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Porcine cytomegalovirus detection by nanopore-based metagenomic sequencing in a Hungarian pig farm

Toth, A. G.; Fiam, R.; Becsei, A.; Spisak, S.; Csabai, I.; Makrai, L.; Reibling, T.; Solymosi, N.

2022-12-29 genomics
10.1101/2022.12.28.522123 bioRxiv
Show 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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"Similar papers" are the closest papers from that journal in the model's embedding space. They show what the match is built on, but the ranking comes mostly from a classifier over the whole training set, not from these examples alone.