Registration of the TCAP FAC-WIN6 Barley Panel for Genomewide Association Studies

Abstract

Facultative/winter six‐row malting barley is a distinct elite germplasm pool and a valuable resource that may prove useful in meeting the challenges of climate change. To preserve its diversity and make it accessible to the research and agricultural communities, the Oregon State University and University of Minnesota barley breeding programs are publicly releasing their winter/facultative six‐row malt advanced lines named the TCAP FAC‐WIN6 (MP‐1, NSL 512632 MAP), which also function as a genomewide association studies (GWAS) panel. The FAC‐WIN6 contains 296 lines—180 facultative and 116 winter—selected for disease resistance, malt quality, and general agronomic performance. To date, all lines have data for 6892 single nucleotide polymorphism (SNP) markers and phenotypic data from six experiments (representing 3 yr, eight locations), including traits such as malt quality, disease resistance, nitrogen use efficiency, and winter hardiness. The FAC‐WIN6 is one of 24 barley and wheat mapping panels and populations from the USDA‐ARS Triticeae Coordinated Agricultural Project (TCAP). As such, all of the TCAP FAC‐WIN6 genotypic and phenotypic data can be freely downloaded from the TCAP's online database, T3 (http://triticeaetoolbox.org/barley/). Preliminary GWAS have identified novel loci for wort β‐glucan, low temperature tolerance, and disease resistance. Given these results, the FAC‐WIN6 is a singular resource both for future winter six‐row barley breeding and for identifying and deploying genes for key barley traits in all backgrounds.

TCAP FAC‐WIN6 Elite Barley GWAS Panel QTL. II. Malting Quality QTL in Elite North American Facultative and Winter Six‐Rowed Barley Identified via GWAS

“…Full details of the FAC‐WIN6 panel are summarized in Belcher et al (2015). The full panel has 300 lines, including 260 and 35 lines of advanced breeding selections from the Oregon State University and University of Minnesota breeding programs, respectively.…”

“…Plump grain was measured as percentage kernels (by weight) that stay on a 2.38‐mm × 19.05‐mm sieve, using a Seedburo mechanical seed shaker (Seedburo Equipment Company), measured on a 100‐g sample. The data for heading date, plump grain, and grain protein are, for each trait, a subset of the data from the NUE experiment described in the FAC‐WIN6 germplasm release (Belcher et al, 2015). These three traits were measured on all replications of the checks in the field trial.…”

“…In Malt‐13, seven replications of the primary check and three replications of each secondary check were used for malting. Replicated check plots for the CCRU malting quality assay were used not for adjustment but for quality control and calculation of experimental errors, as reported in Belcher et al (2015).…”

“…Each accession was genotyped for 7203 single‐nucleotide polymorphism (SNP) markers on a custom barley Infinium iSelect 9K Genotyping BeadChip (Illumina; Close et al, 2009). Full genotyping details are described in Belcher et al (2015), and marker data are at T3. All genotyping tissue samples were collected from advanced inbred lines (F 6:7 or later generation).…”

Perspectives on Low Temperature Tolerance and Vernalization Sensitivity in Barley: Prospects for Facultative Growth Habit

“…With the goal of excluding spring accessions that would serve only to confirm the value of alleles at the known major LTT QTLs, a criterion for inclusion in the array was the expectation of some degree of LTT. The largest contributors to the panel were: (1) Oregon State University (OSU) and the University of Minnesota (UM), both United States via the Facwin-6 (Belcher et al, 2015), and (2) the James Hutton Institute (JHI) and the University of Dundee (Scotland, United Kingdom) via the Association Genetics of UK Elite Barley (AGOUEB) (Cockram et al, 2010) and Genomics-Assisted Exploration of Barley Diversity (ExBarDiv) projects (Tondelli et al, 2013).…”