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Viral metagenomics approaches for high-resolution screening of multiplexed arthropod and plant viral communities

François S., Filloux D., Fernandez E., Ogliastro M., Roumagnac P.. 2018. In : Pantaleo Vitantonio (ed.), Chiumenti Michela (ed.). Viral metagenomics: methods and protocols. New York : Humana Press, p. 77-95. (Methods in Molecular Biology, 1746).

DOI: 10.1007/978-1-4939-7683-6_7

Viral metagenomic approaches have become essential for culture-independent and sequence-independent viral detection and characterization. This chapter describes an accurate and efficient approach to (1) concentrate viral particles from arthropods and plants, (2) remove contaminating non-encapsidated nucleic acids, (3) extract and amplify both viral DNA and RNA, and (4) analyze high-throughput sequencing (HTS) data by bioinformatics. Using this approach, up to 96 arthropod or plant samples can be multiplexed in a single HTS library.

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