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PVSP: A new potato virus S lineage infecting Solanum phureja in Colombia

Mauricio Marin: Universidad Nacional de Colombia

<div><em>Solanum phureja</em> is an exotic potato crop produced in Andean countries that has a very good export potential due to its organoleptic and nutritional properties. Unfortunately, this crop is seriously affected by a variety of fungi and several uncharacterized viral diseases. In order to have a better understanding of the viruses infecting <em>S. phureja</em> in Colombia, a High-throughput sequencing study using the Illumina HiSeq-2000, was performed in plants showing symptoms of viral infection in Antioquia. Bioinformatic analysis revealed infection by a potato virus S (PVS) strain with low nucleotide sequence identity at the whole genome level (81-82%) with respect to the Andean (PVS<sup>A</sup>) and Ordinary (PVS<sup>O</sup>) lineages. Assembly of this novel PVS isolate, resulted in a genome sequence of 8483 nt (excluding 3’ poly-A tail) containing six ORFs encoding proteins RdRp, 25K, 12K, CP, 7K and 11K. Sanger sequencing and phylogenetic analyses revealed that the PVS strain infecting <em>S. phureja</em> forms a distinct clade differentiated from the PVS<sup>O</sup>, PVS<sup>A</sup> and PVS recombinants. We propose the name PVS<sup>P </sup>for this new lineage in reference to the host <em>S. phureja.</em> Finally, primers for real-time RT-PCR detection of PVS<sup>P</sup> were designed using the complete genome as reference. Primers were validated in 15 tuber samples and 15 leaf samples revealing infection levels of 86.6% and 60%, respectively. These results highlight the importance of updating current <em>S. phureja</em> seed-certification programs in Colombia.</div>