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Research article - Peer-reviewed, 2020

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

Torsson, Emeli; Kgotlele, Tebogo; Misinzo, Gerald; Johansson Wensman, Jonas; Berg, Mikael; Karlsson Lindsjo, Oskar

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

Authors' information

Torsson, Emeli
Swedish University of Agricultural Sciences, Department of Biomedical Science and Veterinary Public Health
Kgotlele, Tebogo
Sokoine University of Agriculture
Misinzo, Gerald
Sokoine University of Agriculture
Swedish University of Agricultural Sciences, Department of Clinical Sciences
Karlsson Lindsjö, Oskar
Swedish University of Agricultural Sciences, Department of Animal Breeding and Genetics

UKÄ Subject classification

Clinical Science

Publication Identifiers

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

URI (permanent link to this page)

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