Germplasm collections hold valuable allelic diversity for crop improvement and genetic mapping of complex traits. To gain access to the genetic diversity within the USDA National Small Grain Collection (NSGC), we developed the Barley Recombinant Inbred Diverse Germplasm Population (BRIDG6), a six-row spring barley multiparent population (MPP) with 88 cultivated accessions crossed to a common parent (Rasmusson). The parents were randomly selected from a core subset of the NSGC that represents the genetic diversity of landrace and breeding accessions. In total, we generated 6160 F5 recombinant inbred lines (RILs), with an average of 69 and a range of 37-168 RILs per family, that were genotyped with 7773 SNPs, with an average of 3889 SNPs segregating per family. We detected 23 quantitative trait loci (QTL) associated with flowering time with five QTL found coincident with previously described flowering time genes. A major QTL was detected near the flowering time gene, HvPpd-H1 which affects photoperiod. Haplotype-based analysis of HvPpd-H1 identified private alleles to families of Asian origin conferring both positive and negative effects, providing the first observation of flowering time-related alleles private to Asian accessions. We evaluated several subsampling strategies to determine the effect of sample size on the power of QTL detection, and found that, for flowering time in barley, a sample size .50 families or 3000 individuals results in the highest power for QTL detection. This MPP will be useful for uncovering large and small effect QTL for traits of interest, and identifying and utilizing valuable alleles from the NSGC for barley improvement.
Bibliographical noteFunding Information:
The authors thank Ed Schiefelbein, Guillermo Velasquez, and Karen Beaubien for technical support during population development, field trial management (Minnesota), and genotyping. They also thank Rich Horsley for field data collection in Fargo, ND. This research was supported with funding from the United States Department of Agriculture-National Institute of Food and Agriculture Triticeae Co-ordinated Agricultural Project (USDA-NIFA TCAP), No. 2011-68002-30029 and US National Science Foundation Plant Genome Program grant DBI-1339393.
Copyright © 2019 by the Genetics Society of America
- Flowering time
- Multiparent advanced generation intercross (MAGIC)
- Multiparent mapping population (MPP)
- Multiparental populations