Tagging the dwarfing gene Ddw1 in a rye population derived from doubled haploid parents

• Published in: Euphytica 2010-04, Vol.172 (3), p.303-312
• Main Authors: Tenhola-Roininen, Teija, Tanhuanpää, Pirjo
• Format: Article
• Language: English
• Subjects: Agronomy. Soil science and plant productions; alleles; Amylases; Analysis; beta-amylase; Biological and medical sciences; Biomedical and Life Sciences; Biotechnology; breeding lines; Classical and quantitative genetics. Population genetics. Molecular genetics; dominant genes; doubled haploids; dwarf cultivars; Ethylenediaminetetraacetic acid; Flowers & plants; Fundamental and applied biological sciences. Psychology; gene segregation; gene tagging; Generalities. Genetics. Plant material; Genes; Genetic aspects; genetic markers; Genetics and breeding of economic plants; Haploidy, in vitro culture applications, somatic hybrids; heterozygosity; Life Sciences; Lodging; microsatellite repeats; Molecular genetics; molecular sequence data; plant breeding; Plant breeding: fundamental aspects and methodology; Plant Genetics and Genomics; Plant growth; Plant Pathology; Plant Physiology; Plant Sciences; polymerase chain reaction; Quantitative genetics; rye; Secale cereale; single nucleotide polymorphism; Single nucleotide polymorphisms; Varietal selection. Specialized plant breeding, plant breeding aims
• ISSN: 0014-2336; 1573-5060
• DOI: 10.1007/s10681-009-9982-8

To prevent lodging and sprouting damage in rye, a dominant dwarfing gene, Ddw1, has been incorporated into breeding lines to reduce plant height in Finland. However, the inability to identify heterozygous plants makes it difficult to purify breeding lines. Doubled haploidy (EM-1 × Voima) and bulked segregant analysis were used to search for an efficient PCR-based tool to identify homozygous short plants. In addition, SNP (single nucleotide polymorphism) markers were created from the endosperm-specific β-amylase gene and the microsatellite locus REMS1218 expressed in rye and known to be located near Ddw1. The best marker was a combination of the microsatellite REMS1218 and the SNP created from it, located 13 cM from the QTL corresponding to Ddw1. However, for a rye breeder, the SNP alone is an adequate tool to identify plants homozygous for the EM-1 allele and it can be used in selection for the desirable growth habit in rye.