Volume 15, Number 12—December 2009
Research
Genomic Signatures of Influenza A Pandemic (H1N1) 2009 Virus
Guang-Wu Chen
and Shin-Ru Shih
and Shin-Ru Shih
Table 1
Amino acid residues of pandemic (H1N1) 2009 virus strains at 47 positions where avian–human signatures are located*
| Gene | Position | Avian virus residue | Human virus residue | Pandemic (H1N1) 2009 virus residue |
|---|---|---|---|---|
| PB2 | 44 | A(2,838), S(39), T(1) | S(2,734), A(30), L(2) | A(61) |
| 199 | A(2,816), S(22), D(4), T(2), V(1) | S(2,781), A(8) | A(61) | |
| 271 | T(2,758), I(47), A(21), M(5), Q(1) | A(2,770), T(15), S(1) | A(61) | |
| 475 | L(3,355), M(25), I(1) | M(2,747), L(8), I(1) | L(61) | |
| 567 | D(3,116), E(257), N(18), V(3), G(3), A(2), K(1) | N(2,736), D(18), S(1) | D(61) | |
| 588 | A(3,175), T(91), I(72), V(43), S(3), P(1), D(1) | I(2,734), A(8), V(6),T(4), L(1), S(1) | T(61) | |
| 613 | V(3,343), A(29), I(19) | T(2,651), I(71), A(23), V(9), S(1) | V(61) | |
| 627 | E(3,113), K(228), V(46), A(2), G(2) | K(2,746), E(6), R(3) | E(61) | |
| 702 |
K(3,232), R(131), Q(1) |
R(2,731), K(22), G(1), I(1) |
K(61) |
|
| PB1 | 327 | R(3,340), K(54), G(1) | K(2,489), R(275) | R(80) |
| 336 |
V(3,350), I(26), A(16) |
I(2,595), V(168), T(1) |
I(80) |
|
| PA | 28 | P(2,915), S(7), L(5), T(1) | L(2,736), P(19), R(2), S(2), Q(1) | P(61) |
| 55 | D(2,906), N(29) | N(2,752), D(13) | D(61) | |
| 57 | R(2,849), Q(77), K(4), W(3), L(2) | Q(2,736), R(20), L(6), K(3) | R(61) | |
| 100 | V(2,759), A(109), I(68), F(1) | A(2,727), V(27), T(7), I(2), S(1) | V(61) | |
| 225 | S (2,854), N(7), C(6), G(1) | C(2,736), S(29), G(1) | S(61) | |
| 268 | L(3,317), F(14), I(2), V(1) | I(2,724), L(35), V(2) | L(61) | |
| 356 | K(3,309), R(34), N(7), E(1), I (1) | R(2,705), K(30) | R(61) | |
| 404 | A(3,098), S(220), T(10), P(4), R(1), V(1) | S(2,706), A(28), P(1) | A(61) | |
| 409 | S(3,100), N(191), G(4), I(1), R(1), K(1) | N(2,723), S(11), I(1) | N(61) | |
| 552 |
T(3,304), A(1), N(1) |
S(2,721), T(10), N(2), R(1), I(1) |
T(61) |
|
| NP | 16 | G(3,379), S(58), D(8), C(1) | D(2,884), G(16) | G(120), D(1) |
| 33 | V(3,173), I(284), A(1), D(1) | I(2,876), V(25) | I(121) | |
| 61 | I(3,419), M(30), V(19), L(6) | L(2,881), I(19) | I(121) | |
| 100 | R(3,422), K(34), V(23), S(1) | V(2,842), I(52), R(4), A(3), L(1), M(1) | V(68), I(46) | |
| 109 | I(3,407), V(48), T(22), M(2), S(1) | V(2,820), I(77), A(3), T(3) | I(114) | |
| 214 | R(3,282), K(52), T(3), L(1) | K(2,897), R(25) | R(114) | |
| 283 | L(3,309), F(4), P(3), I(3) | P(3,062), L(19), S(3) | L(114) | |
| 293 | R(3,275), K(40) | K(3,020), R(65) | R(114) | |
| 305 | R(3,238), K(32), S(2) | K(3,052), R(33) | K(114) | |
| 313 | F(3,191), L(43), S(10), Y(1), C(1), I(1) | Y(3,064), F(21) | V(114) | |
| 357 | Q(2,766), K(33), T(3), R(2) | K(3,052), R(46), Q(5) | K(114) | |
| 372 | E(2,742), D(69), G(3), K(2) | D(3,051),E(51), N(1) | E(114) | |
| 422 | R(2,818), K(2) | K(2,891), R(51) | R(114) | |
| 442 | T(2,793), S(12), A(5) | A(2,890), T(51), R(1) | T(114) | |
| 455 |
D(2,792), N(3), E(1) |
E(2,890), D(51), T(1) |
D(114) |
|
| M1 | 115 | V(3,794), I(15), G(2), L(2), M(1) | I(3,586), V(19) | V(151) |
| 121 | T(3,684), A(126), P(4) | A(3,599), T(7) | T(151) | |
| 137 |
T(3,806), D(12), A(8), P(1), S(1) |
A(3,577), T(25) |
T(146) |
|
| M2 | 11 | T(2,890), I(190), S(8), E(1) | I(3,805),T(102) | T(55) |
| 20 | S(3,032),N(76), K(12), R(3), I(2) | N(3,859), S(49) | S(55) | |
| 57 | Y(3,040), H(5), N(1), C(1) | H(3,804),Y(65), D(25), Q(5), R(5), N(4) | Y(55) | |
| 86 | V(2,894), A(6), I(4), D(1), L(1), F(1), S(1) | A(3,781), V(26), T(10), D(1) | V(55) | |
| 93 |
N(2,710), T(13), D(3), H(3), S(3), Y(2), I(1) |
S(3,699), N(69), Q(2), R(1), H(1), I(1) |
N(55) |
|
| NS1 | 81 | I(2,652), V(43), T(8), M(2), S(1), Y(1), G(1) | M(2,860), I(59), V(4) | I(93) |
| 227 |
E(3,080), G(60), K(31), S(1) |
R(2,863), G(8), K(2), W(1), E(1) |
Delete |
|
| NS2 | 107 | L(3,147), P(2), S(2), F(1), Q(1) | F(2,850), L(45), S(1), V(1) | L(93) |
*Boldface indicates dominant amino acid residue type. PB, polymerase B; PA, polymerase A; NP, nucleoprotein; M, matrix; NS nonstructural.
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