Universal, amplicon-based sequencing method for Canine Morbillivirus (CDV)
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Nanopore sequencing technology provide the only portable and low-cost solution to generate viral genome information without limitation in fragment length. Amplicon based sequencing methods proved their relevance during human epidemics (Ebola1 , Dengue2 , Zika virus1 ) and the current pandemic (SARS-CoV 2). The Canine distemper virus (CDV) is a highly contagious virus that causes multisystemic, sub-clinical to fatal diseases in a wide range of carnivore species and affecting domestic and wild animals worldwide. CDV is highly prone to cross-species transmission between domestic and wildlife reservoir hosts, representing a significant One Health challenge on the wildlife-domestic animals interface. The viral genome is ~ 15 kb and encodes six structural proteins and classified into 18 major lineages. Hitherto only 195 almost full genomes available in the NCBI database (27.04.2022.). Genomic data is essential to design efficient diagnostic tests or vaccines. Without these the effective counter measures are not available. As CDV affect multiple host species there is huge lack of understanding in the natural circulation and can have impact on the conservation of endangered species beyond the animal health issues. Our main goal was to develop an universal amplicon-based sequencing method that is able to sequence all known CDV lineage.