Argentine sequences

[gsgs]

hattip Rwilmer
> Here is the sequence datebase, you may have to register:
http://cii.columbia.edu/H1N1sequencedata.html
I got it without registering. Apparantly no restrictions as with GISAID.
Thanks Argentina and UofColumbia

hattip niman for the blog:
http://neiciiinfluenza.blogspot.com...howComment=1249075001346#c2959169087564184860
I could register with my google-account

all those 11 viruses are the Cancun1-strain, with the typical
11 markers, which caused so few deaths in New York
7785,7937,7953,7967,7980,8019,8574,9576,9588,9597,9711

There is one additional synonymous mutation in all 11 viruses
C1263T(3) and T414C(8) in 5 of them, also synonymous.
These are not seen elsewhere, so it seems as if all these 11 sequences
were descendents from one and the same introduction originating from one travelor
from New York or Cancun.

It doesn't seem to be the virus-mutations which makes it more
severe in Argentina but rather the genetical background,
weather,nutrition,previous flu-exposure/immunity,diet...whatever

mutation table of Argentine Mexflu-viruses
 
              0000000011122 001111122 00011111112 000001111 000001111 000000 0000 000  
              1334478934412 126788911 28801224780 136681124 123790122 337888 4446 134  
              2274523623865 998405189 43815684641 945770280 891335449 174259 3490 561  
              3081033678339 078667473 97079377159 808614218 385674385 682754 5720 174  
-codon-pos.  - 2    2 111   1 2         1 1  1     1111   1  1 111  2 1 12        11   
---Index------GGAACGCTAGGGA CCGAGTTCG CGGGGCAAGAG AGTAGTGAC AGGCGGGGA GCAATC TCGG GAT  
  1 >7785     ------------- ......... .A...T..... G.A.....T .A..A.AA. A.GT.T ..AA .GC  
  2 >7937     ...........A. .T......A .....T..... ..A.A...T .A.A.TAAT A.G.A. ..AA .GC  
  3 >7953     ...........A. --------- .....T..... .AA.....T .A....AA. ------ ..AA .G.  
  4 >7967     A..GTA.C...AG T........ ...AAT..... ..A..C..T CA....AA. ATG... ..AA .G.  
  5 >7980     A..G..T....A. .T....... ..A..T..... ..A.....T .A....AA. A.G... C.AA .G.  
  6 >8019     .A.......A.A. .....C.T. T....TG.AGA ..A.....T .A....AA. A.G... ..AA .G.  
  7 >8574     ...........A. ..A...C.. .....T..... ..AG..AGT .A....AA. A.G... ..AA .G.  
  8 >9576     ------------- .......-- .....T.G... ..A.....T .A....AA. A.G..T ..AA ---  
  9 >9588     ..G........A. ......... .....T.G... ..A.....T .A....AA. A.G..T ..AA AGC  
 10 >9597     ...........A. ....A.... .....T..... ..A.....T .AA..TAA. A.G.A. .TAA .GC  
 11 >9711     ..G.....C.AA. ...G..... .....T..... ..A.....T .A....AA. A.G..T ..AA .GC  
 12 >Index    ............. ......... ........... ......... ......... ...... .... ...  
 13 >Cancun   ...........A. ......... ........... ..A.....T .A....AA. A.G... ..AA .G.  
                                                                                       
---Index------GGAACGCTAGGGA CCGAGTTCG CGGGGCAAGAG AGTAGTGAC AGGCGGGGA GCAATC TCGG GAT  
-codon-pos.  - 2    2 111   1 2         1 1  1     1111   1  1 111  2 1 12        11   
              0000000011122 001111122 00011111112 000001111 000001111 000000 0000 000  
              1334478934412 126788911 28801224780 136681124 123790122 337888 4446 134  
              2274523623865 998405189 43815684641 945770280 891335449 174259 3490 561  
              3081033678339 078667473 97079377159 808614218 385674385 682754 5720 174  
 

considering only mutations which occur more than once:
                                           
