Location: Plant Genetics Research
Title: Maize Genetics and Genomics Database Authors
Submitted to: Maize Genetics Cooperation Newsletter
Publication Type: Research Notes
Publication Acceptance Date: January 15, 2008
Publication Date: February 1, 2008
Citation: Schaeffer, M.L., Campbell, D.A., Seigfried, T.E., Harper, E.C., Sen, T.Z., Lawrence, C.J. 2008. Maize Genetics and Genomics Database. Maize Genetics Cooperation Newsletter. 82:82-83. Technical Abstract: This report is provided each year to our stakeholders in the maize genetic community. In this report, we describe the five-year plan for MaizeGDB reviewed in early 2008 by the USDA-ARS peer review process and which was developed with inputs from our Working Group and the Allerton 2007 Report (MNL 82:111-117). The primary objective is to integrate new maize genetic and genomic data in the database, specifically: (1) expand mutant and phenotype data and tools; (2) expand structural and genetic map sets, notably integration of the IBM genetic maps with the B73 genome sequence; (3) creation of views that convey the substantial variation in maize genome structure; (4) integration of next-generation genetic maps being generated by the Maize Diversity Project into a genomic view to enable its effective use by plant breeders; (5) provide access to gene models calculated by leading gene structure prediction groups; and (6) compile and make accessible at MaizeGDB this Newsletter. A second objective is to provide community support activities, such as lending help to the community of maize researchers to ensure their data can be made available through MaizeGDB; coordinating annual meetings; and conducting elections and surveys. Data Highlights for 2007 include new generation genetic maps, based on SNP (single nucleotide polymorphism) genotyping from the Maize Diversity Project are in process, and include full documentation (probe details, map scores for 26 mapping populations, and allele information), with links to GRIN, GenBank and Panzea databases. We have customized spreadsheet templates for import of data from the Maize Tilling Project and the Maize Chromatin Project. Similar datasets should be able to use these templates. Outreach has been enhanced with a well-received tutorial to an off-site location.