Item talk:Q240000
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{
"USGS Publications Warehouse": { "@context": "https://schema.org", "@type": "Article", "additionalType": "Journal Article", "name": "Relative abundance of deformed wing virus, Varroa destructor virus 1, and their recombinants in honey bees (Apis mellifera) assessed by kmer analysis of public RNA-Seq data", "identifier": [ { "@type": "PropertyValue", "propertyID": "USGS Publications Warehouse IndexID", "value": "70194203", "url": "https://pubs.usgs.gov/publication/70194203" }, { "@type": "PropertyValue", "propertyID": "USGS Publications Warehouse Internal ID", "value": 70194203 }, { "@type": "PropertyValue", "propertyID": "DOI", "value": "10.1016/j.jip.2017.07.005", "url": "https://doi.org/10.1016/j.jip.2017.07.005" } ], "journal": { "@type": "Periodical", "name": "Journal of Invertebrate Pathology", "volumeNumber": "149", "issueNumber": null }, "inLanguage": "en", "isPartOf": [ { "@type": "CreativeWorkSeries", "name": "Journal of Invertebrate Pathology" } ], "datePublished": "2017", "dateModified": "2017-11-17", "abstract": "Deformed wing virus (DWV) is a major pathogen of concern to apiculture, and recent reports have indicated the local predominance and potential virulence of recombinants between DWV and a related virus, Varroa destructor virus 1 (VDV). However, little is known about the frequency and titer of VDV and recombinants relative to DWV generally. In this study, I assessed the relative occurrence and titer of DWV and VDV in public RNA-seq accessions of honey bee using a rapid, kmer-based approach. Three recombinant types were detectable graphically and corroborated by\u00a0de novo\u00a0assembly. Recombination breakpoints did not disrupt the capsid-encoding region, consistent with previous reports, and both VDV- and DWV-derived capsids were observed in recombinant backgrounds. High abundance of VDV kmers was largely restricted to recombinant forms. Non-metric multidimensional scaling identified genotypic clusters among DWV isolates, which was corroborated by read mapping and consensus generation. The recently described DWV-C lineage was not detected in the searched accessions. 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