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Τίτλος: | Whole genome re-sequencing of sweet cherry (Prunus avium L.) yields insights into genomic diversity of fruit species |
Συγγραφείς: | Xanthopoulou, Aliki Manioudaki, Maria Bazakos, Christos Kissoudis, Christos Farsakoglou, Anna-Maria Karagiannis, Evangelos Michailidis, Michail Polychroniadou, Chrysanthi Zambounis, Antonios Kazantzis, Konstantinos Tsaftaris, Athanasios Madesis, Panagiotis Aravanopoulos, Filippos Molassiotis, Athanassios Ganopoulos, Ioannis |
Θέματα LC: | Genomics Cherry - Varieties |
Λέξεις-Κλειδιά: | Prunus avium L. Sweet cherry cultivars Cherry genotypes SNPs RNA-seq |
Ημερομηνία Έκδοσης: | 1-Μαΐ-2020 |
Εκδότης: | Springer Nature |
Επιτομή: | Sweet cherries, Prunus avium L. (Rosaceae), are gaining importance due to their perenniallity and nutritional attributes beneficial for human health. Interestingly, sweet cherry cultivars exhibit a wide range of phenotypic diversity in important agronomic traits, such as flowering time and defense reactions against pathogens. In this study, whole-genome 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 phenotype. The 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 genotypes. There 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 kb. Functional analysis of the variants showed that the genomic ratio of non-synonymous/synonymous (dN/dS) changes was 1.78. The 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 grafting. The 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 programs. Our 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. |
Έκταση: | 14 pages |
Τύπος: | Journal Article |
Συσχέτιση (Μέρος του): | Horticulture Research journal |
Κατάσταση Δημοσίευσης: | Published |
URI: | https://doi.org/10.1038/s41438-020-0281-9 http://repository.afs.edu.gr/handle/6000/354 |
Αναφορά: | Xanthopoulou, A, Manioudaki, M, Bazakos, C, Kissoudis, C, Farsakoglou, A-M, Karagiannis, E, Michailidis, M, Polychroniadou, C, Zambounis, A, Kazantzis, K, Tsaftaris, A, Madesis, P, Aravanopoulos, F, Molassiotis, A, & Ganopoulos, I 2020, 'Whole genome re-sequencing of sweet cherry (Prunus avium L.) yields insights into genomic diversity of a fruit species', Horticulture Research, vol. 7, no.60, pp. 1-14. |
Δικαιώματα: | Attribution 4.0 International |
Γλώσσα: | en_US |
Εμφανίζεται στις Συλλογές: | Άρθρα σε επιστημονικά περιοδικά |
Αρχεία σε αυτό το Τεκμήριο:
Αρχείο | Περιγραφή | Μέγεθος | Μορφότυπος | |
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Kissoudis_Whole-genome-re-sequencing-of-sweet-cherry_2020.pdf | 2.51 MB | Adobe PDF | Προβολή/Ανοιγμα |
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