Design of a High Density SNP Genotyping Assay in the Pig Using SNPs Identified and Characterized by Next Generation Sequencing Technology

BACKGROUND: The dissection of complex traits of economic importance to the pig industry requires the availability of a significant number of genetic markers, such as single nucleotide polymorphisms (SNPs). This study was conducted to discover several hundreds of thousands of porcine SNPs using next generation sequencing technologies and use these SNPs, as well as others from different public sources, to design a high-density SNP genotyping assay. METHODOLOGY/PRINCIPAL FINDINGS: A total of 19 reduced representation libraries derived from four swine breeds (Duroc, Landrace, Large White, Pietrain) and a Wild Boar population and three restriction enzymes (AluI, HaeIII and MspI) were sequenced using Illumina's…

• UD
  U.S. Department of Agriculture
• NP
  National Pork Board
• IS
  Iowa State University
• IP
  Iowa Pork Producers Association
• UO
  University of Cambridge
• UD
  Universidade de Lisboa
• CS
  Cooperative State Research, Education, and Extension Service

  Awards: 2008-35205-18864, 2008-35205-04687
• BA
  Biotechnology and Biological Sciences Research Council

  Awards: BBS/E/D/05191130, BB/F021372/1, BB/E010520/2, BB/E010520/1