Reference
Citation
Parks, A.L., Cook, K.R., Belvin, M., Dompe, N.A., Fawcett, R., Huppert, K., Tan, L.R., Winter, C.G., Bogart, K.P., Deal, J.E., Deal-Herr, M.E., Grant, D., Marcinko, M., Miyazaki, W.Y., Robertson, S., Shaw, K.J., Tabios, M., Vysotskaia, V., Zhao, L., Andrade, R.S., Edgar, K.A., Howie, E., Killpack, K., Milash, B., Norton, A., Thao, D., Whittaker, K., Winner, M.A., Friedman, L., Margolis, J., Singer, M.A., Kopczynski, C., Curtis, D., Kaufman, T.C., Plowman, G.D., Duyk, G., Francis-Lang, H.L. (2004). Systematic generation of high-resolution deletion coverage of the Drosophila melanogaster genome.  Nat. Genet. 36(3): 288--292.
FlyBase ID
FBrf0175003
Publication Type
Research paper
Abstract
In fruit fly research, chromosomal deletions are indispensable tools for mapping mutations, characterizing alleles and identifying interacting loci. Most widely used deletions were generated by irradiation or chemical mutagenesis. These methods are labor-intensive, generate random breakpoints and result in unwanted secondary mutations that can confound phenotypic analyses. Most of the existing deletions are large, have molecularly undefined endpoints and are maintained in genetically complex stocks. Furthermore, the existence of haplolethal or haplosterile loci makes the recovery of deletions of certain regions exceedingly difficult by traditional methods, resulting in gaps in coverage. Here we describe two methods that address these problems by providing for the systematic isolation of targeted deletions in the D. melanogaster genome. The first strategy used a P element-based technique to generate deletions that closely flank haploinsufficient genes and minimize undeleted regions. This deletion set has increased overall genomic coverage by 5-7%. The second strategy used FLP recombinase and the large array of FRT-bearing insertions described in the accompanying paper to generate 519 isogenic deletions with molecularly defined endpoints. This second deletion collection provides 56% genome coverage so far. The latter methodology enables the generation of small custom deletions with predictable endpoints throughout the genome and should make their isolation a simple and routine task.
PubMed ID
PubMed Central ID
Related Publication(s)
Personal communication to FlyBase
Df(2L)Exel6011 and P{XP}SP2637[d02085].
Parks, 2016.10.13, Df(2L)Exel6011 and P{XP}SP2637[d02085]. [FBrf0234093]
Genomic mapping of Exelixis insertion collection. (Computer file)
Gene Disruption Project members and Exelixis, 2005, Genomic mapping of Exelixis insertion collection. (Computer file) [FBrf0184340]
Note
Flying in the face of total disruption.
Hiesinger and Bellen, 2004, Nat. Genet. 36(3): 211--212 [FBrf0175000]
Associated Information
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Secondary IDs
    Language of Publication
    English
    Additional Languages of Abstract
    Parent Publication
    Publication Type
    Journal
    Abbreviation
    Nat. Genet.
    Title
    Nature Genetics
    Publication Year
    1992-
    ISBN/ISSN
    1061-4036 1546-1718
    Data From Reference
    Aberrations (7)
    Alleles (1)
    Genes (1)
    Datasets (2)
    Insertions (1407)
    List limited to the first 200 records. Use the HitList export button in the left sidebar to view all records.
    Transgenic Constructs (17)