Reference Report

Reference
Citation	Cook, R.K., Christensen, S.J., Deal, J.A., Coburn, R.A., Deal, M.E., Gresens, J.M., Kaufman, T.C., Cook, K.R. (2012). The generation of chromosomal deletions to provide extensive coverage and subdivision of the Drosophila melanogaster genome. Genome Biol. 13(3): R21. (Export to RIS)
FlyBase ID	FBrf0219066
Publication Type	Research paper
PubMed ID	22445104
PubMed Abstract	Chromosomal deletions are used extensively in Drosophila melanogaster genetics research. Deletion mapping is the primary method used for fine-scale gene localization. Effective and efficient deletion mapping requires both extensive genomic coverage and a high density of molecularly defined breakpoints across the genome.A large-scale resource development project at the Bloomington Drosophila Stock Center has improved the choice of deletions beyond that provided by previous projects. FLP-mediated recombination between FRT-bearing transposon insertions was used to generate deletions, because it is efficient and provides single-nucleotide resolution in planning deletion screens. The 793 deletions generated pushed coverage of the euchromatic genome to 98.4%. Gaps in coverage contain haplolethal and haplosterile genes, but the sizes of these gaps were minimized by flanking these genes as closely as possible with deletions. In improving coverage, a complete inventory of haplolethal and haplosterile genes was generated and extensive information on other haploinsufficient genes was compiled. To aid mapping experiments, a subset of deletions was organized into a Deficiency Kit to provide maximal coverage efficiently. To improve the resolution of deletion mapping, screens were planned to distribute deletion breakpoints evenly across the genome. The median chromosomal interval between breakpoints now contains only nine genes and 377 intervals contain only single genes.Drosophila melanogaster now has the most extensive genomic deletion coverage and breakpoint subdivision as well as the most comprehensive inventory of haploinsufficient genes of any multicellular organism. The improved selection of chromosomal deletion strains will be useful to nearly all Drosophila researchers.
DOI	10.1186/gb-2012-13-3-r21
Related Publication(s)
Supplementary material	Additional file 1. Breakpoints and characterization of BSC deletions. [FBrf0219069]
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Language of Publication	English
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Parent Publication
Publication Type	Journal
Abbreviation	Genome Biol.
Title	Genome Biology
Publication Year	2000-
ISBN/ISSN	1465-6906
Data from Reference
Genes (102)
	Abd-B Act88F b bnl Dl Dll dpp e eIF-2α Fs(1)10A H Hdl Hup Kr lok Mhc Mlc2 Ms(3)88C mtrm N Np p53 Pc Pcl Pkd2 Px RpL4 RpL5 RpL6 RpL7 RpL7A RpL8 RpL9 RpL10 RpL11 RpL12 RpL13 RpL13A RpL14 RpL15 RpL17 RpL18 RpL18A RpL19 RpL21 RpL23 RpL23A RpL24 RpL27 RpL27A RpL28 RpL31 RpL32 RpL34b RpL35 RpL35A RpL36 RpL36A RpL37a RpL37A RpL38 RpL39 RpL40 RpLP1 RpLP2 RpS3 RpS3A RpS4 RpS5a RpS6 RpS7 RpS8 RpS9 RpS10b RpS11 RpS13 RpS15 RpS15Aa RpS16 RpS17 RpS18 RpS19a RpS20 RpS21 RpS23 RpS24 RpS25 RpS26 RpS27 RpS27A RpS28b RpS29 RpS30 run S Scr Su(var)3-9 Tm2 Tpl Ubx vg wupA
Libraries/Collections (1)
	Dfs_BSC_set2