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Journal of Infection: PA-356R is a unique signature of the avian influenza A (H7N9) viruses with bird-to-human transmissibility: potential implication

tetano

tetano

Editor, Senior Moderator
Journal of Infection

Available online 9 August 2013

In Press, Accepted Manuscript ? Note to users
Cover image
PA-356R is a unique signature of the avian influenza A (H7N9) viruses with bird-to-human transmissibility: potential implication for animal surveillances

Wei Xu

Key Laboratory of Medical Molecular Virology of Ministries of Education and Health, Shanghai Medical College, Fudan University, Shanghai, China

Zhiwu Sun

Key Laboratory of Medical Molecular Virology of Ministries of Education and Health, Shanghai Medical College, Fudan University, Shanghai, China

Qi Liu

Key Laboratory of Medical Molecular Virology of Ministries of Education and Health, Shanghai Medical College, Fudan University, Shanghai, China

Jianqing Xu

Key Laboratory of Medical Molecular Virology of Ministries of Education and Health, Shanghai Medical College, Fudan University, Shanghai, China

Shibo JiangCorresponding author contact information, E-mail the corresponding author

Key Laboratory of Medical Molecular Virology of Ministries of Education and Health, Shanghai Medical College, Fudan University, Shanghai, China
Lindsley F. Kimbal Research Institute, New York Blood Center, New York, NY, USA

Lu LuCorresponding author contact information, E-mail the corresponding author

Key Laboratory of Medical Molecular Virology of Ministries of Education and Health, Shanghai Medical College, Fudan University, Shanghai, China

http://dx.doi.org/10.1016/j.jinf.2013.08.001, How to Cite or Link Using DOI



http://www.sciencedirect.com/science/article/pii/S0163445313002338
 
Re: Journal of Infection: PA-356R is a unique signature of the avian influenza A (H7N9) viruses with bird-to-human transmissibility: potential implication for animal surveillances

it's in all the H7N9, poultry or human
it's the only amino-acid change from the poultry H9N2
(marked "X" below)

Code: 
                                                             000000000000000000000000000000000000000000000
                                                             000000011112222223333333333444444445556666677
                                                             136678900120036670122356899000028991550012801
                                                             971306008341672828637764846035935571463781496
                                                             ---------------------------------------------
                                                             KAIVAMVVDKRIEEKLDIGVEAKSSDDSLSSIMRKLIQKMTIGSK

...................................................................................X......................

>A/Index/birds/2000(H7N9a)                                   .............................................
>A/Index_newMP/H7N9-China/2013/03/,H7N9                      .STI...A......R.N..I.TR.NN.P.CNV....V..L..E.R

>A/duck/Zhejiang/SC410/2013,2013/04/16,China,H7N9            .STIV.........R....I.TR.N..P.C.V.T..V..L..E.R
>A/Zhejiang/HZ1/2013/4/,H7N9                                 .STIV.........R....I.TR.N..P.C.V....V..L..E.R
>A/chicken/Zhejiang/SD033/2013,2013/04/11,China,H7N9         .STIV.........R....I.TR.N..P.C.V....V..L..E.R
>A/Zhejiang/DTID-ZJU01/2013,2013//,H7N9                      .STIV.........R....I.TR.N..P.C.V....V..L..E.R
>A/chicken/Zhejiang/SD007/2013,2013/04/22,China,H7N9         .STI............N..IGTR.N..P.C.V....V..L..E.R
>A/environment/Shanghai/S1437/2013,2013/04/03,China,H7N9     .STI............N..I.TR.N..L.C.V....V..L..E.R
>A/environment/Shanghai/S1438/2013,2013/04/03,China,H7N9     .STI............N..I.TR.N..P.C.V..R.V.RL..E.R
>A/environment/Shanghai/S1436/2013,2013/04/03,China,H7N9     .STI............N..I.TR.N..P.CNV....V.RL..E.R
>A/environment/Shanghai/S1439/2013,2013/04/03,China,H7N9     .STI...A........N..I.TR.N..P.CNV....V..L..E.R
>A/chicken/Shanghai/S1358/2013,2013/04/03,China,H7N9         .STI............N..I.TR.N.AP.CNV....V..L..E.R
>A/chicken/Jiangsu/SC099/2013,2013/04/16,China,H7N9          .STI............N..I.TR.N.AP.CNV....V..L..E.R
>A/chicken/Shanghai/S1413/2013,2013/04/03,China,H7N9         .STI...A......R.N..I.TR.N..P.CNV....V..L..E.R
>A/environment/Shanghai/S1088/2013,2013/04/03,China,H7N9     .STI...A......R.N..I.TR.N..P.CNV....V..L..E.R
>A/poultry/index/East-China/2010,2009//,H9N2 (+H7+N9)        .STI..........R.N..I.T..N..P.CNV....V..L..E.R

