Author: Niccolo Alfano; Anisha Dayaram; Jan Axtner; Kyriakos Tsangaras; Marie-Louise Kampmann; Azlan Mohamed; Seth Timothy Wong; M. Thomas P. Gilbert; Andreas Wilting; Alex Daivd Greenwood
Title: Non-invasive surveys of mammalian viruses using environmental DNA Document date: 2020_3_29
ID: nil1vv6h_19
Snippet: PCR based approaches, as used in earlier studies to detect pathogens from flies [5, 24] or, under laboratory conditions, in medicinal leeches [8] , require prior knowledge about the expected pathogens in the samples. The unknown viral diversity in the wild, and the potential degradation of viral nucleic acids in bloodmeals or in the environment, may affect detection by PCR resulting in high false negative rates. RNA oligonucleotide based hybridiz.....
Document: PCR based approaches, as used in earlier studies to detect pathogens from flies [5, 24] or, under laboratory conditions, in medicinal leeches [8] , require prior knowledge about the expected pathogens in the samples. The unknown viral diversity in the wild, and the potential degradation of viral nucleic acids in bloodmeals or in the environment, may affect detection by PCR resulting in high false negative rates. RNA oligonucleotide based hybridization capture overcomes such limitations because the short baits can capture divergent and degraded DNA. The comprehensive viral group representation in the RNA bait set also allows for the determination of both viral presence and viral diversity with a relatively simple workflow. The ability of oligonucleotides with substantial divergence from the target sequence to capture more distantly related sequences is particularly useful in virology since most viruses are uncharacterized in wildlife and many evolve rapidly.
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