Please use this identifier to cite or link to this item: http://hdl.handle.net/2440/60837
Citations
Scopus Web of Science® Altmetric
?
?
Type: Journal article
Title: Discrimination of SNP genotypes associated with complex haplotypes by high resolution melting analysis in almond: implications for improved marker efficiencies
Author: Wu, S.
Franks, T.
Hunt, P.
Wirthensohn, M.
Gibson, J.
Sedgley, M.
Citation: Molecular Breeding, 2010; 25(2):351-357
Publisher: Kluwer Academic Publ
Issue Date: 2010
ISSN: 1380-3743
1572-9788
Statement of
Responsibility: 
Shu-Biao Wu, Tricia K. Franks, Peter Hunt, Michelle G. Wirthensohn, John P. Gibson and Margaret Sedgley
Abstract: Developed recently, high resolution melting (HRM) analysis is an efficient, accurate and inexpensive method for distinguishing DNA polymorphisms. HRM has been used to identify mutations in human genes, and to detect SNPs, INDELs and microsatellites in plants. However, its capacity to discriminate DNA variants in the context of complex haplotypes involving INDEL as well as SNP variants has not been examined until now. In this study, we genotyped an almond (Prunus dulcis (Mill.) D. A. Webb, syn. Prunus amygdalus Batsch) pseudo-testcross mapping population that showed segregation of complex haplotypes associated with CYP79D16 promoter sequence. The 175 bp region in question included a 7 bp INDEL and 3 SNPs, and manifested as three different haplotypes in the parents. Thus, with one homozygous and one heterozygous parent, two relevant genotypes were identified in the mapping population. Although the population displayed monomorphism with respect to the INDEL and one of the SNPs, HRM was sufficiently sensitive to distinguish genotypes on the basis of the two informative SNPs, and the resulting data were used to map CYP79D16 to linkage group 6 of the almond genome. Thus the capacity of HRM to resolve genotypes arising from complex haplotypes has been demonstrated, and this has important implications for the design of efficient HRM markers for various genetic applications including mapping, population studies and biodiversity analyses.
Keywords: High resolution melting analysis (HRM); SNPs; INDELs; Mapping; CYP79; Almond
Rights: © Springer Science+Business Media B.V. 2009
RMID: 0020093611
DOI: 10.1007/s11032-009-9324-5
Grant ID: http://purl.org/au-research/grants/arc/LP0560480
Appears in Collections:Agriculture, Food and Wine publications

Files in This Item:
There are no files associated with this item.


Items in DSpace are protected by copyright, with all rights reserved, unless otherwise indicated.