Nature Methods
- 5, 323 - 329 (2008)
Published online: 9 March 2008; | doi:10.1038/nmeth.1191
High-resolution, high-throughput SNP mapping in Drosophila melanogasterDoris Chen1, 5, Annika Ahlford2, 5, Frank Schnorrer1, 5, Irene Kalchhauser1, Michaela Fellner1, 3, Erika Viràgh4, Istvàn Kiss4, Ann-Christine Syvänen2 & Barry J Dickson11
Research Institute of Molecular Pathology (IMP), Dr. Bohr-Gasse 7, A-1030 Vienna, Austria. 2
Uppsala University, Department of Medical Sciences, Molecular Medicine, Ing70 3tr foavd2, S-75185 Uppsala, Sweden. 3
Institute of Molecular Biotechnology of the Austrian Academy of Sciences, Dr. Bohr-Gasse 3-5, A-1030 Vienna, Austria. 4
Biological Research Centre, Hungarian Academy of Sciences, Temesvari kft. 62, P.P. Box 521, H-6701 Szeged, Hungary. 5
These authors contributed equally to this work.
Correspondence should be addressed to Barry J Dickson dickson@imp.ac.at or Ann-Christine Syvänen ann-christine.syvanen@medsci.uu.se Single nucleotide polymorphisms (SNPs) are useful markers for genetic mapping experiments in model organisms. Here we report the establishment of a high-density SNP map and high-throughput genotyping assays for Drosophila melanogaster. Our map comprises 27,367 SNPs in common laboratory Drosophila stocks. These SNPs were clustered within 2,238 amplifiable markers at an average density of 1 marker every 50.3 kb, or 6.3 genes. We have also constructed a set of 62 Drosophila stocks, each of which facilitates the generation of recombinants within a defined genetic interval of 1–2 Mb. For flexible, high-throughput SNP genotyping, we used fluorescent tag-array mini-sequencing (TAMS) assays. We designed and validated TAMS assays for 293 SNPs at an average resolution of 391.3 kb, and demonstrated the utility of these tools by rapidly mapping 14 mutations that disrupt embryonic muscle patterning. These resources enable high-resolution high-throughput genetic mapping in Drosophila.
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