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Whole genome re-sequencing of sweet cherry(Prunus avium L.)yields insights into genomic diversity of a fruit species

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Horticulture Research 2020年第1期7卷 1889-1902页

作者： Aliki Xanthopoulou maria Manioudaki Christos Bazakos Christos Kissoudis anna-maria farsakoglou Evangelos Karagiannis Michail Michailidis Chrysanthi Polychroniadou Antonios Zambounis Konstantinos Kazantzis Athanasios Tsaftaris Panagiotis Madesis Filippos Aravanopoulos Athanassios Molassiotis Ioannis Ganopoulos Laboratory of Pomology Department of AgricultureAristotle University of Thessaloniki54124 ThessalonikiGreece Institute of Plant Breeding and Genetic Resources ELGO-DEMETER.ThermiThessaloniki 570001Greece Perrotis College American Farm SchoolThessaloniki GR-57001Greece Laboratory of Forest Genetics&Tree Breeding Faculty of AgricultureForestry&Environmental ScienceAristotle University of ThessalonikiThessalonikiGreece Institute of Plant Breeding and Genetic Resources ELGO-DEMETER.Department of Deciduous Fruit GrowingNaoussa 59035Greece Institute of Applied Biosciences CERTHThermiThessaloniki 57001Greece

Sweet cherries,Prunus avium L.(Rosaceae),are gaining importance due to their perenniallity and nutritional attributes beneficial for human ***,sweet cherry cultivars exhibit a wide range of phenotypic diversity in important agronomic traits,such as flowering time and defense reactions against *** this study,wholegenome resequencing(WGRS)was employed to characterize genetic variation,population structure and allelic variants in a panel of 20 sweet cherry and one wild cherry genotypes,embodying the majority of cultivated Greek germplasm and a representative of a local wild cherry elite *** 21 genotypes were sequenced in an average depth of coverage of 33.91×.and effective mapping depth,to the genomic reference sequence of‘Satonishiki’cultivar,between 22.21×to 36.62×.Discriminant analysis of principal components(DAPC)with SNPs revealed two clusters of *** was a rapid linkage disequilibrium decay,as the majority of SNP pairs with r2 in near complete disequilibrium(>0.8)were found at physical distances less than 10 *** analysis of the variants showed that the genomic ratio of non-synonymous/synonymous(dN/dS)changes was *** higher dN frequency in the Greek cohort of sweet cherry could be the result of artificial selection pressure imposed by breeding,in combination with the vegetative propagation of domesticated cultivars through *** majority of SNPs with high impact(e.g.,stop codon gaining,frameshift),were identified in genes involved in flowering time,dormancy and defense reactions against pathogens,providing promising resources for future breeding *** study has established the foundation for further large scale characterization of sweet cherry germplasm,enabling breeders to incorporate diverse germplasm and allelic variants to fine tune flowering and maturity time and disease resistance in sweet cherry cultivars.

关键词： breeding sweet insight

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