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Vol. 9, Issue 4, 334-347, April 1999

A Genetic Linkage Map for Zebrafish: Comparative Analysis and Localization of Genes and Expressed Sequences

Michael A. Gates,1,3 Lisa Kim,1 Elizabeth S. Egan,1 Timothy Cardozo,1 Howard I. Sirotkin,1,3 Scott T. Dougan,1,3 Deval Lashkari,2 Ruben Abagyan,1 Alexander F. Schier,1 and William S. Talbot1,3,4

1 Skirball Institute of Biomolecular Medicine and Department of Cell Biology, New York University Medical Center, New York, New York 10016 USA; 2 Stanford DNA Sequencing and Technology Center, Palo Alto, California 94305 USA

Genetic screens in zebrafish (Danio rerio) have isolated mutations in hundreds of genes with essential functions. To facilitate the identification of candidate genes for these mutations, we have genetically mapped 104 genes and expressed sequence tags by scoring single-strand conformational polymorphisms in a panel of haploid siblings. To integrate this map with existing genetic maps, we also scored 275 previously mapped genes, microsatellites, and sequence-tagged sites in the same haploid panel. Systematic phylogenetic analysis defined likely mammalian orthologs of mapped zebrafish genes, and comparison of map positions in zebrafish and mammals identified significant conservation of synteny. This comparative analysis also identified pairs of zebrafish genes that appear to be orthologous to single mammalian genes, suggesting that these genes arose in a genome duplication that occurred in the teleost lineage after the divergence of fish and mammal ancestors. This comparative map analysis will be useful in predicting the locations of zebrafish genes from mammalian gene maps and in understanding the evolution of the vertebrate genome.

3   Present address: Department of Developmental Biology, Stanford University School of Medicine, Stanford, California 94305 USA.
4   Corresponding author.

9:334-347 ©1999 by Cold Spring Harbor Laboratory Press  ISSN 1088-9051/99 $5.00
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