Identification of Pyrus single nucleotide polymorphisms (SNPs) and evaluation for genetic mapping in European pear and interspecific Pyrus hybrids
2013
MONTANARI , Sara (INRA , BEAUCOUZE (France). UMR 1345 Institut de Recherche en Horticulture et Semences) | Saeed , Munazza (New Zealand Institute for Plant & Food Research LimitedMassey University, Palmerston NorthPalmerston North(Nouvelle Zélande). Palmerston North Res CtrInst Food Nutr & Human Hlth) | Knaebel , Mareike (New Zealand Institute for Plant & Food Research LimitedUniversity of Auckland, Palmerston NorthAuckland 1(Nouvelle Zélande). Palmerston North Res CtrSch Biol Sci) | Kim , YoonKyeong (Pear Res Stn, Naju(Corée (République)). Natl Inst Hort & Herbal Sci) | Troggio , Michela (Fdn Edmund Mach, IASMA Research and Innovation Centre, San Michele All Adige, Trento(Italie).) | Malnoy , Mickael (Fdn Edmund Mach, IASMA Research and Innovation Centre, San Michele All Adige, Trento(Italie).) | Velasco , Riccardo (Fdn Edmund Mach, IASMA Research and Innovation Centre, San Michele All Adige, Trento(Italie).) | Fontana , Paolo (Fdn Edmund Mach, IASMA Research and Innovation Centre, San Michele All Adige, Trento(Italie).) | Won , KyungHo (Pear Res Stn, Naju(Corée (République)). Natl Inst Hort & Herbal Sci) | Durel , Charles Eric (INRA , BEAUCOUZE (France). UMR 1345 Institut de Recherche en Horticulture et Semences) | Perchepied , Laure (INRA , BEAUCOUZE (France). UMR 1345 Institut de Recherche en Horticulture et Semences) | Schaffer , Robert (University of AucklandDSIR, Auckland 1Auckland(Nouvelle Zélande). Sch Biol SciMt Albert Res Ctr) | Wiedow , Claudia (New Zealand Institute for Plant & Food Research Limited, Palmerston North(Nouvelle Zélande). Palmerston North Res Ctr) | Bus , Vincent (Hawkes Bay Res Ctr, Havelock North(Nouvelle Zélande).) | Brewer , Lester (Motueka Res Ctr, Motueka(Nouvelle Zélande).) | Gardiner , Susan E. (New Zealand Institute for Plant & Food Research Limited, Palmerston North(Nouvelle Zélande). Palmerston North Res Ctr) | Crowhurst , Ross N. (DSIR, Auckland(Nouvelle Zélande). Mt Albert Res Ctr) | Chagne , David (New Zealand Institute for Plant & Food Research Limited, Palmerston North(Nouvelle Zélande). Palmerston North Res Ctr)
We have used new generation sequencing (NGS) technologies to identify single nucleotide polymorphism (SNP) markers from three European pear (Pyrus communis L.) cultivars and subsequently developed a subset of 1096 pear SNPs into high throughput markers by combining them with the set of 7692 apple SNPs on the IRSC apple Infinium (R) II 8K array. We then evaluated this apple and pear Infinium (R) II 9K SNP array for large-scale genotyping in pear across several species, using both pear and apple SNPs. The segregating populations employed for array validation included a segregating population of European pear ('Old Home' x 'Louise Bon Jersey') and four interspecific breeding families derived from Asian (P. pyrifolia Nakai and P. bretschneideri Rehd.) and European pear pedigrees. In total, we mapped 857 polymorphic pear markers to construct the first SNP-based genetic maps for pear, comprising 78% of the total pear SNPs included in the array. In addition, 1031 SNP markers derived from apple (13% of the total apple SNPs included in the array) were polymorphic and were mapped in one or more of the pear populations. These results are the first to demonstrate SNP transferability across the genera Malus and Pyrus. Our construction of high density SNP-based and gene-based genetic maps in pear represents an important step towards the identification of chromosomal regions associated with a range of horticultural characters, such as pest and disease resistance, orchard yield and fruit quality.
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