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WU - Zebrafish Genome Resources

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 resources, including EST sequences and EST assemblies, mapped genes and ESTs, radiation hybrid and mieotic maps, a repeat masker, and inbred strains of zebrafish (funded by NIH DK55739, 1998-2004). Various links below lead to these resources. Our current genome 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. Open the Tol2 link below to see examples of expression patterns and insertion site information.


Tol2 Gene and Enhancer Traps

Tol2 gene list

ESTs and WZ Assemblies

WUZGR Integrated map
Download RepeatMasker library of zebrafish repeats
Download all EST Assemblies
ESTs by sequencing plate - Quality Control links

Meiotic Maps

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

Now available from ZIRC: sjA(AB) | sjC(C32) | sjD
Polymorphisms between sjA, sjC, and sjD

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

Protocols

Protocal for producing RNA probes from cDNA
Inverse PCR protocal for for PAC-end sequencing

Links

ZFin Gene Database at University of Oregon
ZIRC - Zebrafish International Resource Center (stocks)
Sanger Center Zebrafish Genome Project
ZGC NIH Zebrafish Gene Collection
Zon Lab - Children's Hospital, Boston (T51 RH Map)
Tuebingen (T51 RH Map)
Z markers - Massachusetts General Hospital
SSR marker development from zebrafish sequence (Ian Drummond, MGH)
SL Johnson Zebrafish Lab, Department of Genetics, WashU
WU-GSC Genome Sequencing Center


Last Updated: 2/2007
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