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

Torsson, Emeli and Kgotlele, Tebogo and Misinzo, Gerald and Johansson Wensman, Jonas and Berg, Mikael and Karlsson Lindsjö, Oskar (2020). Field-Adapted Full Genome Sequencing of Peste-Des-Petits-Ruminants Virus Using Nanopore Sequencing. Frontiers in Veterinary Science. 7 , 542724
[Research article]

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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.

Authors/Creators:Torsson, Emeli and Kgotlele, Tebogo and Misinzo, Gerald and Johansson Wensman, Jonas and Berg, Mikael and Karlsson Lindsjö, Oskar
Title:Field-Adapted Full Genome Sequencing of Peste-Des-Petits-Ruminants Virus Using Nanopore Sequencing
Series Name/Journal:Frontiers in Veterinary Science
Year of publishing :2020
Volume:7
Article number:542724
Number of Pages:10
Publisher:FRONTIERS MEDIA SA
ISSN:2297-1769
Language:English
Publication Type:Research article
Article category:Scientific peer reviewed
Version:Published version
Copyright:Creative Commons: Attribution 4.0
Full Text Status:Public
Subjects:(A) Swedish standard research categories 2011 > 4 Agricultural Sciences > 403 Veterinary Science > Clinical Science
Keywords:peste-des-petits-ruminants virus, eradication, molecular epidemiology, full genome sequencing, MinION, miniPCR
URN:NBN:urn:nbn:se:slu:epsilon-p-109307
Permanent URL:
http://urn.kb.se/resolve?urn=urn:nbn:se:slu:epsilon-p-109307
Additional ID:
Type of IDID
DOI10.3389/fvets.2020.542724
Web of Science (WoS)000587373600001
ID Code:19758
Faculty:VH - Faculty of Veterinary Medicine and Animal Science
Department:(VH) > Department of Biomedical Science and Veterinary Public Health
(VH) > Dept. of Clinical Sciences
(VH) > Dept. of Animal Breeding and Genetics
Deposited By: SLUpub Connector
Deposited On:22 Dec 2020 18:43
Metadata Last Modified:15 Jan 2021 19:47

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