A radiation hybrid map of the zebrafish genome

Robert Geisler, Gerd Jörg Rauch, Herwig Baier, Frauke Van Bebber, Linda Broß, Marcus P.S. Dekens, Karin Finger, Cornelia Fricke, Michael A. Gates, Horst Geiger, Silke Geiger-Rudolph, Darren Gilmour, Stefanie Glaser, Lara Gnügge, Hinrich Habeck, Katy Hingst, Scott Holley, Jeremy Keenan, Anette Kirn, Holger KnautDeval Lashkari, Florian Maderspacher, Ulrike Martyn, Stephan Neuhauss, Carl Neumann, Teresa Nicolson, Francisco Pelegri, Russell Ray, Jens M. Rick, Henry Roehl, Tobias Roeser, Heike E. Schauerte, Alexander F. Schier, Ulrike Schönberger, Helia Berrit Schönthaler, Stefan Schulte-Merker, Catrin Seydler, William S. Talbot, Christian Weiler, Christiane Nüsslein-Volhard, Pascal Haffter

Research output: Contribution to journalArticle

219 Scopus citations

Abstract

Recent large-scale mutagenesis screens have made the zebrafish the first vertebrate organism to allow a forward genetic approach to the discovery of developmental control genes. Mutations can be cloned positionally, or placed on a simple sequence length polymorphism (SSLP) map to match them with mapped candidate genes and expressed sequence tags (ESTs). To facilitate the mapping of candidate genes and to increase the density of markers available for positional cloning, we have created a radiation hybrid (RH) map of the zebrafish genome. This technique is based on somatic cell hybrid lines produced by fusion of lethally irradiated cells of the species of interest with a rodent cell line. Random fragments of the donor chromosomes are integrated into recipient chromosomes or retained as separate minichromosomes. The radiation-induced breakpoints can be used for mapping in a manner analogous to genetic mapping, but at higher resolution and without a need for polymorphism. Genome-wide maps exist for the human, based on three RH panels of different resolutions, as well as for the dog, rat and mouse. For our map of the zebrafish genome, we used an existing RH panel and 1,451 sequence tagged site (STS) markers, including SSLPs, cloned candidate genes and ESTs. Of these, 1,275 (87.9%) have significant linkage to at least one other marker. The fraction of ESTs with significant linkage, which can be used as an estimate of map coverage, is 81.9%. We found the average marker retention frequency to be 18.4%. One cR3000 is equivalent to 61 kb, resulting in a potential resolution of approximately 350 kb.

Original languageEnglish (US)
Pages (from-to)86-89
Number of pages4
JournalNature genetics
Volume23
Issue number1
DOIs
StatePublished - Sep 1999

ASJC Scopus subject areas

  • Genetics

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    Geisler, R., Rauch, G. J., Baier, H., Van Bebber, F., Broß, L., Dekens, M. P. S., Finger, K., Fricke, C., Gates, M. A., Geiger, H., Geiger-Rudolph, S., Gilmour, D., Glaser, S., Gnügge, L., Habeck, H., Hingst, K., Holley, S., Keenan, J., Kirn, A., ... Haffter, P. (1999). A radiation hybrid map of the zebrafish genome. Nature genetics, 23(1), 86-89. https://doi.org/10.1038/12692