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Molecular characterization of barley 3H semi-dwarf genes.

Li H, Chen G, Yan W - PLoS ONE (2015)

Bottom Line: Markers co-segregating with the QTL were developed from the sequence of the HvBRI1 gene and were validated in the 'TX9425'/'Franklin' DH population.The other major dwarfing QTL derived from the Franklin variety was distally located on chromosome 3HL and co-segregated with the sdw1 diagnostic marker hv20ox2.These results improve our understanding of the genetic mechanisms controlling semi-dwarf stature in barley and provide diagnostic markers for the selection of semi-dwarfness in barley breeding programs.

View Article: PubMed Central - PubMed

Affiliation: Tasmanian Institute of Agricultural Research and School of Agricultural Science, University of Tasmania, Hobart, Australia; CSIRO Agriculture Flagship, Queensland Bioscience Precinct, St Lucia, Queensland, Australia; Bioscience Research Division, Department of Environment and Primary Industries, Horsham, Victoria, Australia.

ABSTRACT
The barley chromosome 3H accommodates many semi-dwarfing genes. To characterize these genes, the two-rowed semi-dwarf Chinese barley landrace 'TX9425' was crossed with the Australian barley variety 'Franklin' to generate a doubled haploid (DH) population, and major QTLs controlling plant height have been identified in our previous study. The major QTL derived from 'TX9425' was targeted to investigate the allelism of the semi-dwarf gene uzu in barley. Twelve sets of near-isogenic lines and a large NILF2 fine mapping population segregating only for the dwarfing gene from 'TX9425' were developed. The semi-dwarfing gene in 'TX9425' was located within a 2.8 cM region close to the centromere on chromosome 3H by fine mapping. Molecular cloning and sequence analyses showed that the 'TX9425'-derived allele contained a single nucleotide substitution from A to G at position 2612 of the HvBRI1 gene. This was apparently the same mutation as that reported in six-rowed uzu barley. Markers co-segregating with the QTL were developed from the sequence of the HvBRI1 gene and were validated in the 'TX9425'/'Franklin' DH population. The other major dwarfing QTL derived from the Franklin variety was distally located on chromosome 3HL and co-segregated with the sdw1 diagnostic marker hv20ox2. A third dwarfing gene, expressed only in winter-sown trials, was identified and located on chromosome 3HS. The effects and interactions of these dwarfing genes under different growing conditions are discussed. These results improve our understanding of the genetic mechanisms controlling semi-dwarf stature in barley and provide diagnostic markers for the selection of semi-dwarfness in barley breeding programs.

No MeSH data available.


Related in: MedlinePlus

Sequences of the HvBRI1 homologs cloned from tall and dwarf NIL lines segregating only for the ‘TX9425’ semi-dwarfing locus.The comparison of the sequences identified the single base pair mutation from A to G at site 2612.
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pone.0120558.g004: Sequences of the HvBRI1 homologs cloned from tall and dwarf NIL lines segregating only for the ‘TX9425’ semi-dwarfing locus.The comparison of the sequences identified the single base pair mutation from A to G at site 2612.

Mentions: It has been reported that the uzu phenotype observed in six-rowed barley may be caused by single-nucleotide substitution (A to G) at position 2612 of HvBRI1 [9]. To determine whether the semi-dwarf gene from ‘TX9425’ has one or several mutations in the HvBRI1 sequence, a DNA fragment of the same size was amplified by end-to-end PCR from a set of NILs segregating for this locus, and then sequenced (S1 File). Sequence comparisons showed that the HvBRI1 sequences in the tall and dwarf NILs are identical, except for a single nucleotide substitution (A-2612 to G-2612) in the semi-dwarf allele (Fig. 4), which led to the amino acid substitution of His (CAC) to Arg (CGC), as has been reported for the uzu allele in six-rowed barley [9].


Molecular characterization of barley 3H semi-dwarf genes.

Li H, Chen G, Yan W - PLoS ONE (2015)

Sequences of the HvBRI1 homologs cloned from tall and dwarf NIL lines segregating only for the ‘TX9425’ semi-dwarfing locus.The comparison of the sequences identified the single base pair mutation from A to G at site 2612.
© Copyright Policy
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC4380412&req=5

pone.0120558.g004: Sequences of the HvBRI1 homologs cloned from tall and dwarf NIL lines segregating only for the ‘TX9425’ semi-dwarfing locus.The comparison of the sequences identified the single base pair mutation from A to G at site 2612.
Mentions: It has been reported that the uzu phenotype observed in six-rowed barley may be caused by single-nucleotide substitution (A to G) at position 2612 of HvBRI1 [9]. To determine whether the semi-dwarf gene from ‘TX9425’ has one or several mutations in the HvBRI1 sequence, a DNA fragment of the same size was amplified by end-to-end PCR from a set of NILs segregating for this locus, and then sequenced (S1 File). Sequence comparisons showed that the HvBRI1 sequences in the tall and dwarf NILs are identical, except for a single nucleotide substitution (A-2612 to G-2612) in the semi-dwarf allele (Fig. 4), which led to the amino acid substitution of His (CAC) to Arg (CGC), as has been reported for the uzu allele in six-rowed barley [9].

Bottom Line: Markers co-segregating with the QTL were developed from the sequence of the HvBRI1 gene and were validated in the 'TX9425'/'Franklin' DH population.The other major dwarfing QTL derived from the Franklin variety was distally located on chromosome 3HL and co-segregated with the sdw1 diagnostic marker hv20ox2.These results improve our understanding of the genetic mechanisms controlling semi-dwarf stature in barley and provide diagnostic markers for the selection of semi-dwarfness in barley breeding programs.

View Article: PubMed Central - PubMed

Affiliation: Tasmanian Institute of Agricultural Research and School of Agricultural Science, University of Tasmania, Hobart, Australia; CSIRO Agriculture Flagship, Queensland Bioscience Precinct, St Lucia, Queensland, Australia; Bioscience Research Division, Department of Environment and Primary Industries, Horsham, Victoria, Australia.

ABSTRACT
The barley chromosome 3H accommodates many semi-dwarfing genes. To characterize these genes, the two-rowed semi-dwarf Chinese barley landrace 'TX9425' was crossed with the Australian barley variety 'Franklin' to generate a doubled haploid (DH) population, and major QTLs controlling plant height have been identified in our previous study. The major QTL derived from 'TX9425' was targeted to investigate the allelism of the semi-dwarf gene uzu in barley. Twelve sets of near-isogenic lines and a large NILF2 fine mapping population segregating only for the dwarfing gene from 'TX9425' were developed. The semi-dwarfing gene in 'TX9425' was located within a 2.8 cM region close to the centromere on chromosome 3H by fine mapping. Molecular cloning and sequence analyses showed that the 'TX9425'-derived allele contained a single nucleotide substitution from A to G at position 2612 of the HvBRI1 gene. This was apparently the same mutation as that reported in six-rowed uzu barley. Markers co-segregating with the QTL were developed from the sequence of the HvBRI1 gene and were validated in the 'TX9425'/'Franklin' DH population. The other major dwarfing QTL derived from the Franklin variety was distally located on chromosome 3HL and co-segregated with the sdw1 diagnostic marker hv20ox2. A third dwarfing gene, expressed only in winter-sown trials, was identified and located on chromosome 3HS. The effects and interactions of these dwarfing genes under different growing conditions are discussed. These results improve our understanding of the genetic mechanisms controlling semi-dwarf stature in barley and provide diagnostic markers for the selection of semi-dwarfness in barley breeding programs.

No MeSH data available.


Related in: MedlinePlus