A viral discovery methodology for clinical biopsy samples utilising massively parallel next generation sequencing

Gordon M. Daly; Nick Bexfield; Judith Heaney; Sam Stubbs; Antonia P. Mayer; Anne Palser; Paul Kellam; Nizar Drou; Mario Caccamo; Laurence Tiley; Graeme J.M. Alexander; William Bernal; Jonathan L. Heeney

doi:10.1371/journal.pone.0028879

A viral discovery methodology for clinical biopsy samples utilising massively parallel next generation sequencing

Gordon M. Daly, Nick Bexfield, Judith Heaney, Sam Stubbs, Antonia P. Mayer, Anne Palser, Paul Kellam, Nizar Drou, Mario Caccamo, Laurence Tiley, Graeme J.M. Alexander, William Bernal, Jonathan L. Heeney

Center for Genomics and Systems Biology

Research output: Contribution to journal › Article › peer-review

Abstract

Here we describe a virus discovery protocol for a range of different virus genera, that can be applied to biopsy-sized tissue samples. Our viral enrichment procedure, validated using canine and human liver samples, significantly improves viral read copy number and increases the length of viral contigs that can be generated by de novo assembly. This in turn enables the Illumina next generation sequencing (NGS) platform to be used as an effective tool for viral discovery from tissue samples.

Original language	English (US)
Article number	e28879
Journal	PloS one
Volume	6
Issue number	12
DOIs	https://doi.org/10.1371/journal.pone.0028879
State	Published - Dec 21 2011

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Daly, G. M., Bexfield, N., Heaney, J., Stubbs, S., Mayer, A. P., Palser, A., Kellam, P., Drou, N., Caccamo, M., Tiley, L., Alexander, G. J. M., Bernal, W., & Heeney, J. L. (2011). A viral discovery methodology for clinical biopsy samples utilising massively parallel next generation sequencing. PloS one, 6(12), Article e28879. https://doi.org/10.1371/journal.pone.0028879

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AU - Palser, Anne

AU - Kellam, Paul

AU - Drou, Nizar

AU - Caccamo, Mario

AU - Tiley, Laurence

AU - Alexander, Graeme J.M.

AU - Bernal, William

AU - Heeney, Jonathan L.

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A viral discovery methodology for clinical biopsy samples utilising massively parallel next generation sequencing

Abstract

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