From: Molecular subtyping of European swine influenza viruses and scaling to high-throughput analysis
Virus strains (Panel 1) | M gene RT-qPCRb (Cq- value) | Real-time RT-PCRs for molecular subtypingc (Cq-value) | |||||||
---|---|---|---|---|---|---|---|---|---|
Subtype and lineage | Name | HA subtyping | NA subtyping | ||||||
HA lineage of the most antigenically related reference strain (from HI tests) | Lineage known from conventional RT-PCRs and commercial H1pdm and N1pdm RT-qPCRsb | ||||||||
HA | NAa | H1av | H1hu | H3 | N1 | N2 | |||
H1av | H1av | N1av | A/Sw/Aisne/0054/10 | 25.48 | 24.16 | no Cq | no Cq | 24.61 | no Cq |
A/Sw/Ille et Vilaine/0187/11 | 26.87 | 26.92 | no Cq | no Cq | 24.45 | no Cq | |||
A/Sw/Ille et Vilaine/0208/11 | 24.6 | 23.45 | no Cq | no Cq | 19.05 | no Cq | |||
A/Sw/Morbihan/0294/11 | 27 | 25.88 | no Cq | no Cq | 24.86 | no Cq | |||
A/Sw/Finistere/0307/11 | 27.12 | 30.23 | no Cq | no Cq | 28.64 | no Cq | |||
A/Sw/LoireAtlantique/0405/11 | 26.9 | 29.84 | no Cq | no Cq | 28.03 | no Cq | |||
A/Sw/France/41–120137/12 | 24.33 | 19.84 | no Cq | no Cq | 27.55 | no Cq | |||
A/Sw/France/72–120183/12 | 25.12 | 25.16 | no Cq | no Cq | 25.27 | no Cq | |||
A/Sw/France/29–120326/12 | 26.34 | 36.15 | no Cq | no Cq | 27.68 | no Cq | |||
A/Sw/France/22–120340/12 | 24.29 | 23.40 | no Cq | no Cq | 22.70 | no Cq | |||
A/Sw/France/56–120452/12 | 25.75 | 30.63 | no Cq | no Cq | 25.91 | no Cq | |||
A/Sw/France/53–130065/13 | 26.65 | 33.03 | no Cq | no Cq | 30.16 | no Cq | |||
H1av | H1av | N2 | A/Sw/Cotes d’Armor/0102/08 | 25.38 | 23.13 | no Cq | no Cq | no Cq | 23.62 |
A/Sw/Cotes d’Armor/0186/10 | 26.56 | 24.92 | no Cq | no Cq | no Cq | 26.69 | |||
A/Sw/Morbihan/0213/11 | 24.26 | 24.37 | no Cq | no Cq | no Cq | 23.98 | |||
A/Sw/Morbihan/0599/11 | 24.6 | 26.17 | no Cq | no Cq | no Cq | 24.06 | |||
A/Sw/France/37–120,345/12 | 24.34 | 27.26 | no Cq | no Cq | no Cq | 24.91 | |||
H1hu | H1hu | N2 | A/Sw/Cotes d’Armor/0074/11 | 26.81 | no Cq | 30.80 | no Cq | no Cq | 29.33 |
A/Sw/France/22–110,153/11 | 26.87 | no Cq | 32.06 | no Cq | no Cq | 28.08 | |||
A/Sw/Finistere/0186/11 | 26.63 | no Cq | 31.08 | no Cq | no Cq | 29.74 | |||
A/Sw/Ille et Vilaine/0346/11 | 25.6 | no Cq | 26.83 | no Cq | no Cq | 25.26 | |||
A/Sw/Ille et Vilaine/0415/11 | 24.05 | no Cq | 28.07 | no Cq | no Cq | 26.43 | |||
A/Sw/Maine et Loire/0589/11 | 24.65 | no Cq | 23.19 | no Cq | no Cq | 23.27 | |||
A/Sw/France/56–120177/12 | 25.05 | no Cq | 30.97 | no Cq | no Cq | 30.66 | |||
A/Sw/France/22–120255/12 | 25.68 | no Cq | 29.93 | no Cq | no Cq | 27.52 | |||
A/Sw/France/29–120,258/12 | 27.17 | no Cq | 31.01 | no Cq | no Cq | 29.21 | |||
A/Sw/France/22–130032/13 | 24.54 | no Cq | 23.30 | no Cq | no Cq | 25.82 | |||
H1hu | H1hu | N1av | A/Sw/Cotes d’Armor/0046/08 | 25.85 | no Cq | 28.06 | no Cq | 24.46 | no Cq |
A/Sw/Cotes d’Armor/0070/10 | 24.59 | no Cq | 28.80 | no Cq | 24.54 | no Cq | |||
A/Sw/Morbihan/0163/10 | 26.12 | no Cq | 32.22 | no Cq | 26.53 | no Cq | |||
A/Sw/France/56–110525/10 | 25.63 | no Cq | 29.24 | no Cq | 32.04 | no Cq | |||
A/Sw/France/22–120067/12 | 26.46 | no Cq | 31.69 | no Cq | 26.66 | no Cq | |||
H1pdm | H1pdm | N1pdm | A/California/04/09 | 25.92 | no Cq | no Cq | no Cq | 27.76 | no Cq |
A/Sw/Sarthe/0255/10 | 26.26 | no Cq | no Cq | no Cq | 26.51 | no Cq | |||
A/Sw/Sarthe/0262/10 | 25.32 | no Cq | no Cq | no Cq | 26.02 | no Cq | |||
A/Sw/Cotes d’Armor/110466/10 | 25.15 | no Cq | no Cq | no Cq | 27.35 | no Cq | |||
A/Sw/Haute-Loire/0578/11 | 26.42 | no Cq | no Cq | no Cq | 28.44 | no Cq | |||
A/Sw/France/18–120158/12 | 27.29 | no Cq | no Cq | no Cq | 29.73 | no Cq | |||
A/Sw/France/18–120333/12 | 24.04 | no Cq | no Cq | no Cq | 24.37 | no Cq | |||
A/Sw/France/71–130116/13 | 24.68 | no Cq | no Cq | no Cq | 28.93 | no Cq | |||
H3 | H3 | N2 | A/Sw/Flandres/1/98 | 24.98 | no Cq | no Cq | 24.39 | no Cq | 25.58 |
A/Sw/France/59–120031/12 | 26.1 | no Cq | no Cq | 27.47 | no Cq | 26.68 |