              0002 0 11 01 0111 0000 00 00 
              1341 2 24 64 2012 3788 46 34 
              2746 9 64 50 9544 1459 90 61 
              3813 7 37 88 8438 6254 20 74 
-codon-pos.  -        1 11 11   11      1
---Index------GAAG C CA TC GGGG GATC GG AT 
  1 >7785     ---- . T. AT A.AA AG.T AA GC 
  2 >7937     ...A T T. AT ATAA AGA. AA GC 
  3 >7953     ...A - T. AT A.AA ---- AA G. 
  4 >7967     A.GA . T. AT A.AA AG.. AA G. 
  5 >7980     A.GA T T. AT A.AA AG.. AA G. 
  6 >8019     ...A . T. AT A.AA AG.. AA G. 
  7 >8574     ...A . T. AT A.AA AG.. AA G. 
  8 >9576     ---- . TG AT A.AA AG.T AA -- 
  9 >9588     .G.A . TG AT A.AA AG.T AA GC 
 10 >9597     ...A . T. AT ATAA AGA. AA GC 
 11 >9711     .G.A . T. AT A.AA AG.T AA GC 
 12 >Index    .... . .. .. .... .... .. .. 
 13 >Cancun   ...A . .. AT A.AA AG.. AA G.

 

[HenryN]

Re: Argentine sequences

hattip Rwilmer


There is one additional synonymous mutation in all 11 viruses
C1263T(3) and T414C(8) in 5 of them, also synonymous.
These are not seen elsewhere, so it seems as if all these 11 sequences
were descendents from one and the same introduction originating from one travelor
from New York or Cancun.

Please. You CAN'T say that the sequences originated in NY or Cancun. The number of sequences from Mexico is VERY limited and the H1N1 was widespread there long before there were reported cases in NY. You are posting nonsense.

 

[gsgs]

Re: Argentine sequences

you continue to (just routinely) say "nonsense", as you did before.
However the archive proves that not half of what you claim
is "nonsense" is really "nonsense" and in fact I could claim
that you also post "nonsense".
(recombination, please...)

however much of the "nonsense" is just misunderstanding ....



_many_ sequences with the 11 characteristic Cancun markers, originally
have a travel-history to Cancun (e.g. St.Francis ! etc.)

 

[HenryN]

Re: Argentine sequences

however much of the "nonsense" is just misunderstanding ....



_many_ sequences with the 11 characteristic Cancun markers, originally
have a travel-history to Cancun (e.g. St.Francis ! etc.)

Right. And many isolates with no such links also have the markers (and post that I call nonsense are WELL beyond nonsense).

 

[HenryN]

