Sequencing

11th Annual Sequencing, Finishing, and Analysis in the Future Meeting
DEEP RNA SEQUENCING OF BRASSICA RAPA RIL
POPULATION FOR SNP DISCOVERY, GENETIC MAP
CONSTRUCTION, EQTL ANALYSIS, AND GENOME
IMPROVEMENT
Friday, 3rd June 15:20 La Fonda Ballroom Talk (OS‐9.05)
Mike Covington 1 , RJ Cody Markelz 2 , Upendra Kumar Devisetty 3 ,
Marcus Brock 4 , Cynthia Weinig 4 , Julin Maloof 2
1 University of California, Davis Amaryllis Nucleics, 2 University of California, Davis,
3 University of Arizona, 4 University of Wyoming
Here we describe deep RNA sequencing, high‐density SNP discovery, and genetic map construction for a
recombinant inbred line population derived from the Brassica rapa accessions R500 and IMB211. We
demonstrate how this new resource is a significant improvement for QTL analysis over the current lowdensity
genetic map. We also use the genotype data from the population to detect and remedy putative
genome misassemblies and to assign scaffold sequences to their likely genomic locations. These
improvements to the assembly represent 7.1‐8.0% of the annotated Brassica rapa genome.
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