As a result of the production of a vast amount of genomic sequence from a wide variety of organisms, the next major challenge in genomics is to identify and assemble complete protein sets for each. At the Berkeley Drosophila Genome Project (BDGP) we are actively generating a comprehensive cDNA resource, the Drosophila Gene Collection (DGC) that will contain at least one cDNA for each of the ~13,700 annotated genes. Our cDNA collection has greatly accelerated progress towards a comprehensive transcript map of all Drosophila genes and is being used to determine gene expression patterns in the embryo. Presently, 5,810 cDNA clones comprise the DGC Gold Collection, which is a set of full-length cDNAs that are free of nonsense and missense mutations.
We aim to use these cDNA clones to construct two collections of universal donor clones, one with and one without the native stop codon. These collections will be the primary source of high quality open reading frames (ORFs) that will be easy to transfer into a number of different expression vectors. Further, we plan to use the donor clones to make two sets of expression clones, one for use in tissue culture cells and another for use in transgenic flies. Our goals are to obtain a more detailed understanding of the complete set of proteins that are encoded by the Drosophila melanogaster genome and to provide resources for functional genomics and proteomics to the research community. The construction of these clone resources will provide information and tools that will further our understanding of higher eukaryotes and lay the groundwork for more complete analyses of protein function in Drosophila and other eukaryotes, including humans. ? ?

Agency
National Institute of Health (NIH)
Institute
National Human Genome Research Institute (NHGRI)
Type
Biotechnology Resource Grants (P41)
Project #
5P41HG003487-03
Application #
7194290
Study Section
Ethical, Legal, Social Implications Review Committee (GNOM)
Program Officer
Feingold, Elise A
Project Start
2005-04-01
Project End
2009-02-28
Budget Start
2007-03-01
Budget End
2008-02-29
Support Year
3
Fiscal Year
2007
Total Cost
$550,509
Indirect Cost
Name
Lawrence Berkeley National Laboratory
Department
Genetics
Type
Organized Research Units
DUNS #
078576738
City
Berkeley
State
CA
Country
United States
Zip Code
94720
Guruharsha, K G; Hori, Kazuya; Obar, Robert A et al. (2014) Proteomic analysis of the Notch interactome. Methods Mol Biol 1187:181-92
Rhee, David Y; Cho, Dong-Yeon; Zhai, Bo et al. (2014) Transcription factor networks in Drosophila melanogaster. Cell Rep 8:2031-2043
Özkan, Engin; Carrillo, Robert A; Eastman, Catharine L et al. (2013) An extracellular interactome of immunoglobulin and LRR proteins reveals receptor-ligand networks. Cell 154:228-39
Enuameh, Metewo Selase; Asriyan, Yuna; Richards, Adam et al. (2013) Global analysis of Drosophila Cys?-His? zinc finger proteins reveals a multitude of novel recognition motifs and binding determinants. Genome Res 23:928-40
Guruharsha, K G; Obar, Robert A; Mintseris, Julian et al. (2012) Drosophila protein interaction map (DPiM): a paradigm for metazoan protein complex interactions. Fly (Austin) 6:246-53
Hens, Korneel; Feuz, Jean-Daniel; Isakova, Alina et al. (2011) Automated protein-DNA interaction screening of Drosophila regulatory elements. Nat Methods 8:1065-70
Guruharsha, K G; Rual, Jean-Francois; Zhai, Bo et al. (2011) A protein complex network of Drosophila melanogaster. Cell 147:690-703
Yu, Charles; Wan, Kenneth H; Hammonds, Ann S et al. (2011) Development of expression-ready constructs for generation of proteomic libraries. Methods Mol Biol 723:257-72