BioMed Research International

Research Article

Genetic Characterization and Evolution of H1N1pdm09 after Circulation in a Swine Farm

Table 2

Amino acid substitutions in HA (a), NA (b), and internal proteins (c) of the SIVs under study: comparison with A/California/04/2009. Some of amino acid changes are located within PIRs, reported in the table. PIRs are identified according to Fanning et al. (2000) [9]. Unique amino acid changes among A(H1N1)pdm09 under study are indicated with*.
(a) HA protein
Residue number7183119127130146155155 (a, b)183185187190197203259449474480
A/California/04/09SPKDKKG—SSDSTSRVTK
A/Sw/It/325451/11—S—E*E*R*——PNS*I*ATK*——R*
A/Sw/It/120336/12YSN———EKEPNS*—AT—I*—R*
A/Sw/It/225349-1/12YSN———EKEPNS*—AT—I*MR*
A/Sw/It/225349-2/12YSI*———EKEPNS*—AT—I*—R*
A/Sw/It/225349-4/12YSI*———EKEPNS*—AT—I*—R*
 PIRC PIRE     PIRIPIRI      PIRQ 
(b) NA protein
Residue number17204777106127220248339416418442
A/California/04/2009IAEGVLRNSDIS
A/Sw/It/325451/11—T——I——G*———I
A/Sw/It/120336/12——G—ISKG*LNT*I
A/Sw/It/225349-1/12——G—ISKG*L—M*I
A/Sw/It/225349-2/12V—G—ISKG*L—M*I
A/Sw/It/225349-4/12——GEISKG*L—M*I
 PIRA PIRBPIRC   PIRFPIRJ   
(c) Internal gene proteins
Gene segmentPB2PB1PANPM2NS1NS2PA-PAX
Residue number2253406762166322012162243795215386285310018645443656510911212383199221
A/California/04/2009GKTGVIDPVVEVDVVETTVQIIMRR
A/Sw/It/325451/11—N*——AV—SIL*A*L*EI———K*——V*V—KQ
A/Sw/It/120336/12—N*———V—SIL*A*—EI—D————V*V—KQ
A/Sw/It/225349-1/12—N*—S—V—SIL*A*—EI—DI—MRV*VIKQ
A/Sw/It/225349-2/12—N*———V—SIL*A*—EIID————V*VIKQ
A/Sw/It/225349-4/12SN*A*——VNSIL*A*—EI—D————V*V—KQ