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H5N1 Italian Mallard Has H2 Polymorphisms 

Recombinomics Commentary

March 21, 2006

HA sequence of  H5N1 from an Italian mallard, A/mallard/Italy/332/2006(H5N1), has become available at GenBank.  It is clearly another Qinghai strain, but is distinct from earlier isolates.  One polymorphism, G130A, is found in prior H2 isolates, and another polymorphism, G1006T, is found in Qinghai strains from Nigeria, Iraq, Kurgan, Tula, and Mongolia, it is also found in H2 isolates.

Each new sequence highlights the need for immediate release of  H5N1 sequences sequestered in a private WHO database.


   DQ449031 A/mallard/Italy/332/2006                        2006  H5N1
   AF116206  A/Ruddy turnstone/Delaware/142/98   1998  H2N8   
   AF116209  A/Shorebird/Delaware/24/98                1998  H2N1   
   AF116210  A/Shorebird/Delaware/111/97              1997  H2N1   
   AF116211  A/Shorebird/Delaware/138/97              1997  H2N1   
   AF116207  A/Ruddy turnstone/Delaware/34/93     1993  H2N1   
   AF116208  A/Ruddy turnstone/Delaware/81/93     1993  H2N1   
   CY005808  A/gull/Maryland/19/1977                        1977  H2N9   
   L11130  A/Gull/Maryland/19/77                                 1977  H2N8  


   DQ406728  A/chicken/Nigeria/641/2006                        2006  H5N1   
   DQ435200  A/domestic cat/Iraq/820/2006                     2006  H5N1   
   DQ435201  A/domestic goose/Iraq/812/2006               2006  H5N1   
   DQ435202  A/Iraq/207-NAMRU3/2006                          2006  H5N1
   DQ449031 A/mallard/Italy/332/2006                               2006  H5N1   
   DQ320910  A/chicken/Hunan/999/2005                         2005  H5N1   
   DQ323672  A/chicken/Kurgan/3/2005                            2005  H5N1   
   DQ279301  A/chicken/Tula/10/2005                               2005  H5N1   
   DQ095630  A/Duck/Hunan/114/05                                 2005  H5N1   
   DQ320902  A/duck/Hunan/127/2005                              2005  H5N1   
   DQ320903  A/duck/Hunan/139/2005                              2005  H5N1   
   DQ320904  A/duck/Hunan/149/2005                              2005  H5N1   
   DQ320906  A/duck/Hunan/157/2005                              2005  H5N1   
   DQ320907  A/duck/Hunan/160/2005                              2005  H5N1   
   DQ320908  A/duck/Hunan/166/2005                              2005  H5N1   
   DQ320909  A/duck/Hunan/182/2005                              2005  H5N1   
   DQ095631  A/Duck/Hunan/191/05                                 2005  H5N1   
   DQ230522  A/duck/Novosibirsk/56/2005                       2005  H5N1   
   DQ212792  A/goose/Novosibirsk/4/2005                      2005  H5N1   
   AB233320  A/whooper swan/Mongolia/3/05                  2005  H5N1   
   AB233321  A/whooper swan/Mongolia/4/05                  2005  H5N1   
   AB233322  A/whooper swan/Mongolia/6/05                  2005  H5N1   
   ISDN48980  A/Chicken/Guang xi/12/2004                     2004  H5N1   
   ISDN48989  A/Duck/Guang xi/13/2004                           2004  H5N1   
   ISDN40326  A/Chicken/Vietnam/Ncvd8/2003                2003  H5N1   
   CY003992  A/mallard/Alberta/79/2003                            2003  H2N3   
   CY003984  A/mallard/Alberta/149/2002                         2002  H2N4   
   AY633196  A/mallard/Alberta/205/1998                         1998  H2N3   
   CY003968  A/mallard/Alberta/205/1998                         1998  H2N3   
   CY003976  A/mallard/Alberta/226/1998                          1998  H2N3   
   AY633228  A/mallard/Alberta/226/98                               1998  H2N3   
   CY003960  A/blue-winged teal/Alberta/16/1997             1997  H2N9   
   AY633364  A/pintail/Alberta/22/97                                     1997  H2N9   
   AY633388  A/teal/Alberta/16/97                                         1997  H2N9   
   CY003944  A/mallard/Alberta/201/1996                            1996  H2N3   
   CY003952  A/mallard/Alberta/202/1996                            1996  H2N5   
   AY633180  A/mallard/Alberta/202/1996                             1996  H2N5   
   AB241616  A/swan/Hokkaido/4/96                                     1996  H5N3   
   AB241617  A/swan/Hokkaido/51/96                                   1996  H5N3   
   AB241618  A/swan/Hokkaido/67/96                                   1996  H5N3   
   L11131       A/guinea/NJ/3070/91                                        1991  H2N2   
   CY005413  A/semi-palmated sandpiper/Brazil/43/1990  1990  H2N1   
   CY003936  A/mallard duck/Alberta/353/1988                    1988  H2N3   
   L11135       A/mallard/Alberta/353/88                                  1988  H2N3   
   CY003922  A/laughing gull/New Jersey/798/1986             1986  H2N7   
   CY003887  A/sanderling/New Jersey/766/1986                1986  H2N7   
   CY003879  A/mallard duck/Alberta/376/1985                    1985  H2N3   
   CY003871  A/mallard duck/Alberta/884/1984                    1984  H2N5   
   L11137       A/mallard/NY/6750/78                                       1978  H2N2   
   CY003855  A/pintail/Alberta/293/1977                               1977  H2N9   
   L11138       A/mallard/Ontario/56/76                                   1976  H2N3 

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