期刊
VIRUS RESEARCH
卷 191, 期 -, 页码 45-50出版社
ELSEVIER
DOI: 10.1016/j.virusres.2014.07.012
关键词
Andes; Next generation sequencing; Phylogeny; Potato virus X; Small RNAs
类别
资金
- ICGEB-TWAS-UNESCO/IBSP Joint Program on Capacity Buildingin Basic Molecular Biology [CRP/101005]
- EU FP7 through the QBOL project [226482]
- Slovenian Research Agency [L4-5525]
- Slovenian Research Agency
Potato virus X (PVX; genus Potexvirus, family Alphaflexiviridae, order Tymovirales) is one of the most widespread and intensively studied viruses of potato. However, little is known about its diversity in its likely center of radiation, the Andean region of South America. To fill this gap, the strategy of Illumina deep sequencing of small RNAs was used to obtain complete or near complete genome sequence of PVX from 5 symptomatically infected greenhouse and 3 field samples (Solanum tuberosum) from Peru. PVX sequences determined in this study were assigned into three different phylogenetic groups of isolates. Notably, a complete genome sequence of a representative of a new PVX phylogenetic lineage was obtained, which shows a high level of sequence dissimilarity to other completely sequenced isolates (similar to 17%). The new PVX genotype was detected in greenhouse and field samples. One of the field samples was infected with the mixture of two PVX strains, which were efficiently discriminated using small RNA sequencing approach. The study confirms the utility of small RNAs deep sequencing for successful viral strain differentiation and discovery of new viral strains and indicates a high diversity of PVX in the Andean region of South America, a pattern which may be expected also for other potato pathogens. (C) 2014 Elsevier B.V. All rights reserved.
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