An early RADseq effort in barley shows the power of the technology to align with existing genomics resources and extend those resources with sequence-based RADseq SNP markers.

Customer: Oregon State University – Barley Research team

Dr. Patrick Hayes, Professor/Associate Head – Barley breeding and products at Oregon State University connected with Floragenex as an early access customer. Dr. Hayes and his team chose Floragenex as a research partner for improving the existing genetic map in the Oregon Wolfe Barleys (OWB), a well-characterized research population with a robust existing genetic map.

Customer Goals

• Expand the current genetic map for OWB with sequence based RAD markers.
• Evaluate RAD based sequencing in comparison to other SNP development and genotyping systems used by others in the field.
• Obtain RAD based sequence information that can be used as a reference for future trait mapping and other genomic studies.

Floragenex Sequencing/Bioinformatics

RADseq libraries were prepared for a 93 member doubled haploid population. Sequencing for this project used Illumina 36 bp chemistry, and the bioinformatics analysis used Floragenex bioinformatics pipeline for RADseq assembly and variant detection to produce 445 unique RAD SNPs. The RAD SNPs identified were distributed across the entire barley genome, across all 7 chromosomes and originating from coding and non-coding regions of the genome.

Published results from this effort are available here:

http://www.biomedcentral.com/1471-2164/12/4