Glimpses on the global molecular epidemiology and ethiology of Little cherry Disease using Next generation sequencing

Onderzoeksoutput: Hoofdstuk in Boek/Rapport/CongresprocedureC3: Congres abstract


Over the past decade, cherry production in Europe and Asia has been severely affected by Little cherry disease symptoms. Little cherry disease (LChD) is a worldwide important pathogen of commercial sweet (Prunus avium L.) and sour cherry (Prunus cerasus L.) and occasionally also stone fruit trees (Prunus sp.). During 2014 and 2017, intensive surveys have been conducted to monitor the incidence and spread of LChV-1 and -2 in symptomatic and non-symptomatic host trees, eventually leading to re-evaluate the status of LChV infections in Belgium. Diseased plants display mild leaf symptoms such as premature reddening or bronzing, as well as the development of small fruits, uneven ripening and an insipid taste were observed in many orchards. A total of 306 trees together with international LChV-infected samples were sampled and tested by RT-PCR for the 2 viruses. Both viruses were widely de-tected in individual or mixed infections, with a slightly higher incidence for LChV-2 in samples from sweet and sour cherries. Additionally, both viruses were also found in ornamental Prunus spp. in private gardens and in lane trees. The disease was found to be prevalent in many cherry production areas in nearly all places where cherries are grown. In an attempt to characterize both virus population genetic diversity, the LChV-1 or -2 specific PCR products spanning both open reading frames from the partial RNA-dependent RNA polymerase (RdRp) and Coat Protein (CP) genes, were sequenced and used as markers in a phylogenetic study. Along with published homologous genomic data from other isolates, the genetic diversity of Belgian Little cherry virus (LChV-1 and 2) isolates originating from different hosts and geographic locations was assessed. Phylogenetic analysis revealed well-defined phylogroups with low genetic variability for the Belgian LChV-1 and LChV-2 isolates yet suggesting a long-term establish-ment for both viruses in Belgium. Several of these positive samples, one from LChV-1 and one from LChV-2, were selected for further complementary analysis by high throughput sequencing of siRNAs. De novo assembly was performed using different pipelines, including the automated VirusDetect pipe-line. Analysis confirmed the presence of LChV-1 and LChV-2 in the samples yet revealed the presence of other Prunus viruses including Prune dwarf virus and Cherry virus A. Near full-length LChV1 and LChV-2 genomes were recovered by contig extension and by mapping the Illumina reads on reference genomes. The use of high throughput sequencing as untargeted tool for diagnostics and epidemiolog-ical studies offers new opportunities unravelling the complex etiology of the little cherry disease.
Oorspronkelijke taalEngels
TitelGlimpses on the global molecular epidemiology and ethiology of Little cherry Disease using Next generation sequencing
Aantal pagina’s1
PublicatiestatusGepubliceerd - 22-mei-2018
Evenement70th International Symposium on Crop Protection: ISCP - FBW, UGent, Gent, België
Duur: 22-mei-201822-mei-2018

Dit citeren