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United States Department of Agriculture

Agricultural Research Service

Research Project: ALLIUM, CUCUMIS, AND DAUCUS GERMPLASM ENHANCEMENT, GENETICS, AND BIOCHEMISTRY

Location: Vegetable Crops Research Unit

Title: The Development of RoBuST: An integrated genomics resource for the root and bulb crop families Apiaceae and Alliaceae

Authors
item Bhasi, Ashwini -
item Simon, Philipp
item Senalik, Douglas
item Kumar, Brajendra -
item Manikandan, Vinu -
item Philge, Philip -
item Senapathy, Periannan -

Submitted to: Plant and Animal Genome Conference
Publication Type: Abstract Only
Publication Acceptance Date: December 8, 2010
Publication Date: January 15, 2011
Citation: Bhasi, A., Simon, P.W., Senalik, D.A., Kumar, B., Manikandan, V., Philge, P., Senapathy, P. 2011. The Development of RoBuST: An integrated genomics resource for the root and bulb crop families Apiaceae and Alliaceae [abstract]. Plant and Animal Genome Conference. P. 811.

Technical Abstract: Root and bulb vegetables (RBV) include carrots, celeriac, parsnips (Apiaceae), onions, garlic, and leek (Alliaceae) – food crops that are grown globally and consumed worldwide. Few data analysis platforms are currently available where data collection, annotation and integration initiatives are focused on RBV plant groups. The RoBuST database has been developed to initiate a platform for collecting and organizing genomic information useful for RBV researchers. The current release of RoBuST contains genomics data for 294 Alliaceae and 816 Apiaceae plant species and has the following features: (1) comprehensive sequence annotations of 3,663 genes 5,959 RNAs, 22,723 ESTs and 11,438 regulatory sequence elements from Apiaceae and Alliaceae plant families; (2) graphical tools for visualization and analysis of sequence data; (3) access to traits, biosynthetic pathways, genetic linkage maps and molecular taxonomy data associated with Alliaceae and Apiaceae plants; and (4) comprehensive plant splice signal repository of 659,369 splice signals collected from 6,015 plant species for comparative analysis of plant splicing patterns. Scientists working on RBV use genomic data for a wide range of activities including the development of molecular genetic maps, delineation of taxonomic relationships, and investigation of molecular aspects of gene expression in biochemical pathways and disease responses. With genomic data coming from diverse areas of plant science, availability of a community resource focused on these RBV data types would be of great interest to this scientific community. RoBuST, available at http://robust.genome.com, provides an integrated platform for researchers to explore and analyze genomic data associated with root and bulb vegetables.

Last Modified: 8/27/2014
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