99855 Optimization of SNP Identification By the Genotyping-By-Sequencing (GBS) in Polyploid Zoysiagrass.

Poster Number 168-1631

See more from this Division: C05 Turfgrass Science
See more from this Session: Turfgrass Breeding, Genetics and Molecular Techniques Poster (includes student competition)

Monday, November 7, 2016
Phoenix Convention Center North, Exhibit Hall CDE

Xingwang Yu1, Jeffrey C Dunne2, Helen McCamy Pruitt1, Susana R. Milla-Lewis1 and Brian M. Schwartz3, (1)Crop Science, North Carolina State University, Raleigh, NC
(2)101 Derieux Place, North Carolina State University, Raleigh, NC
(3)Department of Crop and Soil Sciences, University of Georgia - Tifton, Tifton, GA
Abstract:
Single nucleotide polymorphisms (SNPs) have become a popular genetic marker in marker-assisted selection breeding. Genotyping-by-sequencing (GBS) provides a rapid and low-cost tool for SNP discovery and genotyping of breeding populations. However, SNP identification in polyploid crops is more challenging due to increased genome complexity. In this study, the GBS SNP-Calling Reference Optional Pipeline (GBS-SNP-CROP) was used to call SNPs from a GBS library of tetraploid zoysiagrass. The library was constructed for 174 F1 progeny and two parental lines (cultivars ‘Meyer’ and ‘Victoria’). The published genome sequence of zoysiagrass (Z. japonica Steud) was used as reference genome. After optimization of depth-based genotyping criteria and population-level filters, GBS-SNP-CROP called 1,292 potential SNPs (average read depth = 9.0). All SNPs were mapped to 20 chromosomes and at least 50% individuals were genotyped. This investigation provides guidance for determining the most suitable SNP calling approach for polyploid Zoysiagrass.

See more from this Division: C05 Turfgrass Science
See more from this Session: Turfgrass Breeding, Genetics and Molecular Techniques Poster (includes student competition)