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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.
G130A
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
G1006T
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
Map