ABS68264

GenoGrass: a low cost, high throughput genotyping platform for perennial ryegrass.


  • Poster Presentation
  • Poster 5 (Flash Talk: 11 Jun 2018 14:44)
  • Foyer, UCD Agriculture and food science Centre
  • View all IPSAM abstracts

Niamh Curran*
Teagasc, Crop Science Department, Oak Park, Carlow
Department of Botany, School of Natural Sciences, Trinity College Dublin

Susanne Barth
Teagasc, Crop Science Department, Oak Park, Carlow

Trevor Hodkinson
Department of Botany, School of Natural Sciences, Trinity College Dublin

Stephen Byrne
Teagasc, Crop Science Department, Oak Park, Carlow

Dan Milbourne
Teagasc, Crop Science Department, Oak Park, Carlow

*Presenting Author


Sequence based methods for surveying single nucleotide polymorphisms (SNPs) have a wide set of applications in perennial ryegrass breeding and genetics. Genotyping by sequencing (GBS) approaches are characterised by the ability to survey thousands of sites, however, some applications (e.g. varietal identification, association mapping with candidate genes) may not require such wide genome coverage, but would benefit from a GBS-based system that allowed the low cost analysis of thousands of samples at hundreds of loci. We are developing a low-cost GBS system for perennial ryegrass based on an approach called genotyping in thousands by sequencing (GT-Seq). The first iteration of this system is designed to interrogate SNPs at ~200 specific loci in the perennial ryegrass genome. Half these loci were identified as being highly predictive for heading date and crown rust resistance in genomic selection experiments involving a population of over 1500 plants. The remaining loci were chosen to provide evenly-spaced genome coverage on the basis of the recently published assembly anchored by the perennial ryegrass genome zipper. We describe the identification of these loci and the subsequent design and testing of a primer set incorporating combinatorial barcodes that allow multiplexing of thousands of samples for PCR and subsequent NGS analysis.