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GrainGenes Marker Report: HVM40

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Locus	HVM40
Type	Microsatellite
Synonym	Correct name HVM040 Synonym HVM40
Chromosome	4 (4H) 4H
Chromosome Arm	4HS
Map	Barley-consensus-2003-4H 6 [ Show all 26 ]
	[ Show Nearby Loci ]
QTL with Locus Marker	QAa.HaMo-4H [ Show all 15 ]
Map Data	[ Hide all but 1 of 26 ] Barley consensus 2003 Barley, Abiotic QTL Consensus Barley, Agronomic QTL Consensus Barley, AxHs/QTL Barley, Cali-sib x BowmanBC, QTL Barley, Consensus 2005, SNP Barley, Consensus 2006, DArT Barley, Consensus 2006, Marcel Barley, Consensus 2007, SSR Barley, Consensus 2023, FHB Barley, FxS, FHB QTL Barley, HN x H602, Sato2009 Barley, HxM/QTL Barley, Integrated, Marcel 2009 Barley, L94 x Vada, 2006 Barley, Lx41 Barley, LxHs Barley, OWB Barley, OWB, 2004 Barley, OWB, 2005 Barley, OWB, OPA2008 Barley, OWB, SNP Barley, Steptoe x Morex, SNP Barley, TxE Barley, Vada x SusPtrit Barley, Zhedar2, FHB QTL
Species	Hordeum vulgare Hordeum vulgare subsp. spontaneum
Probe	HVM40 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	Sato K et al. (2009) A high-density transcript linkage map of barley derived from a single population. Heredity 103:110-117. [ Show all 7 ]
Data Source	Langridge, Peter J.
Remark	Number of populations contributing to the placement of HVM40 in the Barley, Consensus 2006 DArT maps = 5 [ Show all 8 ]
Probe	HVM40
Locus	HVM40 [ Show all 6 ]
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 repeats (GA)6, (GT)4, and (GA)7.
Type	PCR SSR
PCR primers	5' CGATTCCCCTTTTCCCAC 3' 5' ATTCTCCGCCGTCCACTC 3' CGATTCCCCTTTTCCCAC ATTCTCCGCCGTCCACTC
SSR size	0.160
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.