Genotyping by sequencing in almond : SNP discovery, linkage mapping, and marker sesign
Goonetilleke, Shashi N. (The University of Adelaide. School of Agriculture, Food and Wine)
March, Timothy J. (The University of Adelaide. School of Agriculture, Food and Wine)
Wirthensohn, Michelle (The University of Adelaide. School of Agriculture, Food and Wine)
Arús i Gorina, Pere (Centre de Recerca en Agrigenòmica)
Walker, Amanda R. (The University of Adelaide. School of Agriculture, Food and Wine)
Mather, Diane E. (The University of Adelaide. School of Agriculture, Food and Wine)

Data:	2017
Resum:	In crop plant genetics, linkage maps provide the basis for the mapping of loci that affect important traits and for the selection of markers to be applied in crop improvement. In outcrossing species such as almond (Prunus dulcis Mill. D. A. Webb), application of a double pseudotestcross mapping approach to the F progeny of a biparental cross leads to the construction of a linkage map for each parent. Here, we report on the application of genotyping by sequencing to discover and map single nucleotide polymorphisms in the almond cultivars "Nonpareil" and "Lauranne. " Allele-specific marker assays were developed for 309 tag pairs. Application of these assays to 231 Nonpareil × Lauranne F progeny provided robust linkage maps for each parent. Analysis of phenotypic data for shell hardness demonstrated the utility of these maps for quantitative trait locus mapping. Comparison of these maps to the peach genome assembly confirmed high synteny and collinearity between the peach and almond genomes. The marker assays were applied to progeny from several other Nonpareil crosses, providing the basis for a composite linkage map of Nonpareil. Applications of the assays to a panel of almond clones and a panel of rootstocks used for almond production demonstrated the broad applicability of the markers and provide subsets of markers that could be used to discriminate among accessions. The sequence-based linkage maps and single nucleotide polymorphism assays presented here could be useful resources for the genetic analysis and genetic improvement of almond.
Ajuts:	Ministerio de Economía y Competitividad AGL2015-68329-R Ministerio de Economía y Competitividad SEV-2015-0533
Drets:	Aquest document està subjecte a una llicència d'ús Creative Commons. Es permet la reproducció total o parcial, la distribució, la comunicació pública de l'obra i la creació d'obres derivades, fins i tot amb finalitats comercials, sempre i quan es reconegui l'autoria de l'obra original.
Llengua:	Anglès
Document:	Article ; recerca ; Versió publicada
Matèria:	Prunus dulcis ; Single nucleotide polymorphisms ; Allele-specific molecular markers ; Composite linkage map ; Shell hardness
Publicat a:	G3, Vol. 8, issue 1 (Jan. 2018) , p. 161-172, ISSN 2160-1836

DOI: 10.1534/g3.117.300376
PMID: 29141988

12 p, 2.3 MB

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