Drosophila Genome Project

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

Siepel A, Bejerano G, Pedersen JS, Hinrichs AS, Hou M, Rosenbloom K, et al. Evolutionarily conserved elements in vertebrate, insect, worm, and yeast genomes. Genome Res. 2005 ;15(8):1034-50.

Pappu KS, Ostrin EJ, Middlebrooks BW, Sili BTavsanli, Chen R, Atkins MR, et al. Dual regulation and redundant function of two eye-specific enhancers of the Drosophila retinal determination gene dachshund. Development. 2005 ;132(12):2895-905.

Chen R, Mardon G. Keeping an eye on the fly genome. Dev Biol. 2005 ;282(2):285-93.

Richards S, Liu Y, Bettencourt BR, Hradecky P, Letovsky S, Nielsen R, et al. Comparative genome sequencing of Drosophila pseudoobscura: chromosomal, gene, and cis-element evolution. Genome Res. 2005 ;15(1):1-18.

Jin P, Zarnescu DC, Ceman S, Nakamoto M, Mowrey J, Jongens TA, et al. Biochemical and genetic interaction between the fragile X mental retardation protein and the microRNA pathway. Nat Neurosci. 2004 ;7(2):113-7.

Gu Y, Nelson DL. FMR2 function: insight from a mouse knockout model. Cytogenet Genome Res. 2003 ;100(1-4):129-39.

Pappu KS, Chen R, Middlebrooks BW, Woo C, Heberlein U, Mardon G. Mechanism of hedgehog signaling during Drosophila eye development. Development. 2003 ;130(13):3053-62.

Celniker SE, Wheeler DA, Kronmiller B, Carlson JW, Halpern A, Patel S, et al. Finishing a whole-genome shotgun: release 3 of the Drosophila melanogaster euchromatic genome sequence. Genome Biol. 2002 ;3(12):RESEARCH0079.

Salkoff L, Butler A, Fawcett G, Kunkel M, McArdle C, Paz-y-Mino G, et al. Evolution tunes the excitability of individual neurons. Neuroscience. 2001 ;103(4):853-9.