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Volume 12, Number 9—September 2006
Research

Genomic Signatures of Human versus Avian Influenza A Viruses

Guang-Wu Chen*1, Shih-Cheng Chang*1, Chee-Keng Mok*, Yu-Luan Lo*, Yu-Nong Kung*, Ji-Hung Huang*, Yun-Han Shih*, Ji-Yi Wang*, Chiayn Chiang*, Chi-Jene Chen*, and Shin-Ru Shih*Comments to Author 
Author affiliations: *Chang Gung University, Taoyuan, Taiwan, Republic of China

Main Article

Table A2

Listing of 60 human-isolated avian influenza viruses used in this study, with the first 29 strains contain at least one accession per genomic segment. All accessions here are according to GenBank, except those ones begin with 'ISD', which are from Influenza Sequence Database (ISD). Cells with 'n/a' in PB1-F2 column indicate that the PB1 RNA sequence did not contain the PB1-F2 ORF, while 'truncated' represent early-terminated PB1-F2 with a length less than 87-aa. Exclusion of those PB1-F2 leaves us 21 genomes for inspecting the species-associated mutations as described in the text.

Strain Name PB2 PB1 PB1-F2 PA HA NP NA M1 M2 NS1 NS2
A/HongKong/156/97(H5N1) AF036363 AF036362 AF036362 AF084267 AF028709 AF028710 AF036357 AF036358 AF036358 AF036360 AF036360
A/HongKong/481/97(H5N1) AF115290 AF258818 AF258818 AF115294 AF046096 AJ289873 AF084271 AF115286 AF115286 AF115288 AF115288
A/HongKong/482/97(H5N1) AF258838 AF258819 AF084264 AF084268 AF046098 AF255745 AF084272 AF084282 AF084282 AF084285 AF084285
A/HongKong/483/97(H5N1) AF258839 AF258820 AF084265 AF084269 AF046097 AF084277 AF084273 AF255367 AF255367 AF084286 AF084286
A/HongKong/485/97(H5N1) AF084263 AF084266 truncated AF084270 AF102681 AF084278 AF084274 AF084284 AF084284 AF084287 AF084287
A/HongKong/486/97(H5N1) AF115291 AF115293 AF115293 AF115295 AF102671 AF115285 AF084275 AF255368 AF255368 AF256181 AF256181
A/HongKong/488/97(H5N1) AF258848 AF258829 n/a AF257204 AF102672 AF255756 AF102657 AF255377 AF255378 AF256190 AF256190
A/HongKong/491/97(H5N1) AF258849 AF258830 n/a AF257205 AF102677 AF255758 AF102665 AF255379 AF255380 AF256191 AF256191
A/HongKong/503/97(H5N1) AF258850 AF258831 n/a AF257206 AF102679 AF255760 AF102666 AF255381 AF255381 AF256192 AF256192
A/HongKong/507/97(H5N1)
AF258851
AF258832
n/a
AF257207
AF102675
AF255762
AF102659
AF255382
AF255382
AF256193
AF256193
A/HongKong/514/97(H5N1) AF258852 AF258833 n/a AF257208 AF102682 AF255764 AF102669 AF255383 AF255383 AF256184 AF256184
A/HongKong/516/97(H5N1) AF258853 AF258834 n/a AF257209 AF102673 AF255766 AF102660 AF255384 AF255384 AF256194 AF256194
A/HongKong/532/97(H5N1) AF258843 AF258824 AF258824 AF257199 AF102680 AF255750 AF102667 AF255371 AF255371 AF256185 AF256185
A/HongKong/538/97(H5N1) AF258844 AF258825 AF258825 AF257200 AF102674 AF255751 AF102662 AF255372 AF255372 AF256186 AF256186
A/HongKong/542/97(H5N1) AF258845 AF258826 AF258826 AF257201 AF102678 AF255752 AF102670 AF255373 AF255373 AF256187 AF256187
A/HongKong/97/98(H5N1) AF258846 AF258827 AF258827 AF257202 AF102676 AF255753 AF102661 AF255374 AF255374 AF256188 AF256188
A/HongKong/212/03(H5N1) AY576380 AY576392 AY576392 AY576404 AY575869 AY575905 AY575881 AY575893 AY575893 AY576368 AY576368
A/HongKong/213/2003(H5N1) AY576381 AB212052 AY576393 AB212053 AB212054 AB212055 AB212056 AB212057 AB212057 AY576369 AY576369
A/Thailand/16/2004(H5N1) ISDN40383 ISDN40859 ISDN40859 ISDN40940 ISDN40341 ISDN40086 ISDN48790 ISDN45755 ISDN45755 ISDN40040 ISDN40040
A/Thailand/SP83/2004(H5N1)
ISDN49457
ISDN40931
ISDN40931
ISDN121933
ISDN40917
ISDN41067
ISDN48792
ISDN111182
ISDN111182
ISDN41028
ISDN41028
A/Vietnam/1194/2004(H5N1) AY651718 AY651664 AY651664 AY651610 AY651333 AY651498 ISDN38703 ISDN39957 ISDN39957 AY651552 AY651552
A/Vietnam/1196/04(H5N1) AY526752 AY526751 AY526751 AY526750 AY526745 AY526749 AY526746 AY526748 AY526748 AY526747 AY526747
A/Vietnam/1203/2004(H5N1) AY651719 AY818129 AY651665 AY818132 ISDN38687 AY818138 AY651447 AY651388 AY651388 AY651553 AY651553
A/Vietnam/3046/2004(H5N1) AY651720 AY651666 AY651666 AY651613 AY651335 AY651500 AY651446 AY651389 AY651389 AY651554 AY651554
A/Vietnam/3062/2004(H5N1) AY651721 AY651667 AY651667 AY651612 AY651336 AY651501 AY651448 AY651390 AY651390 AY651555 AY651555
A/Netherlands/219/03(H7N7) AAR04358 AAR05983 AY340083 AAR04363 AAR02640 AAR04370 AAR11367 AAR11371 AY340089 AAR04367 AY342422
A/Guangzhou/333/99(H9N2) AY043030 AY043029 truncated AY043028 AY043019 AY043026 AY043024 AY043025 AY043025 AY043027 AY043027
A/HongKong/1073/99(H9N2) AF258835 AF258816 AF258816 AF257191 AJ404626 AJ289871 AJ404629 AF255363 AF255363 AJ278649 AJ278649
A/HongKong/1074/99(H9N2) AF258836 AF258817 AF258817 AF257192 AJ404627 AJ289872 AJ404628 AF255364 AF255364 AF256177 AF256177
A/England/268/96(H7N7)
 
