Detecting transmission and reassortment events for influenza A viruses with genotype profile method

Dong, Changzheng; Ying, Liya; Yuan, Dongfang

doi:10.1186/1743-422X-8-395

Virology Journal

Table 3 Comparing reassortment patterns in swine influenza A viruses with Rabadan's method

From: Detecting transmission and reassortment events for influenza A viruses with genotype profile method

Year	Rabadan's method										Genotype profile method		Ref.^a
	Strain	Subtype	PB2	PB1	PA	HA	NP	NA	MP	NS	Genotype	Classification
1976	A/swine/Iowa/1/1976	H1N1	S1	S2	S1	S1	S1	S1	S1	S1	[B, A, C, 1A, A, 1B, A, 1A]	Classic swine
1976	A/swine/Tennessee/15/1976	H1N1	S1	S2	S1	S1	S1	S1	S1	S1	[B, A, C, 1A, A, 1B, A, 1A]	Classic swine
1976	A/swine/Tennessee/19/1976	H1N1	S1	S1	S1	S1	S1	S1	S2	S1	[B, A, C, 1A, A, 1B, A, 1A]	Classic swine
1976	A/swine/Tennessee/23/1976	H1N1	S1	S2	S1	S1	S1	S1	S1	S1	[B, A, C, 1A, A, 1B, A, 1A]	Classic swine
1977	A/swine/Tennessee/48/1977	H1N1	S1	S1	S2	S1	S1	S1	S2	S1	[B, A, C, 1A, A, 1B, A, 1A]	Classic swine
1977	A/swine/Tennessee/61/1977	H1N1	S1	S1	S1	S1	S1	S1	S2	S1	[B, A, C, 1A, A, 1B, A, 1A]	Classic swine
1977	A/swine/Tennessee/62/1977	H1N1	S1	S1	S1	S1	S1	S2	S2	S1	[B, A, C, 1A, A, 1B, A, 1A]	Classic swine
1977	A/swine/Tennessee/64/1977	H1N1	S1	S2	S1	S1	S1	S1	S1	S1	[B, A, C, 1A, A, 1B, A, 1A]	Classic swine
1977	A/swine/Tennessee/82/1977	H1N1	S1	S1	S1	S2	S1	S2	S1	S1	[B, A, C, 1A, A, 1B, A, 1A]	Classic swine
1977	A/swine/Tennessee/96/1977	H1N1	S1	S1	S1	S1	S1	S1	S1	S2	[B, A, C, 1A, A, 1B, A, 1A]	Classic swine
1979	A/swine/Minnesota/5892-7/1979	H1N1	S1	S1	S1	S1	S2	S1	S1	S1	[B, A, C, 1A, A, 1B, A, 1A]	Classic swine
1981	A/swine/Ontario/6/1981	H1N1	S1	S1	S1	S1	S2	S1	S1	S1	[B, A, C, 1A, A, 1B, A, 1A]	Classic swine
1986	A/swine/Iowa/1/1986	H1N1	S1	S1	S2	S2	S1	S1	S1	S1	[B, A, C, 1A, A, 1B, A, 1A]	Classic swine
1988	A/swine/Wisconsin/1915/1988	H1N1	S1	S1	S1	S1	S2	S1	S1	S1	[B, A, C, 1A, A, 1B, A, 1A]	Classic swine
2004	A/swine/Korea/CAN01/2004	H1N1	S1	S1	S1	S1	S1	S2	S1	S1	[C, D, E, 1A, A, 1B, A, 1A]	Triple-reassortant swine	[25]
2004	A/swine/Spain/53207/2004	H1N1	S1	S1	S1	S2	S1	S2	S1	S3	[F, G, I, 1C, F, 1F, F, 1E]	Eurasian avian-like swine
2007	A/swine/Ohio/24366/07	H1N1	S1	S1	S1	S2	S1	S2	S1	S1	[C, D, E, 1A, A, 1B, A, 1A]	Triple-reassortant swine
1998	A/swine/Italy/1521/98	H1N2	S1	S1	S1	S2	S1	S3	S1	S1	[F, G, I, 1B, F, 2A, F, 1E]	Eurasian avian-like swine	[18]