Re: Argentine sequences

C1263T travel log

gb|CY042601.1| Influenza A virus (A/ruddy turnstone/New Jerse... 35.6 0.008
gb|CY042587.1| Influenza A virus (A/ruddy turnstone/New Jerse... 35.6 0.008
gb|CY042578.1| Influenza A virus (A/ruddy turnstone/New Jerse... 35.6 0.008
gb|CY042567.1| Influenza A virus (A/ruddy turnstone/New Jerse... 35.6 0.008
gb|CY042563.1| Influenza A virus (A/ruddy turnstone/New Jerse... 35.6 0.008
gb|CY042548.1| Influenza A virus (A/ruddy turnstone/Delaware/... 35.6 0.008
gb|CY042538.1| Influenza A virus (A/ruddy turnstone/New Jerse... 35.6 0.008
gb|CY042530.1| Influenza A virus (A/ruddy turnstone/New Jerse... 35.6 0.008
gb|CY042526.1| Influenza A virus (A/ruddy turnstone/New Jerse... 35.6 0.008
gb|CY042510.1| Influenza A virus (A/ruddy turnstone/New Jerse... 35.6 0.008
gb|CY042491.1| Influenza A virus (A/ruddy turnstone/New Jerse... 35.6 0.008
gb|CY042487.1| Influenza A virus (A/ruddy turnstone/New Jerse... 35.6 0.008
gb|CY042484.1| Influenza A virus (A/ruddy turnstone/New Jerse... 35.6 0.008
gb|CY042480.1| Influenza A virus (A/ruddy turnstone/New Jerse... 35.6 0.008
gb|CY042472.1| Influenza A virus (A/ruddy turnstone/New Jerse... 35.6 0.008
gb|CY042464.1| Influenza A virus (A/ruddy turnstone/New Jerse... 35.6 0.008
gb|CY042461.1| Influenza A virus (A/ruddy turnstone/New Jerse... 35.6 0.008
gb|CY042446.1| Influenza A virus (A/ruddy turnstone/New Jerse... 35.6 0.008
gb|CY042436.1| Influenza A virus (A/ruddy turnstone/New Jerse... 35.6 0.008
gb|CY042433.1| Influenza A virus (A/sanderling/New Jersey/Sg-... 35.6 0.008
gb|CY042424.1| Influenza A virus (A/ruddy turnstone/New Jerse... 35.6 0.008
gb|CY042418.1| Influenza A virus (A/ruddy turnstone/Delaware/... 35.6 0.008
gb|CY042414.1| Influenza A virus (A/ruddy turnstone/Delaware/... 35.6 0.008
gb|CY042409.1| Influenza A virus (A/ruddy turnstone/New Jerse... 35.6 0.008
gb|CY042406.1| Influenza A virus (A/ruddy turnstone/Delaware/... 35.6 0.008
gb|CY042166.1| Influenza A virus (A/blue-winged teal/Louisian... 35.6 0.008
gb|CY042155.1| Influenza A virus (A/mallard/Minnesota/Sg-0018... 35.6 0.008
gb|GQ257438.1| Influenza A virus (A/duck/New York/492652/2007... 35.6 0.008
gb|GQ257452.1| Influenza A virus (A/mallard/Maryland/13/2003(... 35.6 0.008
gb|FJ784805.1| Influenza A virus (A/chicken/Hubei/3002/2007(H... 35.6 0.008
gb|FJ784804.1| Influenza A virus (A/duck/Hubei/2911/2007(H5N1... 35.6 0.008
gb|FJ784797.1| Influenza A virus (A/duck/Henan/1650/2006(H5N1... 35.6 0.008
gb|FJ784793.1| Influenza A virus (A/duck/Hunan/689/2006(H5N1)... 35.6 0.008
gb|FJ686719.1| Influenza A virus (A/mallard/Ohio/362/2003(H2N... 35.6 0.008
gb|FJ686735.1| Influenza A virus (A/mallard/Ohio/365/2003(H2N... 35.6 0.008
gb|FJ517299.1| Influenza A virus (A/mallard/Minnesota/354/199... 35.6 0.008
dbj|AB434327.1| Influenza A virus (A/swine/Chachoengsao/NIAH5... 35.6 0.008
dbj|AB434319.1| Influenza A virus (A/swine/Chonburi/NIAH589/2... 35.6 0.008
gb|CY036631.1| Influenza A virus (A/duck/Massachusetts/Sg-004... 35.6 0.008
gb|CY036552.1| Influenza A virus (A/unknown/New York/Sg-00420... 35.6 0.008
gb|CY036545.1| Influenza A virus (A/unknown/New York/Sg-00418... 35.6 0.008
gb|CY036509.1| Influenza A virus (A/unknown/New York/Sg-00409... 35.6 0.008
gb|CY036060.1| Influenza A virus (A/crested goshawk/Hong Kong... 35.6 0.008
gb|CY036052.1| Influenza A virus (A/scaly-breasted munia/Hong... 35.6 0.008
gb|CY035351.1| Influenza A virus (A/mallard/Minnesota/Sg-0020... 35.6 0.008
gb|CY035298.1| Influenza A virus (A/mallard/Minnesota/Sg-0017... 35.6 0.008
gb|CY033768.2| Influenza A virus (A/mallard duck/Minnesota/Sg... 35.6 0.008
gb|FJ357117.1| Influenza A virus (A/mallard/MD/26/2003(H1N1))... 35.6 0.008
gb|FJ357125.1| Influenza A virus (A/mallard/MD/41/2003(H1N1))... 35.6 0.008
