Genome Tools

Tol2 Enhancer Trap Project

The efficient use of zebrafish to study developmental and physiological processes requires a variety of genomic and genetic tools. Over the years, WashU-Zebrafish Genome Resources has helped to provide many such tools, including EST sequences and EST assemblies, mapped genes and ESTs, radiation hybrid and meiotic maps, a repeat masker, and inbred strains of zebrafish (funded by NIH DK55739, 1998-2004). Our current genomic-scale project is to use our expertise in high-throughput biology and zebrafish genetics, together with the Tol2 gene or enhancer trap system developed by our collaborator on this project, Koichi Kawakami, to generate 500 lines expressing GFP (or other colored fluorescent proteins) in specific cells or tissues, and to identify their insertion sites. These GFP lines can then be used in biological analysis, or as visible genetic markers along chromosomes to aid in mapping experiments or generation of deletions. See the tol2Project page for examples of expression patterns and insertion site information.

Meiotic Maps

Female Meiotic Map (sjC(C32) x sjD haploid panel)

Inbred Lines

Now available from ZIRC:

sjA(AB)

sjC (formerly C32)

sjD

Polymorphisms between sjA, sjC, and sjD

Genomic Tool Publications (PDFs)

LN54 RH Map: Hukriede et al. 1999 | Hukriede et al. 2001

Zebrafish/Human: Barbazuk et al. 2000

Synteny: Zebrafish-Human maps | Human-Zebrafish maps

Inbred Strains: Nechiporuk et al. 1999

Fingerprinted cDNA Library: Clark et al. 2001

Coupled Mutagenesis And Genetic Mapping: Rawls et al. 2002

Fugu ESTs: Clark et al. 2003

Lab Protocols

Protocal for producing RNA probes from cDNA

Inverse PCR protocal for for PAC-end sequencing