P0182 Mass Genotyping by Sequencing Technology

John D Curry , Eureka Genomics, Hercules, CA
Amanda K. Lindholm-Perry , USDA, ARS, U.S. Meat Animal Research Center, Clay Center, NE
Maria Shin , Eureka Genomics, Hercules, CA
JingTao Liu , Eureka Genomics, Houston, TX
Nadeem Bulsara , Eureka Genomics, Houston, TX
Paul Dier , Eureka Genomics, Hercules, CA
R. Mark Thallman , USDA, ARS, U.S. Meat Animal Research Center, Clay Center, NE
Viacheslav Y. Fofanov , Eureka Genomics, Houston, TX
Heather Koshinsky , Eureka Genomics, Hercules, CA
Large scale genotyping of a moderate number of loci is cost prohibitive with current chip-based technologies.  We demonstrate the ability to use next generation sequencing technologies to genotype many DNA samples for a moderate number of loci – a mass genotyping by sequencing technology (MGST).  Our MGST uses barcodes contained within probes as well as barcodes added by PCR to prepare a highly multiplexed library suitable for sequencing on the Illumina platforms.  The cost per sample is highly competitive and will permit the routine genotyping of a moderate number of loci on a large number of samples. In six separate MGST experiments, with 24 loci on 24 to 96 B. taurus samples we have obtained 96% to 100% concordance with genotype data previously identified using the Illumina BovineSNP50 bead chip.  In another MGST experiment with a different set of 54 loci on 96 B. taurus samples, we achieved 96% concordance.  We are currently testing probe panels with 113 separate loci. USDA is an equal opportunity provider and employer.