Identification of swine influenza virus epitopes and analysis of multiple specificities expressed by cytotoxic T cell subsets

Table 1 Influenza peptide epitopes and immunization strains

SLA tetramer peptide epitopes				Immunization strains 1-5
SLA tetramer peptide epitopes				1	2	3	4	5
SwIV candidate epitope	Viral protein of origin	AA position* in virus	Nucleotide position* in virus	A/swine/Den mark/101310- 1/2011(H1N1pdm09)	A/swine/Denmark/101568-1/2011(H1pdmN2†)	A/swine/Denmark/19126/1993 (H1N1)	A/swine/Denmark/101490-3/2011(H1N1)	A/swine/Denmark/1037-2/2011(H1N2†)
CTELKLSDY	NP	44-52	130-156	+	+	CTELQ LSDY	CTELQ LSDY	CTELQ LSDY
GTEKLTITY	PB2	623-531	1567-1593	+	+	+	+	+
SSSFSFGGF	PB2	320-328	958-984	+	+	+	+	+
YVFVGTSRY	HA	215-223	643-669	+	+	YVS VES SKY	YVS VVS SKY	YVS VVS SKY

Comparison of influenza virus candidate epitope sequences within the different viral strains used for immunizations. (+) SwIV candidate epitope sequence is 100% conserved in the viral strain used for immunization. (*) Amino acid position relative to start codon in virus A/swine/Denmark/12687/2003, (†) reassortant swine influenza virus encoding a human-like N2 gene [21]. Amino acids in bold mark substitutions in the sequence within the immunization strain compared to the respective candidate epitopes used for tetramer analysis.