{"accessLevel": "public", "bureauCode": ["010:12"], "contactPoint": {"@type": "vcard:Contact", "fn": "Robert Cornman", "hasEmail": "mailto:rcornman@usgs.gov"}, "description": "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 de novo assembly. 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. The data further highlight the utility of high-throughput sequencing to monitor viral polymorphisms and statistically test biological predictors of titer, and point to the need for consistent methodologies and sampling schemes.", "distribution": [{"@type": "dcat:Distribution", "accessURL": "https://doi.org/10.5066/F7BK1B8P", "description": "Landing page for access to the data", "format": "XML", "mediaType": "application/http", "title": "Digital Data"}, {"@type": "dcat:Distribution", "description": "The metadata original format", "downloadURL": "https://data.usgs.gov/datacatalog/metadata/USGS.59c9633ee4b017cf313f1099.xml", "format": "XML", "mediaType": "text/xml", "title": "Original Metadata"}], "identifier": "http://datainventory.doi.gov/id/dataset/USGS_59c9633ee4b017cf313f1099", "keyword": ["Animal diseases", "Genetic diversity", "USGS:59c9633ee4b017cf313f1099", "Viral diseases", "biota", "farming"], "modified": "2020-08-20T00:00:00Z", "publisher": {"@type": "org:Organization", "name": "U.S. Geological Survey"}, "spatial": "-180.0, -90.0, 180.0, 90.0", "theme": ["geospatial"], "title": "Provenance, classification, and abundance of RNA sequence fragments used to assess virus infections in honey bees, Apis mellifera"}