 
 
 
AF028020
 
 
 
 
 
 
A/Shantou/239/98(H9N2)         AY043015   AY043021        
A/Shaoguan/408/98(H9N2)         AY043017   AY043022        
A/Shaoguan/447/98(H9N2)         AY043018   AY043023        
A/unknown/149717-12/2002(H7N2)               DQ107480 DQ107480    
A/Netherlands/124/03(H7N7) AAR04355 AAR05980 AY340080 AAR04360     AAR11364 AAR11368 AY340086    
A/Netherlands/126/03(H7N7) AAR04356 AAR05981 AY340081 AAR04361     AAR11363 AAR11369 AY340087    
A/Netherlands/127/03(H7N7) AAR04357 AAR05982 AY340082 AAR04362 AAR02636     AAR11370 AY340088 AAR04366 AY342421
A/Netherlands/33/03(H7N7)   AAR05984 AY340084 AAR04364 AAR02638 AAR04371 AAR11366 AAR11372 AY340090 AAR04368 AY342423
A/Hanoi/03/2004(H5N1)         AJ715872 AJ715873          
A/Hatay/2004(H5N1)
 
 
 
 
AJ867074
AJ867076
AJ867075
AM040045
AM040045
AM040046
AM040046
A/Prachinburi/6231/2004(H5N1)         ISDN110940   ISDN110939        
A/Thailand/1-KAN-1/2004(H5N1)         AY555150   AY555151        
A/Thailand/2-SP-33/2004(H5N1)         AY555153   AY555152        
A/Thailand/Chaiyaphum/622/2004(H5N1)         ISDN49460   ISDN48793 ISDN111184 ISDN111184    
A/Thailand/EKA2NF/2004(H5N1)             AY535029        
A/Thailand/Kamphaengphet-Nontaburi/04(H5N1)         AY786078   AY786079        
A/Thailand/Kan353/2004(H5N1)         ISDN40918   ISDN48791 ISDN111183 ISDN111183    
A/Thailand/Prachinburi/6231/2004(H5N1)               ISDN111185 ISDN111185    
A/Thailand/LFPN-2004/2004(H5N1)         AY679514   AY679513        
A/Vietnam/1194/2004(H5N1)
 
 
 
 
ISDN38686
 
AY651445
AY651387
AY651387
 
 
A/Vietnam/1204/2004(H5N1) ISDN40380 ISDN40843 ISDN40843 ISDN121932 ISDN38688         ISDN40017 ISDN40017
A/Vietnam/3212/2004(H5N1)         ISDN40278            
A/Vietnam/DN-33/2004(H5N1)         AY720950   AY720948     AY720949 AY720949
A/Vietnam/JP178/2004(H5N1)         ISDN69608   ISDN69610        
A/Vietnam/HN/2004(H5N1) AY720954 AY720955 n/a AY720952   AY720953   AY720951 AY720951    
A/Cambodia/JP52a/2005(H5N1)         ISDN121986   ISDN122818        
A/Hanoi/30408/2005(H5N1)         ISDN129400            
A/Vietnam/HN30408/2005(H5N1)         ISDN119678   ISDN119679        
A/Vietnam/JP14/2005(H5N1)         ISDN117778   ISDN117783        
A/Vietnam/JP4207/2005(H5N1)         ISDN117777   ISDN117782        
A/Vietnam/JPHN30321/2005(H5N1)         ISDN118371            

Main Article

1These authors contributed equally to this article.

Page created: November 18, 2011
Page updated: November 18, 2011
Page reviewed: November 18, 2011
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