Field-Adapted Full Genome Sequencing of Peste-Des-Petits-Ruminants Virus Using Nanopore Sequencing

Abstract

Peste-des-petits-ruminants virus (PPRV) is currently the focus of a control and eradication program. Full genome sequencing has the opportunity to become a powerful tool in the eradication program by improving molecular epidemiology and the study of viral evolution. PPRV is prevalent in many resource-constrained areas, with long distances to laboratory facilities, which can lack the correct equipment for high-throughput sequencing. Here we present a protocol for near full or full genome sequencing of PPRV. The use of a portable miniPCR and MinION brings the laboratory to the field and in addition makes the production of a full genome possible within 24 h of sampling. The protocol has been successfully used on virus isolates from cell cultures and field isolates from tissue samples of naturally infected goats.

Keywords

peste-des-petits-ruminants virus; eradication; molecular epidemiology; full genome sequencing; MinION; miniPCR

Published in

Frontiers in Veterinary Science
2020, volume: 7, article number: 542724
Publisher: FRONTIERS MEDIA SA

SLU Authors

• Torsson, Emeli

  • Department of Animal Biosciences, Swedish University of Agricultural Sciences
    

• Johansson Wensman, Jonas

  • Department of Clinical Sciences, Swedish University of Agricultural Sciences
    

• Berg, Mikael

  • Department of Animal Biosciences, Swedish University of Agricultural Sciences
    

• Karlsson Lindsjö, Oskar

  • Department of Animal Biosciences, Swedish University of Agricultural Sciences
    

UKÄ Subject classification

Clinical Science

Publication identifier

• DOI: https://doi.org/10.3389/fvets.2020.542724

Permanent link to this page (URI)

https://res.slu.se/id/publ/109307