WGS of bovine shed: air from barcode 4
Viral nucleic acid was extracted by depleting the non-viral nucleic acids using mechanical disruption, RNase and DNase digestion. A QIAamp Viral RNA/DNA Mini Kit was then used for nucleic extraction with each air sample processed in five replicates. Double-stranded cDNA synthesis was performed using a Maxima H Minus Double-Stranded cDNA Synthesis Kit, followed by purification Zymo Genomic DNA Clean and Concentrator Kit to remove any enzyme/reagents that could interfere with downstream processing. The downstream library preparation was done using PCR Barcoding Kit 24 V14 (SQK-RPB114.24) and sequenced on a standard flow cell (MK1D sequencer), provided by nanopore technologies.  Using the EPI2ME Labs wf-metagenomics taxonomic classification was performed using Kraken2 with a custom viral refseq database.