Foreign Animal Disease Diagnostic Laboratory (FADDL), National Veterinary Services Laboratories, Animal and Plant Health Inspection Service, U.S. Department of Agriculture, Plum Island Animal Disease Center, Plum Island, New York, NY, USA
Amy Berninger
Oak Ridge Institute for Science and Education (ORISE), Oak Ridge, TN, USA
Steven Lakin
FADDL, National Bio- and Agro-defense Facility (NBAF), United States Department of Agriculture, Manhattan, KS, USA
Vivian O'Donnell
Foreign Animal Disease Diagnostic Laboratory (FADDL), National Veterinary Services Laboratories, Animal and Plant Health Inspection Service, U.S. Department of Agriculture, Plum Island Animal Disease Center, Plum Island, New York, NY, USA
Jim Pierce
Oak Ridge Institute for Science and Education (ORISE), Oak Ridge, TN, USA
Steven Pauszek
Foreign Animal Disease Diagnostic Laboratory (FADDL), National Veterinary Services Laboratories, Animal and Plant Health Inspection Service, U.S. Department of Agriculture, Plum Island Animal Disease Center, Plum Island, New York, NY, USA
Roger Barrette
Foreign Animal Disease Diagnostic Laboratory (FADDL), National Veterinary Services Laboratories, Animal and Plant Health Inspection Service, U.S. Department of Agriculture, Plum Island Animal Disease Center, Plum Island, New York, NY, USA
Bonto Faburay
Foreign Animal Disease Diagnostic Laboratory (FADDL), National Veterinary Services Laboratories, Animal and Plant Health Inspection Service, U.S. Department of Agriculture, Plum Island Animal Disease Center, Plum Island, New York, NY, USA
Foot-and-mouth disease (FMD) is a severe and extremely contagious viral disease of cloven-hoofed domestic and wild animals, which leads to serious economic losses to the livestock industry globally. FMD is caused by the FMD virus (FMDV), a positive-strand RNA virus that belongs to the genus Aphthovirus, within the family Picornaviridae. Early detection and characterization of FMDV strains are key factors to control new outbreaks and prevent the spread of the disease. Here, we describe a direct RNA sequencing method using Oxford Nanopore Technology (ONT) Flongle flow cells on MinION Mk1C (or GridION) to characterize FMDV. This is a rapid, low cost, and easily deployed point of care (POC) method for a near real-time characterization of FMDV in endemic areas or outbreak investigation sites.
