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

François Sarah, Filloux Denis, Fernandez Emmanuel, Ogliastro Mylène, Roumagnac Philippe. 2018. Viral metagenomics approaches for high-resolution screening of multiplexed arthropod and plant viral communities. In : Viral metagenomics: methods and protocols. Pantaleo Vitantonio (ed.), Chiumenti Michela (ed.). New York : Humana Press, 77-95. (Methods in Molecular Biology, 1746, 1746) ISBN 978-1-4939-7682-9

https://doi.org/10.1007/978-1-4939-7683-6_7

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Résumé : 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.

Classification Agris : H20 - Maladies des plantes

Champ stratégique Cirad : Axe 4 (2014-2018) - Santé des animaux et des plantes

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