Genotyping by RAD sequencing enables mapping of fatty acid composition traits in perennial ryegrass (Lolium perenne (L.))

Matthew John Hegarty, Rattan Singh Yadav, Michael Richard Lee, Ian Peter Armstead, Ruth Sanderson, Nigel David Scollan, Wayne Powell, Leif Skøt

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Perennial ryegrass (Lolium perenne L.) is the most important forage crop in temperate livestock agriculture. Its nutritional quality has significant impact on the quality of meat and milk for human consumption. Evidence suggests that higher energy content in forage can assist in reducing greenhouse gas emissions from ruminants. Increasing the fatty acid content (especially α-linolenic acid, an omega-3 fatty acid) may thus contribute to better forage, but little is known about the genetic basis of variation for this trait. To this end, quantitative trait loci (QTLs) were identified associated with major fatty acid content in perennial ryegrass using a population derived from a cross between the heterozygous and outbreeding high-sugar grass variety AberMagic and an older variety, Aurora. A genetic map with 434 restriction-associated DNA (RAD) and SSR markers was generated. Significant QTLs for the content of palmitic (C16:0) on linkage groups (LGs) 2 and 7; stearic (C18:0) on LGs 3, 4 and 7; linoleic (C18:2n-6) on LGs 2 and 5; and α-linolenic acids (C18:3n-3) on LG 1 were identified. Two candidate genes (a lipase and a beta-ketoacyl CoA synthase), both associated with C16:0, and separately with C18:2n-6 and C18:0 contents, were identified. The physical positions of these genes in rice and their genetic positions in perennial ryegrass were consistent with established syntenic relationships between these two species. Validation of these associations is required, but the utility of RAD markers for rapid generation of genetic maps and QTL analysis has been demonstrated for fatty acid composition in a global forage crop.
Original languageEnglish
Pages (from-to)572–581
Number of pages10
JournalPlant Biotechnology Journal
Issue number5
Early online date18 Jan 2013
Publication statusPublished - 17 May 2013


  • Fatty acids
  • lipids
  • perennial ryegrass (Lolium perenne)
  • mapping
  • quantitative trait loci
  • restriction-associated DNA
  • Quantitative trait loci
  • Perennial ryegrass (Lolium perenne)
  • Restriction-associated DNA
  • Lipids
  • Mapping
  • Lolium/genetics
  • Humans
  • Molecular Sequence Data
  • Restriction Mapping
  • Lod Score
  • Microsatellite Repeats/genetics
  • Statistics, Nonparametric
  • Plant Proteins/chemistry
  • Amino Acid Sequence
  • Fatty Acids/metabolism
  • Genetic Association Studies
  • Quantitative Trait, Heritable
  • DNA, Plant/genetics
  • Chromosome Mapping
  • Genetic Markers
  • Sequence Analysis, DNA
  • Phenotype
  • Quantitative Trait Loci/genetics
  • Genotyping Techniques/methods
  • Crosses, Genetic


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