Table 7 HA and NA classification of amplicons from sample set 4 and 5. RNA was extracted using the QIAamp viral RNA mini kit (Qiagen) or the Zymo Quick-RNA viral kit (Zymo) using the Bento lab pro system. Subtypes were characterised by manual mapping to a non-redundant reference gene set downloaded from GISAID.
From: Development of a portable avian influenza virus characterisation system: bringing the inside-out
Sample No. | Sample name | RNA extraction kit | Location | Year | Known subtype | GISAID mapping |
|---|---|---|---|---|---|---|
18 | W22_00045_273 | Qiagen | Te Awamutu | 2022 | H6N2 | H6N2 |
19 | W23_00004_34 | Qiagen | Paeroa | 2023 | H4N6 | H low read, N6 |
20 | NZ0800177_42 | Qiagen | Kaituna | 2008 | H3N1 | H3N1 |
21 | N/A | Qiagen | Turua | 2007 | Negative | Removed |
22 | NZ0700105_50 | Qiagen | Paeroa | 2007 | H3N8 | H3N8 |
23 | NZ0700106_23 | Qiagen | Turua | 2007 | H1N2 | H1N2 |
24 | W22_00002_110 | Qiagen | Paeroa | 2022 | H3N2 | H3N2 |
25 | W16_1_o83_2016 | Zymo | Kerepehi | 2016 | H10N3 | H10N3 |
26 | W16_1_c29_2016 | Zymo | Kerepehi | 2016 | H4N6 | H4N6 |
27 | W16_c68_2016 | Zymo | Gisborne | 2016 | H4N2 | H4N2 |
