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Published online before print May 21, 1999, 10.1101/gr.9.6.AP1
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Vol. 9, Issue 6, AP1-AP8, June 1999

RESEARCH
A High-Density Integrated Genetic Linkage and Radiation Hybrid Map of the Laboratory Rat

Robert G. Steen,1,8 Anne E. Kwitek-Black,2,8 Christopher Glenn,3,8 Jo Gullings-Handley,2 William Van Etten,1 O. Scott Atkinson,2 Diane Appel,1 Simon Twigger,2 Melanie Muir,1 Tim Mull,2 Mary Granados,2 Mushira Kissebah,2 Kerri Russo,1 Robbin Crane,1 Michael Popp,3 Marc Peden,3 Tara Matise,4 Donna M. Brown,5 Jian Lu,2 Stephen Kingsmore,3 Peter J. Tonellato,2 Steve Rozen,1 Donna Slonim,1 Peter Young,1 Margit Knoblauch,6 Abraham Provoost,7 Detlev Ganten,6 Steven D. Colman,3 Jonathan Rothberg,3 Eric S. Lander,1 and Howard J. Jacob2,9

1 Center for Genome Research, Whitehead Institute for Biomedical Research and Massachusetts Institute of Technology, Cambridge, Massachusetts 02142 USA; 2 Medical College of Wisconsin, Department of Physiology, Laboratory for Genetic Research, Milwaukee, Wisconsin 53226 USA; 3 CuraGen Corporation, New Haven, Connecticut 06511 USA; 4 The Rockefeller University, New York, New York 10021 USA; 5 Research Genetics, Huntsville, Alabama 35801 USA; 6 Max-Delbrück Center for Molecular Medicine, 13125 Berlin-Büch, Germany; 7 Erasmus University, Department of Pediatric Surgery, Rotterdam, The Netherlands

The laboratory rat (Rattus norvegicus) is a key animal model for biomedical research. However, the genetic infrastructure required for connecting phenotype and genotype in the rat is currently incomplete. Here, we report the construction and integration of two genomic maps: a dense genetic linkage map of the rat and the first radiation hybrid (RH) map of the rat. The genetic map was constructed in two F2 intercrosses (SHRSP × BN and FHH × ACI), containing a total of 4736 simple sequence length polymorphism (SSLP) markers. Allele sizes for 4328 of the genetic markers were characterized in 48 of the most commonly used inbred strains. The RH map is a lod >=  3 framework map, including 983 SSLPs, thereby allowing integration with markers on various genetic maps and with markers mapped on the RH panel. Together, the maps provide an integrated reference to >3000 genes and ESTs and >8500 genetic markers (5211 of our SSLPs and >3500 SSLPs developed by other groups). [Bihoreau et al. (1997); James and Tanigami, RHdb (http://www.ebi.ac.uk/RHdb/index.html); Wilder (http://www.nih.gov/niams/scientific/ratgbase); Serikawa et al. (1992); RATMAP server (http://ratmap.gen.gu.se)] RH maps (v. 2.0) have been posted on our web sites at http://goliath.ifrc.mcw.edu/LGR/index.html or http://curatools.curagen.com/ratmap. Both web sites provide an RH mapping server where investigators can localize their own RH vectors relative to this map. The raw data have been deposited in the RHdb database. Taken together, these maps provide the basic tools for rat genomics. The RH map provides the means to rapidly localize genetic markers, genes, and ESTs within the rat genome. These maps provide the basic tools for rat genomics. They will facilitate studies of multifactorial disease and functional genomics, allow construction of physical maps, and provide a scaffold for both directed and large-scale sequencing efforts and comparative genomics in this important experimental organism.

8   These authors contributed equally to this work.
9   Corresponding author.

9:AP1-AP8 ©1999 by Cold Spring Harbor Laboratory Press  ISSN 1088-9051/99 $5.00
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