TABLE 1.

Pyro-RT-PCR and sequencing primers designed in the present study

Primer purpose and primer	Sequence	Target gene or residue(s)
Pyro-RT-PCR
H1N1pdm-M2-F670	5′-AGCTCCAGTGCTGGTCTGAAAG-3′	H1N1pdm-M2
H1N1pdm-M2-R900-biot	5′-GACTCAGGCACTCCTTCCGTAGAA-3′
H1N1pdm-N1-F256	5′-GCSGGCAATTCCTCTCTYTG-3′	H1N1pdm-N1 fragment A
H1N1pdm-N1-R730-biot	5′-CGGTCATTACAGTAAARCAHGAACC-3′
H1N1pdm-N1-F524	5′-ARTCAGTYGCTTGGTCAGCAAG-3′	H1N1pdm-N1 fragment B
H1N1pdm-N1-R908-biot	5′-CAYGGTCGATTCGARSCATG-3′
H1N1pdm-N1-F780	5′-GGGGAAGATTGTYAAATCAGTYGA-3′	H1N1pdm-N1 fragment Ca
H1N1pdm-N1-R1273-biot	5′-CWACCCAGAARCAAGGYCTTATG-3′
Pyrosequencing
H1N1pdm-N1-F292	5′-GCTATATACAGTAAAGAC-3′	V106b,c
H1N1pdm-N1-F325	5′-GGTTCYAARGGGGA-3′	V116, I117, E119c
H1N1pdm-N1-F386	5′-GCAGAACCTTYTTCYTG-3′	Q136c
H1N1pdm-N1-F427	5′-AARCATTCCAATGGAAC-3′	K150, D151c
H1N1pdm-N1-F568	5′-TGG CTA ACA AT-3′	D198c
H1N1pdm-N1-F647	5′-TCAAGAGTTGGAGAAACA-3′	I222c
H1N1pdm-N1-F723	5′-AATGACYGATGGMCC-3′	N247b,c
H1N1pdm-N1-F804	5′-GYTGAATGCMCCTAATT-3′	H274c
H1N1pdm-N1-F864	5′-CACRTGTGTKTGCAG-3′	N294c
H1N1pdm-M2-F747	5′-GCGATTCAAGTGATCC-3′	L26, V27, A30, S31, G34d
H1N1pdm-M2-F801	5′-TGA TAT TGT GGA-3′	L43d

^aSet of primers published in 2009 by the CDC (8).

^bResidues are used for NA variant signatures and not antiviral resistance markers.

^cNA target residue(s).

^dM2 target residue(s).