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GrainGenes Marker Report: HVM5

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Locus
HVM5
Type
Microsatellite
Synonym
Correct nameHVM005
Other nameHVM05
SynonymHVM005
HVM5
Chromosome
7H
Chromosome Arm
7HL
Map
Hordeum-Consensus2005-SNP-7H149.538
[ Show all 11 ]
[ Show Nearby Loci ]
Map Data
Barley, Abiotic QTL Consensus
[ Show all 11 ]
Species
Hordeum vulgare
Hordeum vulgare subsp. spontaneum
Probe
HVM5
ReferenceLiu Z-W et al. (1996) Development of simple sequence repeat DNA markers and their integration into a barley linkage map. Theoretical and Applied Genetics 93:869-876.
Reference
ReferenceSato K et al. (2009) A high-density transcript linkage map of barley derived from a single population. Heredity 103:110-117.
ReferenceRostoks N et al. (2005) Genome-wide SNP discovery and linkage analysis in barley based on genes responsive to abiotic stress. Molecular Genetics and Genomics 274:515-527.



Probe
HVM5
Locus
HVM5
HVM005
HVM05
Reference
ReferenceLiu Z-W et al. (1996) Development of simple sequence repeat DNA markers and their integration into a barley linkage map. Theoretical and Applied Genetics 93:869-876.
Remarks
Pathogenesis-related protein
Insert contains repeats (GT)6 and (AT)16.
Type
PCR
SSR
PCR primers
5' AACGACGTCGCCACACAC 3'
5' AGGAACGAAGGGAGTATTAAGCAG 3'
SSR size
0.202
Amplification Conditions
PCR comprised one cycle of 94oC for 3 min, 55oC for 2 min, and 72oC for 1.5 min, followed by 30 cycles of 94oC for 1 min, 55oC for 2 min, and 72oC for 1.5 min.
Sequence
X58566
Insert Enzyme
TaqI
Source Species
Hordeum vulgare
Source Germplasm
Old ZZ (barley)
DNA Origin
Size-fractionated genomic library screened with synthetic dinucleotide repeats (CA)10 and (GA)10.
Clone Vector
pGEM-7zf(+)
Vector Enzyme
ClaI
Data Source
Saghai Maroof, M.A.97.01.02



Locus for Probe
HVM005
Type
Microsatellite
Synonym
Other nameHVM5
SynonymHVM5
Chromosome
7H
Map
Hordeum-Bins-7H144.7
Hordeum-Consensus2005-SNP-7H153.113
Hordeum-QTLConsensus-Abiotic-7H153.11
Hordeum-QTLConsensus-Agronomic-7H153.11
Hordeum-StMo-SNP-7H139.4
[ Show Nearby Loci ]
Map Data
Barley, Abiotic QTL Consensus
Barley, Agronomic QTL Consensus
Barley, BinMap 2005
Barley, Consensus 2005, SNP
Barley, Steptoe x Morex, SNP
Probe
HVM5
Reference
ReferenceRostoks N et al. (2005) Genome-wide SNP discovery and linkage analysis in barley based on genes responsive to abiotic stress. Molecular Genetics and Genomics 274:515-527.



Locus for Probe
HVM05
Type
Microsatellite
Synonym
Correct nameHVM5
Chromosome
7H
Map
Hordeum-Consensus2007-SSR-7H148.22
Hordeum-FxS-FHB-QTL-7H210.8
Hv-Consensus2006-Marcel-7H148.22
Hv-Integrated2009-7H148.1
[ Show Nearby Loci ]
Map Data
Barley, Consensus 2006, Marcel
Barley, Consensus 2007, SSR
Barley, FxS, FHB QTL
Barley, Integrated, Marcel 2009
Species
Hordeum spontaneum
Hordeum vulgare
Probe
HVM05
HVM5
Reference
ReferenceVarshney RK et al. (2007) A high density barley microsatellite consensus map with 775 SSR loci. Theoretical and Applied Genetics 114:1091.
ReferenceMesfin A et al. (2003) Quantitative trait loci for fusarium head blight resistance in barley detected in a two-rowed by six-rowed population Crop Science 43:307-318.
ReferenceLiu Z-W et al. (1996) Development of simple sequence repeat DNA markers and their integration into a barley linkage map. Theoretical and Applied Genetics 93:869-876.
Remark
Bin on the 'Barley, Integrated, Marcel 2009' Map Set : 'chromosome_kleinhofs & graner BIN nb.subBIN nb'
Mapping population(s) used for locus placement on the 'Barley, Integrated, Marcel 2009' Map Set = Oregon Wolfe Barleys
Loci in 'Barley, Consensus 2006, Marcel' mapped in population(s) : Oregon Wolfe Dom x Rec
Locus in 'Barley, Consensus 2007, SSR' mapped in population(s) : OWBrecessive x OWBdominant, Lina x H. spontaneum
Developing laboratory = VPISU (MA Saghai Maroof)

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