The LN54 Radiation Hybrid Map of Zebrafish Expressed Sequences

  1. Neil Hukriede1,7,
  2. Dan Fisher2,7,
  3. Jonathan Epstein1,7,
  4. Lucille Joly3,
  5. Patricia Tellis4,
  6. Yi Zhou5,
  7. Brad Barbazuk2,
  8. Kristine Cox2,
  9. Laura Fenton-Noriega5,
  10. Candace Hersey5,
  11. Jennifer Miles3,
  12. Xiaoming Sheng5,
  13. Anhua Song5,
  14. Rick Waterman2,
  15. Stephen L. Johnson2,
  16. Igor B. Dawid1,
  17. Mario Chevrette4,
  18. Leonard I. Zon5,
  19. John McPherson2, and
  20. Marc Ekker3,6,8
  1. 1Laboratory of Molecular Genetics and Unit of Biological Computation, National Institute of Child Health and Human Development, National Institutes of Health, Bethesda, Maryland 20892, USA; 2Department of Genetics, Washington University Medical School, St. Louis, Missouri 63110, USA; 3Ottawa Hospital Research Institute, the Ottawa Hospital, Ottawa K1Y 4E9, Canada; 4Montreal General Hospital Research Institute and Department of Surgery, McGill University, Montreal H3G 1A4, Canada; 5Howard Hughes Medical Institute and Department of Hematology, Childrens' Hospital, Boston, Massachusetts 02115, USA; and 6Departments of Medicine and of Cellular and Molecular Medicine, University of Ottawa, Ottawa K1Y 4E9, Canada

Abstract

To increase the density of a gene map of the zebrafish, Danio rerio, we have placed 3119 expressed sequence tags (ESTs) and cDNA sequences on the LN54 radiation hybrid (RH) panel. The ESTs and genes mapped here join 748 SSLp markers and 459 previously mapped genes and ESTs, bringing the total number of markers on the LN54 RH panel to 4226. Addition of these new markers brings the total LN54 map size to 14,372 cR, with 118 kb/cR. The distribution of ESTs according to linkage groups shows relatively little variation (minimum, 73; maximum, 201). This observation, combined with a relatively uniform size for zebrafish chromosomes, as previously indicated by karyotyping, indicates that there are no especially gene-rich or gene-poor chromosomes in this species. We developed an algorithm to provide a semiautomatic method for the selection of additional framework markers for the LN54 map. This algorithm increased the total number of framework markers to 1150 and permitted the mapping of a high percentage of sequences that could not be placed on a previous version of the LN54 map. The increased concentration of expressed sequences on the LN54 map of the zebrafish genome will facilitate the molecular characterization of mutations in this species.

Footnotes

  • ↵7 These authors contributed equally to this work.

  • ↵8 Corresponding author.

  • E-MAIL mekker{at}ohri.ca; FAX (613) 761-5036.

  • Article published on-line before print: Genome Res.,10.1101/gr.210601.

  • Article and publication are at http://www.genome.org/cgi/doi/10.1101/gr.210601.

    • Received August 15, 2001.
    • Accepted September 20, 2001.
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  1. Published in Advance November 12, 2001, doi: 10.1101/gr.210601 Genome Res. 11: 2127-2132 Cold Spring Harbor Laboratory Press

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