Plant & Animal Genomes XI Conference

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

Poster: Genome Sequencing & ESTs
            

THE ACWW RICE GENOME SEQUENCING CONSORTIUM: SEQUENCING THE SHORT ARMS OF CHROMOSOMES 3 AND 10

¹ Arizona Genomics Institute, University of Arizona, Tucson, AZ, 85721, USA

² Cold Spring Harbor Lita Anneberg Hazen Genome Sequencing Center, Cold Spring Harbor, NY, 11724, USA

³ Washington University Genome Sequencing Center, St. Louis, MO, 63108, USA

⁴ Arizona Genomics Computational Laboratory, University of Arizona, Tucson, AZ, 85721, USA

The objectives of the ACWW Rice Genome Sequencing Consortium funded¹ in October 1999 are to sequence and annotate the short arms of rice chromosomes 3 and 10. As a framework for rice genome sequencing, AGI provided standard materials and resources to the IRGSP (International Rice Genome Sequencing Program) and rice research community to accelerate rice genome sequencing and positional cloning. The framework consists of four components; 1) two deep coverage BAC libraries², 2) a STC database³, 3) a fingerprint database³ and 4) a genome anchoring database³. From October 1999, ACWW focused on sequencing the short arms of chr 3 and 10 using clone by clone shotgun strategy. A total of 81 minimum tiling BACs genetically spanning 0-32cM was completely finished and annotated on chr10 and 27 small insert genomic clones (10kb library) were sequenced to fill gaps between finished BACs. Due to the highly heterochromatic nature of chr10, this region contains 7 physical gaps of an average 90kb in length based on FISH analysis. Chromosome wide sequence analyses are underway. For chromosome 3, a total of 121 minimum tiling BACs were selected for sequencing spanning a 0-6.5cM region and have been submitted to Genbank as phase II sequence or higher as part of the IRGSP 10X BAC-by-BAC draft announced in December. Currently, ACWW generated more than 27Mb of rice draft sequences and deposit over 20Mb of finished sequences into Genbank. Our rice sequencing and finishing strategy, status and sequence analysis results will be presented. Funded by ¹ USDA/NSF/DOE Rice genome sequencing program ² Rockefeller Foundation and ³ Novartis