PCR-Based Markers Diagnostic for Spring and Winter Seasonal Growth Habit in Barley

Toward the ultimate goal of replacing field-based evaluation of seasonal growth habit, we describe the design and validation of a multiplex polymerase chain reaction assay diagnostic for allelic status at the barley (Hordeum vulgare ssp. vulgare L.) vernalization locus, VRN-H1. By assaying for the p...

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Bibliographic Details
Published in:Crop science 2009-03, Vol.49 (2), p.403-410
Main Authors: Cockram, James, Norris, Carol, O'Sullivan, Donal M
Format: Article
Language:English
Subjects:
accuracy
Agronomy. Soil science and plant productions
alleles
Barley
Binding sites
Biological and medical sciences
Environmental conditions
Fundamental and applied biological sciences. Psychology
Genetic diversity
genetic markers
genetic polymorphism
Genetics and breeding of economic plants
growth habit
Haplotypes
Hordeum vulgare
introns
loci
molecular sequence data
plant genetic resources
polymerase chain reaction
Spring
spring barley
transposons
vernalization
Winter
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Summary:Toward the ultimate goal of replacing field-based evaluation of seasonal growth habit, we describe the design and validation of a multiplex polymerase chain reaction assay diagnostic for allelic status at the barley (Hordeum vulgare ssp. vulgare L.) vernalization locus, VRN-H1. By assaying for the presence of all known insertion-deletion polymorphisms thought to be responsible for the difference between spring and winter alleles, this assay directly tests for the presence of functional polymorphism at VRN-H1. Four of the nine previously recognized VRN-H1 haplotypes (including both winter alleles) give unique profiles using this assay. The remaining five spring haplotypes share a single profile, indicative of function-altering deletions spanning, or adjacent to, the putative "vernalization critical" region of intron 1. When used in conjunction with a previously published PCR-based assay diagnostic for alleles at VRN-H2, it was possible to predict growth habit in all the 100 contemporary UK spring and winter lines analyzed in this study. This assay is likely to find application in instances when seasonal growth habit needs to be determined without the time and cost of phenotypic assessment and during marker-assisted selection using conventional and multicross population analysis.
ISSN:0011-183X
1435-0653
DOI:10.2135/cropsci2008.07.0398