W162 The Citrus Genome Database: A Community Resource for Citrus Research

Date: Saturday, January 14, 2012
Time: 2:10 PM
Room: Pacific Salon 1
Dorrie Main , Washington State University
Ping Zheng , Washington State University
Stephen Ficklin , Washington State University, Pullman, WA
Taein Lee , Washington State University
Sook Jung , Washington State University
Fred G. Gmitter , University of Florida - CREC, Lake Alfred, FL
Chunxian Chen , University of Florida, IFAS-CREC, Lake Alfred, FL
Albert G. Abbott , Department of Genetics and Biochemistry, Clemson University, Clemson, SC
Lukas Mueller , Boyces Thompson Institute for Plant Research, Ithaca, NY
Citrus Genome Database (http://www.citrusgenomedb.org/) is funded though the 2009 USDA Specialty Crop Research Initiative project, tree fruit Genome Database Resources (tfGDR), with  the goal of building the genomics, genetics and breeding resources for Citrus community. Citrus Genome Database contains annotated data of whole genome sequences of haploid <i>Citrus clementina</i> (Clementine) and <i>Citrus sinensis</i> (sweet orange). It also contains an annotated EST database of three species, <i>Citrus clementina</i>, <i>Citrus sinensis</i> and <i>Poncirus trifoliata</i>. The ESTs are assembled into unigene sets for each species. The predicted genes of the whole genome sequences and the unigenes are annotated by homologous genes in other species, InterPro protein domains, GO terms and KEGG pathway terms, providing a glimpse of the pathways and traits in which they are involved. The annotated sequence data can be browsed through species page or queried using various categories in the search sites. The whole genome sequences can also be accessed through GBrowse, a graphic genome browser. Curation effort for the genetic data is underway and some genetic maps are available through CMap, comparative map viewer. Citrus Genome Database also provides online analysis tools such as Blast server for the Citrus datasets, a sequence assembly server and microsatellite detection tools.