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High-throughput sequencing assists studies in genomic variability and epidemiology of little cherry virus 1 and 2 infecting Prunus spp. in Belgium. / Tahzima, Rachid; Foucart, Yoika; Peusens, Gertie; Beliën, Tim; Massart, Sébastien; De Jonghe, Kris.

In: Viruses, Vol. 11, Nr. 592, 592, 29.06.2019, blz. 1-11.

Onderzoeksoutput: Bijdrage aan tijdschriftA1: Web of Science-artikelOnderzoekpeer review

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Tahzima, Rachid ; Foucart, Yoika ; Peusens, Gertie ; Beliën, Tim ; Massart, Sébastien ; De Jonghe, Kris. / High-throughput sequencing assists studies in genomic variability and epidemiology of little cherry virus 1 and 2 infecting Prunus spp. in Belgium. In: Viruses. 2019 ; Vol. 11, Nr. 592. blz. 1-11.

Bibtex

@article{61a89c54d4c14a79af7b6815aca0d18e,
title = "High-throughput sequencing assists studies in genomic variability and epidemiology of little cherry virus 1 and 2 infecting Prunus spp. in Belgium",
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 aects 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.",
keywords = "B390-crop-protection, Virologie",
author = "Rachid Tahzima and Yoika Foucart and Gertie Peusens and Tim Beli{\"e}n and S{\'e}bastien Massart and {De Jonghe}, Kris",
year = "2019",
month = "6",
day = "29",
doi = "doi:10.3390/v11070592",
language = "English",
volume = "11",
pages = "1--11",
journal = "Viruses",
issn = "1999-4915",
publisher = "MDPI AG",
number = "592",

}

RIS

TY - JOUR

T1 - High-throughput sequencing assists studies in genomic variability and epidemiology of little cherry virus 1 and 2 infecting Prunus spp. in Belgium

AU - Tahzima, Rachid

AU - Foucart, Yoika

AU - Peusens, Gertie

AU - Beliën, Tim

AU - Massart, Sébastien

AU - De Jonghe, Kris

PY - 2019/6/29

Y1 - 2019/6/29

N2 - 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 aects 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.

AB - 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 aects 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.

KW - B390-crop-protection

KW - Virologie

U2 - doi:10.3390/v11070592

DO - doi:10.3390/v11070592

M3 - A1: Web of Science-article

VL - 11

SP - 1

EP - 11

JO - Viruses

JF - Viruses

SN - 1999-4915

IS - 592

M1 - 592

ER -