gb|FJ357133.1| Influenza A virus (A/mallard/MD/42/2003(H1N1))... 35.6 0.008
gb|FJ357141.1| Influenza A virus (A/mallard/MD/53/2003(H1N1))... 35.6 0.008
gb|CY034644.1| Influenza A virus (A/blue-winged teal/Texas/Sg... 35.6 0.008
gb|EU980506.1| Influenza A virus (A/mallard/MD/185/2003(H5N2)... 35.6 0.008
gb|EU980513.1| Influenza A virus (A/mallard/MD/11/2003(H1N1))... 35.6 0.008
gb|EU980521.1| Influenza A virus (A/mallard/MD/199/2003(H1N1)... 35.6 0.008
gb|CY033767.1| Influenza A virus (A/mallard duck/Minnesota/Sg... 35.6 0.008
gb|EU871897.1| Influenza A virus (A/mallard/MN/323/1999(H4N8)... 35.6 0.008
gb|EU743200.1| Influenza A virus (A/chicken/NY/11602-12/1998(... 35.6 0.008
gb|EU743462.1| Influenza A virus (A/mallard/MN/42/2000(H11N9)... 35.6 0.008
gb|EU743533.1| Influenza A virus (A/mallard/MN/280/1999(H3N5)... 35.6 0.008
gb|EU743132.1| Influenza A virus (A/duck/NY/191255-59/2002(H5... 35.6 0.008
gb|EU743230.1| Influenza A virus (A/duck/NY/186875/2002(H5N2)... 35.6 0.008
gb|EU182317.1| Influenza A virus (A/chicken/NY/14677-13/1998(... 35.6 0.008
gb|EU084951.1| Influenza A virus (A/Duck/NY/185502/2002(H5N2)... 35.6 0.008
gb|EU026087.1| Influenza A virus (A/mallard/MD/403/2002(H1N1)... 35.6 0.008
gb|CY022610.1| Influenza A virus (A/green-winged teal/Ohio/12... 35.6 0.008
gb|CY021658.1| Influenza A virus (A/black duck/Ohio/161/1999(... 35.6 0.008
gb|CY021642.1| Influenza A virus (A/mallard/Delaware/418/2005... 35.6 0.008
gb|CY021354.1| Influenza A virus (A/green-winged teal/Ohio/12... 35.6 0.008
gb|CY021338.1| Influenza A virus (A/mallard/Maryland/1241/200... 35.6 0.008
gb|CY021250.1| Influenza A virus (A/american black duck/Ohio/... 35.6 0.008
gb|CY020922.1| Influenza A virus (A/environment/Ohio/1007/200... 35.6 0.008
gb|CY020794.1| Influenza A virus (A/mallard/Ohio/668/2002(H4N... 35.6 0.008
gb|DQ997128.1| Influenza A virus (A/chicken/Hubei/wk/1997(H5N... 35.6 0.008
gb|CY015070.1| Influenza A virus (A/turkey/England/1963(H7N3)... 35.6 0.008
gb|CY015057.1| Influenza A virus (A/chicken/Brescia/1902(H7N7... 35.6 0.008
gb|CY015051.1| Influenza A virus (A/fowl/Rostock/45/1934(H7N1... 35.6 0.008
gb|CY014996.1| Influenza A virus (A/fowl/Dobson/1927(H7N7)) s... 35.6 0.008
gb|CY014893.1| Influenza A virus (A/duck/New York/16873/1999(... 35.6 0.008
gb|CY014885.1| Influenza A virus (A/chicken/New York/14677-13... 35.6 0.008
gb|CY014676.1| Influenza A virus (A/chicken/Germany/n/1949(H1... 35.6 0.008
gb|CY005820.1| Influenza A virus (A/duck/Czechoslovakia/1956(... 35.6 0.008
gb|CY005229.1| Influenza A virus (A/mallard/ALB/5/1995(H10N1)... 35.6 0.008
gb|CY004908.1| Influenza A virus (A/blue-winged teal/ALB/293/... 35.6 0.008
gb|CY004448.1| Influenza A virus (A/shorebird/DE/68/2004(H13N... 35.6 0.008
gb|CY004916.1| Influenza A virus (A/mallard/ALB/49/1995(H4N6)... 35.6 0.008
gb|AF285890.1|AF285890 Influenza A virus (A/Swine/Ontario/019... 35.6 0.008
emb|X17223.1| Influenza A virus (A/FPV/Rostock/34(H7N1)) gene... 35.6 0.008
gb|AY684885.1| Influenza A virus (A/black-headed gull/Sweden/... 35.6 0.008
gb|AY684883.1| Influenza A virus (A/black-headed gull/Sweden/... 35.6 0.008
emb|AJ243992.1| Influenza A virus (STRAIN A/FOWL PLAGUE VIRUS... 35.6 0.008
gb|M21850.1|FLAPACR Influenza A virus (A/chicken/FPV/Rostock/... 35.6 0.008

 

[gsgs]

Re: Argentine sequences

virus-code
#mutations from Index(1.Feb.2009)
difference from index in %
#mutations from Cancun-Index
difference from Cancun-Index in %

7785:17,0.15,07,0.06
7937:20,0.15,09,0.06
7953:11,0.11,02,0.02
7967:24,0.18,13,0.09
7980:18,0.13,07,0.05
8019:21,0.19,10,0.10
8574:17,0.12,06,0.04
9576:12,0.12,03,0.03
9588:17,0.13,06,0.04
9597:18,0.14,07,0.06
9711:18,0.14,07,0.05

7 mutations in average since April, 11 mutations ~Feb.-~April
for creation of the Cancun virus