“…While metatranscriptomics is able to detect eukaryotic, bacterial, and viral pathogens, several studies have shown that the untargeted methods available are not adequate to detect unknown pathogens with small genomes such as viruses on a large scale at a reasonable cost ( 20 , 24 , 32 , 33 ). Surveillance of viruses in wastewater has been mainly conducted using targeted approaches such as amplicon sequencing for particular pathogen genomes such as SARS-CoV-2 or norovirus ( 4 , 5 , 17 , 20 , 24 , 34 ) or through use of viral concentration methods which remove all bacteria and eukaryotic cells prior to sequencing, thereby removing information on other potential pathogens ( 3 , 35 ). Furthermore, wastewater is comprised of intact as well as cellular debris, and therefore, filtration and concentration methods do not enrich enough for viruses to enable consistent detection by non-targeted sequencing methods ( 20 , 33 ).…”