Generation of a High-Density Rat EST Map
- Todd E. Scheetz1,2,3,
- Michael R. Raymond1,2,
- Darryl Y. Nishimura1,2,
- Ann McClain1,2,
- Chad Roberts4,
- Clay Birkett4,
- Jack Gardiner5,
- Jie Zhang1,2,
- Nichole Butters1,2,
- Christine Sun1,2,
- Anne Kwitek-Black6,
- Howard Jacob6,
- Thomas L. Casavant4,
- M. Bento Soares2,3, and
- Val C. Sheffield1,2,7
- 1Howard Hughes Medical Institute, 2Departments of Pediatrics, 3Physiology and Biophysics, and 4Electrical and Computer Engineering, University of Iowa, Iowa City, Iowa 52242, USA; 5Department of Agronomy, University of Missouri, Columbia, Missouri 65203, USA; 6Medical College of Wisconsin, Department of Physiology, Laboratory for Genetic Research, Milwaukee, Wisconsin 53226, USA
Abstract
We have developed a high-density EST map of the rat, consisting of >11,000 ESTs. These ESTs were placed on a radiation hybrid framework map of genetic markers spanning all 20 rat autosomes, plus the X chromosome. The framework maps have a total size of ∼12,400 cR, giving an average correspondence of 240 kb/cR. The frameworks are all LOD 3 chromosomal maps consisting of 775 radiation-hybrid-mapped genetic markers and ESTs. To date, we have generated radiation-hybrid-mapping data for >14,000 novel ESTs identified by our Rat Gene Discovery and Mapping Project (http://ratEST.uiowa.edu), from which we have placed >11,000 on our framework maps. To minimize mapping errors, ESTs were mapped in duplicate and consensus RH vectors produced for use in the placement procedure. This EST map was then used to construct high-density comparative maps between rat and human and rat and mouse. These maps will be a useful resource for positional cloning of genes for rat models of human diseases and in the creation and verification of a tiling set of map order for the upcoming rat-genome sequencing.
Footnotes
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↵7 Corresponding author.
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E-MAIL val-sheffield{at}uiowa.edu; FAX 319–335–7588.
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Article published on-line before print: Genome Res., 10.1101/gr.151601.
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Article and publication are at www.genome.org/cgi/doi/10.1101/gr.151601.
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- Received June 8, 2000.
- Accepted December 8, 2000.
- Cold Spring Harbor Laboratory Press
