Plant & Animal Genomes XI Conference

January 11-15, 2003
Town & Country Convention Center
San Diego, CA

Poster: Genome Sequencing & ESTs
            

ANALYSES OF 110,981 BARLEY ESTS - A GLIMPSE OF THE BARLEY GENOME

¹ Institut für Pflanzengenetik und Kulturpflanzenforschung (IPK), Correnstraße 2, D-06466 Gatersleben, Germany

² MIPS/IBI, Institut für Bioinformatik, GSF Forschungzentrum für Umwelt und Gesundheit, D-85764 Neuherberg, Germany

To provide resources for barley transcript mapping and production of a unigene array for functional genomic studies, 110,981 barley ESTs (expressed sequence tags) were generated from 20 cDNA libraries at IPK. These EST data also provide an opportunity to get a glimpse of the genome of barley, a model plant for Triticeae genome analysis. StackPack clustering of the 110,981 barley ESTs resulted in 14,151 consensi and 11,375 singletons. Out of the 25,526 tentative consensi (TCs), 17.5% showed no significant similarity to the barley ESTs present in dbEST (NCBI) with BLASTN E > e-5. 26.1% of the TCs could be functionally classified. 132 TCs contained more than five EST members from only one library and thus were assumed to be library specific, 55 of them belong to well-characterized genes. Comparative analyses confirmed extensively the already documented conservations of gene content and order between the barley and rice genomes. 66% of the barley TCs could be assigned to rice genome (indica, BGI data) with BLASTN E < e-20, and 66.8% showed homology to predicted rice genes present at TIGR rice database (BLASTX E < e-6). Out of 332 barley EST-derived markers showing homology to rice ESTs (BLASTN E < e-20, identity > 80%), 152 (45.8%) were mapped to a syntenic position of rice. More detailed results from comparative data mining among barley, rice and Arabidopsis thaliana will be presented on the poster.