Detection and molecular characterisation of Grapevine Syrah virus-1 isolates from Central Europe.
Grapevine Syrah virus-1 (GSyV-1) was identified by small-RNA deep sequencing in Slovak grapevine co-infected by several other viruses. The RT-PCR assays developed in this work substantially improved the virus detection and allowed the identification of GSyV-1 in tested grapevine samples from Slovakia and the Czech Republic at an unexpectedly high rate (ca. 30 %). Subsequently, complete genome sequences of 3 GSyV-1 isolates (2 Slovak and 1 Czech) were determined by Sanger sequencing, showing a typical marafivirus genome organization. Analyses of complete genome sequences showed a higher intra-group diversity among these 3 central European GSyV-1 isolates (differences reaching 7.1 % at the nucleotide level) in comparison to 3 previously characterized North American isolates (only 1.2 % intra-group divergence). A substantially higher divergence among central European isolates and their clustering into two major phylogenetic groups was further confirmed by the partial genome analysis of additional 26 isolates. The CP-centered study did not support the geography-based clustering among central European and American isolates. Nevertheless, the sequence data of the highly variable 5'-proximal portion of the genome obtained for few additional isolates from Slovakia and Czech Republic showed the presence of both, "European-" and "north American-like", GSyV-1 isolates in the analyzed grapevine samples.
Department of Plant Virology, Institute of Virology, Slovak Academy of Sciences, Dúbravská cesta 9, 84505, Bratislava, Slovakia, Miroslav.Glasa@savba.sk.
Miroslav
M
Glasa
Lukáš
L
Predajňa
Katarína
K
Šoltys
Sead
S
Sabanadzovic
Antonio
A
Olmos
D016000:Cluster Analysis; D018153:Czech Republic; D023061:Gene Order; D014644:Genetic Variation; D016679:Genome, Viral; D008969:Molecular Sequence Data; D010802:Phylogeny; D012367:RNA, Viral / Q000235:genetics*; D017422:Sequence Analysis, DNA; D012689:Sequence Homology, Nucleic Acid; D018154:Slovakia; D046830:Tymoviridae / Q000145:classification* / Q000235:genetics / Q000302:isolation & purification*; D027843:Vitis / Q000821:virology
D012367:RNA, Viral