GLASA, Miroslav; HANČINSKÝ, Richard; ŠOLTYS, Katarína; PREDAJŇA, Lukáš; TOMAŠECHOVÁ, Jana; HAUPTVOGEL, Pavol; MRKVOVÁ, Michaela; MIHÁLIK, Daniel; CANDRESSE, Thierry

doi:10.3390/plants10040753

Métadonnées

Afficher la notice complète

Licence d’utilisation du document

GLASA, Miroslav
Slovak Academy of Science [Bratislava] [SAS]
Ss. Cyril and Methodius University in Skopje [UKIM]

HANČINSKÝ, Richard
Ss. Cyril and Methodius University in Skopje [UKIM]

ŠOLTYS, Katarína
Comenius University in Bratislava

Langue

Article de revue

Ce document a été publié dans

Plants. 2021, vol. 10, n° 4, p. 753

MDPI

Résumé en anglais

In recent years, high throughput sequencing (HTS) has brought new possibilities to the study of the diversity and complexity of plant viromes. Mixed infection of a single plant with several viruses is frequently observed in such studies. We analyzed the virome of 10 tomato and sweet pepper samples from Slovakia, all showing the presence of potato virus Y (PVY) infection. Most datasets allow the determination of the nearly complete sequence of a single-variant PVY genome, belonging to one of the PVY recombinant strains (N-Wi, NTNa, or NTNb). However, in three to-mato samples (T1, T40, and T62) the presence of N-type and O-type sequences spanning the same genome region was documented, indicative of mixed infections involving different PVY strains variants, hampering the automated assembly of PVY genomes present in the sample. The N- and O-type in silico data were further confirmed by specific RT-PCR assays targeting UTR-P1 and NIa genomic parts. Although full genomes could not be de novo assembled directly in this situation, their deep coverage by relatively long paired reads allowed their manual re-assembly using very stringent mapping parameters. These results highlight the complexity of PVY infection of some host plants and the challenges that can be met when trying to precisely identify the PVY isolates involved in mixed infection< Réduire

Mots clés

virus phytopathogène

virologie végétale

santé des plantes

pathologie végétale

Mots clés en anglais

Genome Mapping

next generation sequencing

potyvirus

PVY

Solanaceae