>A/chicken/Shanghai/S1080/2013,2013/04/03,China,H7N9         .STI..L...K...R.N..I.TRINN.P.CNV....V..L..E.R
>A/Shanghai/4664T/2013,2013/03/05,China,H7N9                 .STI.V.A....V.R.N..I.TR.NN.P.CNV....V..L.SE..
>A/Index/H7N9-China/2013/03/,H7N9                            .STI...A......R.N..I.TR.NN.P.CNV....V..L..E.R
>A/Index_newMP/H7N9-China/2013/03/,H7N9                      .STI...A......R.N..I.TR.NN.P.CNV....V..L..E.R
>A/Index/H7N9-China/2013/01/31,H7N9,China,throat-swab,65m,E1 .STI...A......R.N..I.TR.NN.P.CNV....V..L..E.R
>A/chicken/Jiangsu/SC537/2013,2013/04/16,China,H7N9          .STI...A......R.N..I.TR.NN.P.CNV....V..L..E.R
>A/chicken/Zhejiang/SD019/2013,2013/04/11,China,H7N9         .STI...A......R.N..I.TR.NN.P.CNV....V..L..E.R
>A/chicken/Shanghai/S1055/2013,2013/04/03,China,H7N9         .STI...A......R.N..I.TR.NN.P.CNV....V..L..E.R
>A/chicken/Shanghai/S1053/2013,2013/04/03,China,H7N9         .STI...A......R.N..I.TR.NN.P.CNV....V..L..E.R
>A/pigeon/Shanghai/S1421/2013,2013/04/03,China,H7N9          .STI...A......R.N..I.TR.NN.P.CNV....V..L..E.R
>A/Anhui/1/2013,H7N9                                         .STI...A......R.N..I.TR.NN.P.CNV....V..L..E.R
>A/Shanghai/02/2013,2013/03/05,China,H7N9                    .STI...A......R.N..I.TR.NN.P.CNV....V..L..E.R
>A/Shanghai/2/2013,H7N9                                      .STI...A......R.N..I.TR.NN.P.CNV....V..L..E.R
>A/Hangzhou/1/2013,2013/03/24,China,H7N9                     .STI...A......R.N..I.TR.NN.P.CNV....V..L..E.R
>A/Hangzhao/1/2013,2013/03/24,H7N9,China,throat-swab,,       .STI...A......R.N..I.TR.NN.P.CNV....V..L..E.R
>A/chicken/Shanghai/S1410/2013,2013/04/03,China,H7N9         .STI...A......R.N..I.TR.NN.P.CNV....V..L..E.R
>A/wild pigeon/Jiangsu/SD001/2013,2013/04/17,China,H7N9      .STI...A......R.N..I.TR.NN.P.CNV....V..L..E.R
>A/chicken/Zhejiang/DTID-ZJU01/2013,2013/04/,China,H7N9      .STI...A......R.N..I.TR.NN.P.CNV....V..L..E.R
>A/chicken/Guangdong/SD641/2013,2013/05/03,China,H7N9        .STI...A......R.N.EI.TR.NN.P.CNV....V..L..E.R
>A/environment/Fujian/SC337/2013,2013/04/30,China,H7N9       .STI...A......R.N..I.TR.NN.P.CNV....V..L..E.R
>A/chicken/Jiangsu/SC035/2013,2013/04/16,China,H7N9          .STI...A......R.N..I.TR.NN.P.CNV....V..L..E.R
>A/duck/Anhui/SC702/2013,2013/04/16,China,H7N9               MSTI...A......R.N..I.TR.NN.P.CNV....V..L..E.R
>A/Fujian/1/2013,2013/04/24,China,H7N9                       .STI...A...T..R.N..I.TR.NN.PVCNV....V..L..E.R
>A/chicken/Jiangxi/SD001/2013,2013/05/03,China,H7N9          .STI...A......R.N..I.TR.NN.P.CNV....V..L..E.R
>A/environment/Nanjing/2913/2013,2013/03/29,China,H7N9       .STI...A......R.NV.I.TR.NN.P.CNV....V..L..E.R
>A/environment-poultry_cage/Nanjing/2913/2013/03/29,H7N9     .STI...A......R.NV.I.TR.NN.P.CNV....V..L..E.R
>A/environment/Wuxi/1/2013,2013/04/02,H7N9                   .STI...A......R.NV.I.TR.NN.P.CNV....V..L..E.R
>A/Nanjing/1/throat_swab/2013/03/28,H7N9                     .STI...A......R.N..I.TR.NN.P.CNV....V..LK.E.R
>A/Taiwan/T02081/2013,2013/04/22,Taiwan,H7N9                 .STI...A.E....RFN..I.TR.NN.P.CNV....VR.L..E.R
>A/Taiwan/S02076/2013,2013/04/22,Taiwan,H7N9                 .STI...ANE....RFN..I.TR.NN.P.CNVL..WVR.L..E.R
>A/homing pigeon/Jiangsu/SD184/2013,2013/04/20,China,H7N9    .STI...A......RFN..I.TR.NN.P.CNV....V..L..E.R
>A/pigeon/Shanghai/S1423/2013,2013/04/03,China,H7N9          .STI...A......RFN..I.TR.NN.P.CNV....V..L..E.R
>A/chicken/Jiangsu/S002/2013,2013/04/16,China,H7N9           .STI...A......R.N..I.TR.NN.P.CNV....V..L..E.R
>A/environment/Shandong/SD049/2013,2013/05/03,China,H7N9     .STI...A......R.N..I.TR.NN.P.CNV....V..L..E.R
>A/environment/Shandong/SD039/2013,2013/05/03,China,H7N9     .STI...A......R.N..I.TR.NN.P.CNV....V..L..E.R
>A/pigeon/Shanghai/S1069/2013,2013/04/02,China,H7N9          .STI...A......R.N..I.TR.NN.P.CNV....V..L..E.R
>A/chicken/Shanghai/S1076/2013,2013/04/03,China,H7N9         .STI...A......R.N..I.TR.NN.P.CNV....V..L..E.R
>A/chicken/Shanghai/S1079/2013,2013/04/03,China,H7N9         .STI...A......R.N..I.TR.NN.P.CNV....V..L..E.R
>A/chicken/Shanghai/S1078/2013,2013/04/03,China,H7N9         .STI...A......R.N..I.TR.NN.P.CNV....V..L..E.R
>A/chicken/Shanghai/S1077/2013,2013/04/03,China,H7N9         .STI...A......R.N..I.TR.NN.P.CNV....V..L..E.R
>A/environment/Henan/SD429/2013,2013/04/24,China,H7N9        .S.I...A......R.N..I.TR.NN.P.CNV....V..L..E.R
>A/environment/Henan/SC232/2013,2013/04/24,China,H7N9        .STI...A......R.N..I.TR.NN.P.CNV....V..L..E.R
>A/Nanchang/1/2013,2013/04/24,China,H7N9                     .STI...A.....GR.N..I.TR.NN.P.CNV....V..L..ETR
>A/environment/Shandong/SD038/2013,2013/05/03,China,H7N9     .STI...A......R.N..I.TR.NN.P.CNV....V..L..E.R
>A/Shanghai/1/2013,H7N9                                      .STI...A......R.N..I.TR.NN.P.CNV....V..L..E.R
>A/Wuxi/2/2013,2013/03/31,H7N9                               .STI...A......R.N..I.TR.NN.P.CNV....V..L..E.R
>A/Wuxi/1/2013,2013/04/02,H7N9                               .STI...A......R.N..I.TR.NN.P.CNV....V..L..E.R
                                                             000000000000000000000000000000000000000000000
                                                             000000011112222223333333333444444445556666677
                                                             136678900120036670122356899000028991550012801
                                                             971306008341672828637764846035935571463781496
                                                             ---------------------------------------------
                                                             KAIVAMVVDKRIEEKLDIGVEAKSSDDSLSSIMRKLIQKMTIGSK


