Draft quality genome sequences for virus genomes included in the ZeptoMetrix Respiratory Panel 2.1, a DNA & RNA positive control panel for metagenomics. Bacterial genomes and coronaviruses HKU-1 and NL63 are excluded due to poor coverage, despite deep sequencing using a variety of protocols.
DNA libraries were prepared with SMART-9N and ONT protocols for sequencing using ONT Promethion. Dorado 4.3 HAC was used for basecalling. Reads were mapped to nearby references with Minimap2, consensus called with Kindel, and polished with Medaka.
Use with knownknowns to quickly estimate positive control containment in a FASTQ file.
| Genome | Abbreviation | Reference | Type | Length | Assembly |
|---|---|---|---|---|---|
| Adenovirus Type 1 | AdV-1 | AC_000017.1 | DNA | 35,676 | ✅ |
| Adenovirus Type 3 | AdV-B | DQ099432.4 | DNA | 35,072 | ✅ |
| Adenovirus Type 31 | AdV-31 | AM749299.1 | DNA | 33,755 | ✅ |
| Bordetella parapertussis A747 | DNA | ||||
| Bordetella pertussis A639 | DNA | ||||
| Chlamydia pneumoniae IOL-207 | DNA | ||||
| Coronavirus 229E | HCoV-229E | OZ035244.1 | RNA | 26,841 | ✅ |
| Coronavirus HKU-1 | RNA | ||||
| Coronavirus NL63 | RNA | ||||
| Influenza A H1N1 A/NY/02/2009 | Flu-A-H1N1-S | KT180555.1 | RNA | 13,130 | ✅ |
| Influenza A H3N2 A/Brisbane/10/07 | Flu-A-H3N2 | KJ609211.1 | RNA | 13,290 | ✅ |
| Influenza AH1 A/New Caledonia/20/99 | Flu-A-H1N1-F | CY033629.1 | RNA | 13,292 | ✅ |
| Influenza B B/Florida/02/06 | Flu-B | CY018371.1 | RNA | 14,222 | ✅ |
| Metapneumovirus 8 Peru6-2003 | HMPV | OL794390.1 | RNA | 13,149 | ✅ |
| Mycoplasma pneumoniae M129 | DNA | ||||
| Parainfluenza Type 1 | HPIV-1 | PV660323.1 | RNA | 15,412 | ✅ |
| Parainfluenza Type 2 | HPIV-2 | AF533012.1 | RNA | 15,654 | ✅ |
| Parainfluenza Type 3 | HPIV-3 | KY674922.1 | RNA | 15,382 | ✅ |
| Parainfluenza Type 4 | HPIV-4 | EU627591.1 | RNA | 17,132 | |
| Rhinovirus 1A | HRV-1A | KC894166.1 | RNA | 7,096 | ✅ |
| RSV A | RSV-A | KY967364.1 | RNA | 14,855 | ✅ |
| SARS-CoV-2 USA-WA1/2020 | SARS-CoV-2 | ON311149.1 | RNA | 29,778 | ✅ |