Next Article in Journal
Ranaviruses Bind Cells from Different Species through Interaction with Heparan Sulfate
Previous Article in Journal
Storage-Dependent Generation of Potent Anti-ZIKV Activity in Human Breast Milk
Article Menu

Export Article

Open AccessCommunication

High-Throughput Sequencing Assists Studies in Genomic Variability and Epidemiology of Little Cherry Virus 1 and 2 infecting Prunus spp. in Belgium

1
Plant Sciences, Fisheries and Food (ILVO), Flanders Research Institute for Agriculture, 9820 Merelbeke, Belgium
2
Department of Integrated and Urban Phytopathology, University of Liège (ULg) - Gembloux Agro-Bio tech, 5030 Gembloux, Belgium
3
Department of Zoology, Proefcentrum Fruitteelt (pcfruit), 3800 Sint-Truiden, Belgium
*
Author to whom correspondence should be addressed.
Viruses 2019, 11(7), 592; https://doi.org/10.3390/v11070592
Received: 17 May 2019 / Revised: 20 June 2019 / Accepted: 28 June 2019 / Published: 29 June 2019
(This article belongs to the Special Issue Plant Virus Epidemiology and Control)
  |  
PDF [1848 KB, uploaded 29 June 2019]
  |  

Abstract

Little cherry disease, caused by little cherry virus 1 (LChV-1) and little cherry virus 2 (LChV-2), which are both members of the family Closteroviridae, severely affects sweet (Prunus avium L.) and sour cherry (P. cerasus L.) orchards lifelong production worldwide. An intensive survey was conducted across different geographic regions of Belgium to study the disease presence on these perennial woody plants and related species. Symptomatic as well as non-symptomatic Prunus spp. trees tested positive via RT-PCR for LChV-1 and -2 in single or mixed infections, with a slightly higher incidence for LChV-1. Both viruses were widespread and highly prevalent in nearly all Prunus production areas as well as in private gardens and urban lane trees. The genetic diversity of Belgian LChV-1 and -2 isolates was assessed by Sanger sequencing of partial genomic regions. A total RNA High-Throughput Sequencing (HTS) approach confirmed the presence of both viruses, and revealed the occurrence of other Prunus-associated viruses, namely cherry virus A (CVA), prune dwarf virus (PDV) and prunus virus F (PrVF). The phylogenetic inference from full-length genomes revealed well-defined evolutionary phylogroups with high genetic variability and diversity for LChV-1 and LChV-2 Belgian isolates, yet with little or no correlation with planting area or cultivated varieties. The global diversity and the prevalence in horticultural areas of LChV-1 and -2 variants, in association with other recently described fruit tree viruses, are of particular concern. Future epidemiological implications as well as new investigation avenues are exhaustively discussed. View Full-Text
Keywords: Closteroviridae; Ampelovirus; Velarivirus; genetic variability; HTS; total RNA; fruit trees and plant viruses; molecular evolution; RNA virus phylogeny Closteroviridae; Ampelovirus; Velarivirus; genetic variability; HTS; total RNA; fruit trees and plant viruses; molecular evolution; RNA virus phylogeny
Figures

Figure 1

This is an open access article distributed under the Creative Commons Attribution License which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited (CC BY 4.0).

Supplementary material

SciFeed

Share & Cite This Article

MDPI and ACS Style

Tahzima, R.; Foucart, Y.; Peusens, G.; Beliën, T.; Massart, S.; De Jonghe, K. High-Throughput Sequencing Assists Studies in Genomic Variability and Epidemiology of Little Cherry Virus 1 and 2 infecting Prunus spp. in Belgium. Viruses 2019, 11, 592.

Show more citation formats Show less citations formats

Note that from the first issue of 2016, MDPI journals use article numbers instead of page numbers. See further details here.

Related Articles

Article Metrics

Article Access Statistics

1

Comments

[Return to top]
Viruses EISSN 1999-4915 Published by MDPI AG, Basel, Switzerland RSS E-Mail Table of Contents Alert
Back to Top