GA-20 oxidase as a candidate for the semidwarf gene sdw1/denso in barley

Funct Integr Genomics. 2009 May;9(2):255-62. doi: 10.1007/s10142-009-0120-4. Epub 2009 Mar 12.

Abstract

The barley sdw1/denso gene not only controls plant height but also yield and quality. The sdw1/denso gene was mapped to the long arm of chromosome 3H. Comparative genomic analysis revealed that the sdw1/denso gene was located in the syntenic region of the rice semidwarf gene sd1 on chromosome 1. The sd1 gene encodes a gibberellic acid (GA)-20 oxidase enzyme. The gene ortholog of rice sd1 was isolated from barley using polymerase chain reaction. The barley and rice genes showed a similar gene structure consisting of three exons and two introns. Both genes share 88.3% genomic sequence similarity and 89% amino acid sequence identity. A single nucleotide polymorphism was identified in intron 2 between barley varieties Baudin and AC Metcalfe with Baudin known to contain the denso semidwarf gene. The single nucleotide polymorphism (SNP) marker was mapped to chromosome 3H in a doubled haploid population of Baudin x AC Metcalfe with 178 DH lines. Quantitative trait locus analysis revealed that plant height cosegregated with the SNP. The sdw1/denso gene in barley is the most likely ortholog of the sd1 in rice. The result will facilitate understanding of the molecular mechanism controlling semidwarf phenotype and provide a diagnostic marker for selection of semidwarf gene in barley.

Publication types

  • Comparative Study
  • Research Support, Non-U.S. Gov't

MeSH terms

  • Alleles
  • Base Sequence
  • Chromosome Mapping
  • Chromosomes, Plant / genetics
  • DNA Primers / genetics
  • DNA, Plant / genetics
  • Genes, Plant*
  • Hordeum / enzymology*
  • Hordeum / genetics*
  • Hordeum / growth & development
  • Mixed Function Oxygenases / genetics*
  • Molecular Sequence Data
  • Oryza / enzymology
  • Oryza / genetics
  • Phenotype
  • Polymorphism, Single Nucleotide
  • Quantitative Trait Loci
  • Sequence Homology, Nucleic Acid
  • Species Specificity

Substances

  • DNA Primers
  • DNA, Plant
  • Mixed Function Oxygenases
  • gibberellin, 2-oxoglutarate-oxygen oxidoreductase (20-hydroxylating, oxidizing)