*Not accounting for plastic wear and lab instrumentation.
Isolation, cleaning, and concentration:
- MagMax Wastewater Ultra Nucleic Acid Isolation Kit (#A52610), ThermoFisher Scientific
- TURBO DNAse (#AM2238), ThermoFisher Scientific
- RNA Clean and Concentrator 5 DNAse not included (#R1015 or R1016), Zymo Research
- H5N1 primers/probe (see github for fastas) - qPCR master mix (see TaqMan, ThermoFisher Scientific)
Reverse transcription, PCR, and sequencing library prep:
- AVRL_H5N1_250bpAmpWGS primers from IDT (see protocol)
- QIAseq DIRECT SARS-CoV-2 Kit A (#333891), Qiagen
- QIAseq DIRECT SARS-CoV-2 Enhancer (#333884), Qiagen
- Qubit High Sensitivity dsDNA Kit
- For ONT sequencing only
Native Barcoding Kit 96 v14 (#SQK-NBD114.96), Oxford Nanopore Technologies
Supplemental New England Biosciences reagents for ONT Native Barcoding Kit 96
- Oxford Nanopore MK1C/MK1B or Gridion