
African swine fever (ASF) is an acute, highly hemorrhagic viral disease in domestic pigs and wild boars. The disease is caused by African swine fever virus, a double stranded DNA virus of the Asfarviridae family. ASF can be classified into 25 different genotypes, based on a 478 bp fragment corresponding to the C-terminal sequence of the B646L gene, which is highly conserved among strains and encodes the major capsid protein p72. The C-terminal end of p72 has been used as a PCR target for quick diagnosis of ASF, and its characterization remains the first approach for epidemiological tracking and identification of the origin of ASF in outbreak investigations. Recently, a new classification of ASF, based on the complete sequence of p72, reduced the 25 genotypes into only six genotypes; therefore, it is necessary to have the capability to sequence the full-length B646L gene (p72) in a rapid manner for quick genotype characterization. Here, we evaluate the use of an amplicon approach targeting the whole B646L gene, coupled with nanopore sequencing in a multiplex format using Flongle flow cells, as an easy, low cost, and rapid method for the characterization and genotyping of ASF in real-time.
Nanopore, Genotype, Swine, Brief Report, p72, Sequence Analysis, DNA, Genome, Viral, Microbiology, African Swine Fever Virus, QR1-502, Nanopore Sequencing, Nanopores, genotyping, DNA, Viral, Animals, next-generation sequencing, Capsid Proteins, African swine fever, African Swine Fever, Phylogeny
Nanopore, Genotype, Swine, Brief Report, p72, Sequence Analysis, DNA, Genome, Viral, Microbiology, African Swine Fever Virus, QR1-502, Nanopore Sequencing, Nanopores, genotyping, DNA, Viral, Animals, next-generation sequencing, Capsid Proteins, African swine fever, African Swine Fever, Phylogeny
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