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GrainGenes Marker Report: HVM65

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Locus	HVM65
Type	Microsatellite
Synonym	Correct name HVM065 Synonym HVM65
Chromosome	6H
Map	Barley-ConsensusFHB-6H 59.92 [ Show all 11 ]
	[ Show Nearby Loci ]
QTL with Locus Marker	MetaQ.FHB_6H_6
Map Data	Barley, Abiotic QTL Consensus [ Show all 11 ]
Species	Hordeum spontaneum Hordeum vulgare
Probe	HVM65 Liu 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	Varshney RK et al. (2007) A high density barley microsatellite consensus map with 775 SSR loci. Theoretical and Applied Genetics 114:1091. Wenzl P et al. (2006) A high-density consensus map of barley linking DArT markers to SSR, RFLP and STS loci and agricultural traits BMC Genomics 7:206. Rostoks 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. Liu 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	[ Hide all but 1 of 8 ] Number of populations contributing to the placement of HVM65 in the Barley, Consensus 2006 DArT maps = 1 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 = L94 x Vada Loci in 'Barley, Consensus 2006, Marcel' mapped in population(s) : L94 x Vada; Oregon Wolfe Dom x Rec Locus in 'Barley, Consensus 2007, SSR' mapped in population(s) : L94 x Vada, Lina x H. spontaneum Insert contains repeat (GA)10 Polymorphic Information Content (PIC) = 0.68 Developing laboratory = VPISU (MA Saghai Maroof)
Probe	HVM65
Locus	HVM65 HVM0065 HVM065
Reference	Hearnden PR et al. (2007) A genetic map of 1,000 SSR and DArT markers in a wide barley cross. Theoretical and Applied Genetics 115:383-391. Varshney RK et al. (2007) A high density barley microsatellite consensus map with 775 SSR loci. Theoretical and Applied Genetics 114:1091. Liu 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	Insert contains repeat (GA)10.
Type	PCR SSR
PCR primers	5' AGACATCCAAAAAATGAACCA 3' 5' TGGTAACTTGTCCCCCAAAG 3' AGACATCCAAAAAATGAACCA TGGTAACTTGTCCCCCAAAG
SSR size	0.129
Amplification Conditions	The 'touchdown' PCR comprised 48 cycles of 94oC for 1 min denaturing and 72oC for 1 min extension. Annealing (30 s) temperatures were progressively decreased by 1oC every second cycle from 64oC to 55oC. Annealing conditions of 1 min at 55oC were maintained during the final 30 cycles. The reaction ended with a 5-min extension at 72oC.
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.