams, M. D. et al. The genome sequence of Drosophila melanogaster. Science 287, 2185-95 (2000).) and further refined (Celniker, S. E. et al. Finishing a whole-genome shotgun: release 3 of the Drosophila melanogaster euchromatic genome sequence. Genome Biol 3, RESEARCH0079 (2002)).

Find the most recent data at flybase.

Drosophila pseudoobscura genome sequence

A draft genome sequence of the fruitfly (D. pseudoobscura) was performed by the BCM-HGSC, and published in January 2005 (Richards et al. Comparative genome sequencing of Drosophila pseudoobscura: Chromosomal, gene, and cis-element evolution. Genome Research 15:1-18).

Drosophila modENCODE Project

As part of the Drosophila modENCODE project, we are studying the comparative genomics of eight additional species of Drosophila: biarmipes, bipectinata, elegans, eugracillis, ficusphila, kikkawai, rhopaloa, and takahashii.


 



Related Publications

Comparative validation of the D. melanogaster modENCODE transcriptome annotation., Chen, Zhen-Xia, Sturgill David, Qu Jiaxin, Jiang Huaiyang, Park Soo, Boley Nathan, Suzuki Ana Maria, Fletcher Anthony R., Plachetzki David C., FitzGerald Peter C., et al. , Genome research, 2014 Jul, Volume 24, Issue 7, p.1209-23, (2014) Abstract
Evidence for Stabilizing Selection on Codon Usage in Chromosomal Rearrangements of Drosophila pseudoobscura., Fuller, Zachary L., Haynes Gwilym D., Zhu Dianhui, Batterton Matthew, Chao Hsu, Dugan Shannon, Javaid Mehwish, Jayaseelan Joy C., Lee Sandra, Li Mingmei, et al. , G3 (Bethesda, Md.), 2014 Oct 17, (2014) Abstract
Mind the gap: upgrading genomes with Pacific Biosciences RS long-read sequencing technology., English, Adam C., Richards Stephen, Han Yi, Wang Min, Vee Vanesa, Qu Jiaxin, Qin Xiang, Muzny Donna M., Reid Jeffrey G., Worley Kim C., et al. , PloS one, 2012, Volume 7, Issue 11, p.e47768, (2012) Abstract
Comparative genome sequencing of Drosophila pseudoobscura: chromosomal, gene, and cis-element evolution., Richards, Stephen, Liu Yue, Bettencourt Brian R., Hradecky Pavel, Letovsky Stan, Nielsen Rasmus, Thornton Kevin, Hubisz Melissa J., Chen Rui, Meisel Richard P., et al. , Genome research, 2005 Jan, Volume 15, Issue 1, p.1-18, (2005) Abstract
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