bioRxivGenomicsPreprint
Porcine cytomegalovirus detection by nanopore-based metagenomic sequencing in a Hungarian pig farm
Adrienn Gréta TóthiD, Regina Nóra FiamiD, Ágnes BecseiiD, Sándor SpisákiD, István CsabaiiD, László MakraiiD, Tamás Reibling, Norbert SolymosiiD
Abstract
The rapid diagnosis of infectious diseases has an essential impact on their control, treatment and recovery. Oxford Nanopore Technologies (ONT) sequencing opens up a new dimension in applying clinical metagenomics. In a large-scale pig farm in Hungary, four fattening and one piglet nasal swab pooled samples were sequenced using ONT for metagenomic analysis. Long reads covering 53.69% of the porcine cytomegalovirus genome were obtained in the piglet sample. The 650 bp long read matching the glycoprotein B gene of the virus is sequentially most similar to Japanese, Chinese and Spanish isolates.
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