TABLE 1.
Subtype | Primer or probe | Sequence (5′-3′) | Locationa |
---|---|---|---|
Seasonal influenza A (H1N1) virus | sH1N1-His275Tyr forward primer | 5′-CAAGATCGAAAAGGGGAAG-3′ | 768-786 |
sH1N1-His275Tyr reverse primer | 5′-GACACCCAAGGTCGATTTG-3′ | 896-914 | |
sH1N1-His275b | 5′-(Eclipsec)-[ATG]dAAAATTGGGTG-(FAMe)-3′ | 812-825 | |
sH1N1-Tyr275b | 5′-(Eclipse)-[ATA]AAAATTGGGTG-(ROXe)-3′ | 812-825 | |
Influenza A pandemic (H1N1) 2009 | H1N1pdm-His275Tyr forward primer | 5′-TGGACAGGCCTCATACAAGA-3′ | 744-763 |
H1N1pdm-His275Tyr reverse primer | 5′-GCCAGTTATCCCTGCACACA-3′ | 870-889 | |
H1N1pdm-His275b | 5′-(Eclipse)-CCTAATTAT[CAC]T-(FAM)-3′ | 814-826 | |
H1N1pdm-Tyr275b | 5′-(Eclipse)-AT[TAC]TATGAGGA-(ROX)-3′ | 821-833 |
Location of primers and probes in the NA-coding region (total, 1,413 bp), segment 6, of influenza A (H1N1) virus. Note that both cycling probes for seasonal H1N1 were designed as reverse complements.
Fluorescent dye and quencher-labeled DNA/RNA chimeric probe.
Quenching molecule.
Nucleotides inside brackets indicate the codon relevant to sequences for oseltamivir sensitivity (His) and resistance (Tyr). Boldface and italicized letters indicate the nucleotide replaced by RNA.
Fluorescent molecules.