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Published on: March 11, 2020
Twist-ONT: Combining nanopore sequencing with the twist comprehensive viral research panel
Jonathan Haars1, Tomas Cumlin2, Claes Ladenvall3
1Department of Medical Sciences, Uppsala University, Akademiska Sjukhuset Entrance 40 Floor 5, 751 85, Uppsala, Sweden; Clinical Microbiology, Uppsala University Hospital, Dag Hammarskjölds Väg 38, 752 37, Uppsala, Sweden.
Abstract:
The Twist Comprehensive Viral Research Panel (Twist CVRP) is a probe-based hybridization capture enrichment method for whole-genome sequencing, designed to target all known pathogenic viruses. Unlike shotgun metagenomics, where human DNA dominates, this method enriches for viral sequences within samples. This study presents a novel protocol called Twist-ONT, integrating Twist CVRP with Oxford Nanopore Technologies (ONT) long-read sequencing. Using clinical nasopharyngeal/throat swab and plasma samples PCR-positive for a variety of different viruses, the protocol's capability for viral species classification was demonstrated. It is also shown how high-quality whole-genome assemblies and consensus sequences can be generated from the sequencing reads of this protocol. This protocol facilitates further studies into the viromes of clinical samples and viral genomics in general using ONT sequencing.
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