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United States Department of Agriculture

Agricultural Research Service

Title: The Soybean Breeder's Toolbox: a New Resource for Soybean Genetic and Genomic Information

Authors
item Nelson, Rex
item Grant, David
item Shoemaker, Randy

Submitted to: Biennial Conference on Molecular and Cellular Biology of the Soybean
Publication Type: Abstract Only
Publication Acceptance Date: June 27, 2006
Publication Date: August 5, 2006
Citation: Nelson, R., Grant, D.M., Shoemaker, R.C. 2006. The soybean breeder's toolbox: a new resource for soybean genetic and genomic information [abstract]. Biennial Conference on Molecular and Cellular Biology of the Soybean. p. 4.

Technical Abstract: In order to make soybean genetic data more accessible and retrievable, data contained in the current SoyBase AceDB database was converted to a relational database schema. This data is now available through an internet interface titled “The Soybean Breeder’s Toolbox”. The interface was designed to use software developed by the Generic Model Organism (GMOD.org) project and extended by us to deliver functionality that was not readily available through AceDB. Genetic map displays are created using the comparative map viewer, CMap. CMap allows the display and comparison of single or multiple linkage groups. This feature will allow the visualization of homeologous segments shared between linkage groups. Genetic markers and QTL visualized on the various genetic maps are in turn linked back to data in the Toolbox. The Toolbox will allow ad hoc searching as well as pre-defined searches. It is designed to accept specific requests from users accustomed to working with soybean genetic data types such as QTL, molecular markers, germplasms, diseases and gene loci or general requests that will present the user with a list of data types for further exploration. Automated requests will be accepted by direct URL based queries. Facilities will be provided for direct SQL querying of the database. The database will be expanded to include links to external data such as corresponding markers on other legume species’ genetic maps or to the soybean physical map when they become available. A description of the database and representations of the interface will be presented.

Last Modified: 12/19/2014