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wFleaBase


NAR Molecular Biology Database Collection entry number 925
Gilbert, D.G. and Colbourne, J.K.
Genome Informatics Lab, Department of Biology, Indiana University, Bloomington, IN 47405, USA

Database Description

wFleaBase (http://wfleabase.org/) This database has been providing genome researchers with rapid usable access to the ecological-genetic model organism Daphnia pulex (a fresh-water crustacean of world distribution, widely used in research on ecology, environmental toxicology, and evolution) since 2003. With the recent publication of Daphnia pulex genome, this new arthropod genome provides an important evolutionary midpoint between insect and nematode genomes. wFleaBase includes genome annotations with model organism genes, gene predictions, reagant and marker sequences (EST, cDNA, microsatellite). Multiple genome assemblies from JAZZ, Arachne and PCAP assemblers are being validated to provide a best assembly, with close matching to genetic (recombination) map evidence. Tools of the Generic Model Organism Database project are used to develop this database, including Chado database schema, GBrowse and CMap genome maps, BioMart data mining and BLAST genome searches.

Acknowledgements

This project is supported in part by grants from the National Human Genome Research Institute of the National Institutes of Health to D. Gilbert. National Science Foundation TeraGrid access grant provided computing resources.

References

1. Colbourne JK, Singan VR, Gilbert DG. wFleaBase: the Daphnia genome database. BMC Bioinformatics. 2005, 6:45 (http://www.biomedcentral.com/1471-2105/6/45).


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