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Metagenomic arbovirus detection using MinION nanopore sequencing

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journal contribution
posted on 05.01.2021, 02:32 by Jana Batovska, Stacey E Lynch, Brendan Rodoni, Tim Sawbridge, Noel Cogan
© 2017 The Authors

With its small size and low cost, the hand-held MinION sequencer is a powerful tool for in-field surveillance. Using a metagenomic approach, it allows non-targeted detection of viruses in a sample within a few hours. This study aimed to determine the ability of the MinION to metagenomically detect and characterise a virus from an infected mosquito. RNA was extracted from an Aedes notoscriptus mosquito infected with Ross River virus (RRV), converted into cDNA and sequenced on the MinION. Bioinformatic analysis of the MinION reads led to detection of full-length RRV, with reads of up to 2.5 kb contributing to the assembly. The cDNA was also sequenced on the MiSeq sequencer, and both platforms recovered the RRV genome with >98% accuracy. This proof of concept study demonstrates the metagenomic detection of an arbovirus, using the MinION, directly from a mosquito with minimal sample purification.

Funding

Biosciences Research Innovation Fund Program

Department of Economic Development, Jobs, Transport and Resources

History

Publication Date

01/01/2017

Journal

Journal of Virological Methods

Volume

249

Pagination

6p. (p. 79-84)

Publisher

Elsevier

ISSN

0166-0934

Rights Statement

The Author reserves all moral rights over the deposited text and must be credited if any re-use occurs. Documents deposited in OPAL are the Open Access versions of outputs published elsewhere. Changes resulting from the publishing process may therefore not be reflected in this document. The final published version may be obtained via the publisher’s DOI. Please note that additional copyright and access restrictions may apply to the published version.

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