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- Title
Single Nucleotide Polymorphism Mapping and Alignment of Recombinant Chromosome Substitution Lines in Barley.
- Authors
Sato, Kazuhiro; Close, Timothy J.; Bhat, Prasanna; Muñoz-Amatriaín, María; Muehlbauer, Gary J.
- Abstract
Single nucleotide polymorphism (SNP) genotyping is useful for assessing genetic variation in germplasm collections, genetic map development and detection of alien chromosome substitutions. In this study, a diversity analysis using 1,301 SNPs on a set of 37 barley accessions was conducted. This analysis showed a high polymorphism rate between the malting barley cultivar ‘Haruna Nijo’ and the food barley cultivar ‘Akashinriki’. Haruna Nijo and Akashinriki are donors of the barley expressed sequence tag (EST) collections. A doubled haploid (DH) population derived from the cross between Haruna Nijo and Akashinriki was genotyped with 1,448 SNPs. Of these 1,448 SNPs, 734 were polymorphic and distributed on barley linkage groups (chromosomes) as follows: 1H (86), 2H (125), 3H (120), 4H (100), 5H (127), 6H (88) and 7H (88). By using cMAP, we integrated the SNP markers across high-density maps. The SNPs were also used to genotype 98 BC3F4 recombinant chromosome substitution lines (RCSLs) developed from the same cross (Haruna Nijo/Akashinriki). These data were used to create graphical genotypes for each line and thus estimate the location, extent and total number of introgressions from Akashinriki in the Haruna Nijo background. The 35 selected RCSLs sample most of the Akashinriki food barley genome, with only a few missing segments. These resources bring new alleles into the malting barley gene pool from food barley.
- Subjects
BARLEY genetics; BARLEY varieties; GENETIC polymorphisms; PLANT gene mapping; PLANT chromosomes; PLANT species diversity; GENE frequency; CHROMOSOME substitution; PLANTS
- Publication
Plant & Cell Physiology, 2011, Vol 52, Issue 5, p728
- ISSN
0032-0781
- Publication type
Article
- DOI
10.1093/pcp/pcr024