V100A,D394N,S409N are 3 other changes in PA, that are in most H7N9

V100A and S409N had been identified earlier (2007?) as potential avian--> human markers in PA



--------------------------------------------------------------------------------------

avian_position_human markers

PB2:A44S,M64T,A199S,T271A,L475M,D567N,A588I,E627K,A674T,K702R
PA:P28L,D55N,R57Q,V100A,S225C,L268I,A337S,A404S,S409N,T552S
NP:G16D,I61L,L283P,R305K,F313Y,Q357K
M1:V115I,T121A,T137A
NS1:I81M,P215T,E227R

keyword Finkelstein, fluwiki diary 1600

PB2:Q151H,R324S,Y432H
PB1:G370A,S466F,V646M,F665S
PA:L581M,P702L
HA:I7V,M8L,N215Y,V351A
NP:A29V,K192E,D202N,T222M,I373T,Y375D
NA:G95S,E96G,H100Y,L123S,C334S
M1:R222H
NS1:T104M,I134F
M2:
NS2:E89A


brevig hatte T108A(1),A199S(1),T552S(3)


T108A(1),V114I(1),A199S(1),L475M(1),I539V(1),D567N(1),E627K(1),K702R(1)
K54R(2),N375S(2),E383D(2),V473L(2),L576I(2),V645M(2),S654N(2)
P28L(3),D55N(3),V100A(3),C241Y(3),K312R(3),I322V(3),E382D(3),S400L(3),T552S(3),K716R(3)


Chen,Shih:
A684S(1),S216G(2),R204K(3),K356R(3)
T271A(1),V336I(2),K356R(3),S409N(3),V33I(5),R100V(5),R305K(5),Q357K(5)


amino-acid differences brevig vs. i_bird:
T108A(1),V114I(1),A199S(1),L475M(1),I539V(1),D567N(1),E627K(1),K702R(1),
K54R(2),N375S(2),E383D(2),V473L(2),L576I(2),V645M(2),S654N(2),
P28L(3),D55N(3),V100A(3),C241Y(3),K312R(3),I322V(3),E382D(3),S400L(3),T552S(3),K716R(3),
G16D(5),V33I(5),R100I(5),V105M(5),L136M(5),L283P(5),F313Y(5),Q357K(5),N473S(5),
I15V(7),K101R(7),T121A(7),L234I(7),
E70K(8),I178V(8),D207N(8),D209N(8),E227K(8),
 
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