1999	A/Swine/Indiana/9K035/99	H1N2	S1	S1	S1	S2	S1	S1	S1	S1	[C, D, E, 1A, A, 2A, A, 1A]	Triple-reassortant swine	[36]
2000	A/Swine/Minnesota/55551/00	H1N2	S1	S1	S1	S2	S1	S1	S1	S1	[C, D, E, 1A, A, 2A, A, 1A]	Triple-reassortant swine	[37]
2004	A/swine/Zhejiang/1/2004	H1N2	S1	S1	S1	S1	S1	H	S1	S1	[B, A, C, 1A, A, 2A, A, 1A]	Reassortant by classic & H3N2	[19]
2005	A/swine/Cloppenburg/IDT4777/2005	H1N2	S1	S1	S1	S1	S1	S2	S1	S1	[F, G, I, 1B, F, 2A, F, 1E]	Eurasian avian-like swine	[20]
2006	A/swine/Miyazaki/1/2006	H1N2	S1	S1	S1	S1	S1	S3	S1	S1	[B, A, C, 1A, A, 2A, A, 1A]	Reassortant by classic & H3N2	[21]
2007	A/swine/Shanghai/1/2007	H1N2	S1	S1	S1	S2	S1	S1	S1	S1	[C, D, E, 1A, A, 2A, A, 1A]	Triple-reassortant swine
1998	A/Swine/Nebraska/209/98	H3N2	A	H	A	H	S	H	S	S	[C, D, E, 3A, A, 2A, A, 1A]	Triple-reassortant swine	[36]
2001	A/swine/Spain/33601/2001	H3N2	S1	S1	S1	S2	S1	S2	S1	S1	[F, G, I, 3A, F, 2A, F, 1E]	Eurasian avian-like swine
2003	A/swine/North Carolina/2003	H3N2	S	S	S	H1	S	H2	S	S	[C, D, E, 3A, A, 2A, A, 1A]	Triple-reassortant swine
2007	A/swine/Korea/CY04/2007	H3N2	S1	S1	S1	S1	S1	S1	S1	S2	[C, D, E, 3A, A, 2A, A, 1A]	Triple-reassortant swine	[25]
2007	A/swine/Korea/CY07/2007	H3N2	S1	S1	S2	S2	S1	S1	S1	S1	[C, D, E, 3A, A, 2A, A, 1A]	Triple-reassortant swine	[25]
1998	A/swine/North Carolina/35922/98	H3N2	S	H	S	H	S	H	S	S	Unknown		[16]
2004	A/swine/MI/PU243/04	H3N1	S1	S1	S1	S1	S1	S2	S1	S1	[C, D, E, 3A, A, 1B, A, 1A]	Reassortant by triple & classic	[38]
2006	A/swine/Missouri/2124514/2006	H2N3	S1	S2	A	A	S1	A	S1	S1	[C, D, E, 2H, A, 3A, A, 1A]	Reassortant by triple & avian	[39]
2003	A/swine/Alberta/56626/03	H1N1	S1	S1	S2	S1	S1	S3	S1	S1	[B, A, C, 1A, A, 1B, A, 1A]	Classic swine	[40]
2003	A/swine/Ontario/53518/03	H1N1	S3	S3	S2	S1	S3	S1	S1	S1	[C, D, C, 1A, A, 1B, A, 1A]	Reassortant by triple & classic	[40]
2003	A/swine/Ontario/57561/03	H1N1	S1	S1	S2	S1	S3	S1	S2	S1	[B, A, C, 1A, A, 1B, A, 1A]	Classic swine	[40]
2004	A/swine/Ontario/48235/04	H1N2	S1	H1	S1	H2	S2	H3	S3	S3	[B, D, C, 1B, A, 2A, A, 1A]	Reassortant by triple & classic	[40]
2004	A/swine/Ontario/11112/04	H1N1	S1	H	S1	S1	S2	S1	S1	S1	[B, D, C, 1A, A, 1B, A, 1A]	Reassortant by triple & classic	[40]
2005	A/swine/Alberta/14722/2005	H3N2	S	S	S	S	S	H	S	S	[C, D, E, 3A, A, 2A, A, 1A]	Triple-reassortant swine	[41]

^aRef. numbers refer to citations used in Rabadan's paper [14]

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