Re: July San Paolo Sequence Released
The problem is that is was bad a biology in high school so I really don't understand any of this. Especially deoxyribonucleic acid.
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July San Paolo Sequence Released
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Re: July San Paolo Sequence Released
So this mutation found was V252M, and not V252I, found in 1918?
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Re: July San Paolo Sequence Released
Originally posted by niman View PostUpdated travel log 2
gb|GQ414768.1| Influenza A virus (A/Sao Paulo/43812/2009(H1N1... 38.2 0.19
gb|GQ411907.1| Influenza A virus (A/Shanghai/143T/2009(H1N1))... 38.2 0.19
gb|GQ402203.1| Influenza A virus (A/Canada-MB/RV1982/2009(H1N... 38.2 0.19
gb|GQ392029.1| Influenza A virus (A/Italy/127/2009(H1N1)) seg... 38.2 0.19
gb|GQ368664.1| Influenza A virus (A/Sao Paulo/2233/2009(H1N1)... 38.2 0.19
gb|GQ330653.1| Influenza A virus (A/Italy/56/2009(H1N1)) segm... 38.2 0.19
gb|GQ329076.1| Influenza A virus (A/Paris/2722/2009(H1N1)) se... 38.2 0.19
gb|CY041830.1| Influenza A virus (A/New York/3348/2009(H1N1))... 38.2 0.19
gb|CY041822.1| Influenza A virus (A/New York/3352/2009(H1N1))... 38.2 0.19
gb|CY041782.1| Influenza A virus (A/New York/3337/2009(H1N1))... 38.2 0.19
gb|GQ323551.1| Influenza A virus (A/Massachusetts/08/2009(H1N... 38.2 0.19
gb|GQ323451.1| Influenza A virus (A/Rhode Island/03/2009(H1N1... 38.2 0.19
gb|GQ323446.1| Influenza A virus (A/Maine/03/2009(H1N1)) segm... 38.2 0.19
gb|GQ287625.1| Influenza A virus (A/Tokushima/1/2009(H1N1)) s... 38.2 0.19
gb|GQ283493.1| Influenza A virus (A/Finland/555/2009(H1N1)) s... 38.2 0.19
gb|GQ232044.1| Influenza A virus (A/Rhode Island/02/2009(H1N1... 38.2 0.19
gb|GQ232007.1| Influenza A virus (A/Vermont/03/2009(H1N1)) se... 38.2 0.19
gb|GQ200287.1| Influenza A virus (A/Shandong/1/2009(H1N1)) se... 38.2 0.19
gb|GQ166222.1| Influenza A virus (A/Italy/07/2009(H1N1)) segm... 38.2 0.19
A/Canada-MB/RV2020/2009
A/Canada-MB/RV2013/2009
A/Canada-MB/RV1977/2009
A/Canada-MB/RV2023/2009
A/Canada-MB/RV1964/2009
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Re: July San Paolo Sequence Released
Note that the 2001 Hong Kong swine has 2 of the 3 polymorphisms (no random mutations required).
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Re: July San Paolo Sequence Released
Updated travel log 3
gb|GQ414768.1| Influenza A virus (A/Sao Paulo/43812/2009(H1N1... 34.2 2.9
gb|GQ377095.1| Influenza A virus (A/California/24/2009(H1N1))... 34.2 2.9
gb|GQ359765.1| Influenza A virus (A/Stockholm/31/2009(H1N1)) ... 34.2 2.9
gb|GQ292961.1| Influenza A virus (A/Mexico City/22/2009(H1N1)... 34.2 2.9
gb|GQ229293.1| Influenza A virus (A/swine/Hong Kong/NS1659/20... 34.2 2.9
gb|GQ232085.1| Influenza A virus (A/Guangdong/02/2009(H1N1)) ... 34.2 2.9
gb|GQ223435.1| Influenza A virus (A/Guangdong/05/2009(H1N1)) ... 34.2 2.9
gb|GQ132144.1| Influenza A virus (A/Canada-ON/RV1529/2009(H1N... 34.2 2.9
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Re: July San Paolo Sequence Released
Updated travel log 2
gb|GQ414768.1| Influenza A virus (A/Sao Paulo/43812/2009(H1N1... 38.2 0.19
gb|GQ411907.1| Influenza A virus (A/Shanghai/143T/2009(H1N1))... 38.2 0.19
gb|GQ402203.1| Influenza A virus (A/Canada-MB/RV1982/2009(H1N... 38.2 0.19
gb|GQ392029.1| Influenza A virus (A/Italy/127/2009(H1N1)) seg... 38.2 0.19
gb|GQ368664.1| Influenza A virus (A/Sao Paulo/2233/2009(H1N1)... 38.2 0.19
gb|GQ330653.1| Influenza A virus (A/Italy/56/2009(H1N1)) segm... 38.2 0.19
gb|GQ329076.1| Influenza A virus (A/Paris/2722/2009(H1N1)) se... 38.2 0.19
gb|CY041830.1| Influenza A virus (A/New York/3348/2009(H1N1))... 38.2 0.19
gb|CY041822.1| Influenza A virus (A/New York/3352/2009(H1N1))... 38.2 0.19
gb|CY041782.1| Influenza A virus (A/New York/3337/2009(H1N1))... 38.2 0.19
gb|GQ323551.1| Influenza A virus (A/Massachusetts/08/2009(H1N... 38.2 0.19
gb|GQ323451.1| Influenza A virus (A/Rhode Island/03/2009(H1N1... 38.2 0.19
gb|GQ323446.1| Influenza A virus (A/Maine/03/2009(H1N1)) segm... 38.2 0.19
gb|GQ287625.1| Influenza A virus (A/Tokushima/1/2009(H1N1)) s... 38.2 0.19
gb|GQ283493.1| Influenza A virus (A/Finland/555/2009(H1N1)) s... 38.2 0.19
gb|GQ232044.1| Influenza A virus (A/Rhode Island/02/2009(H1N1... 38.2 0.19
gb|GQ232007.1| Influenza A virus (A/Vermont/03/2009(H1N1)) se... 38.2 0.19
gb|GQ200287.1| Influenza A virus (A/Shandong/1/2009(H1N1)) se... 38.2 0.19
gb|GQ166222.1| Influenza A virus (A/Italy/07/2009(H1N1)) segm... 38.2 0.19
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Re: July San Paolo Sequence Released
Updated travel log
gb|GQ414768.1| Influenza A virus (A/Sao Paulo/43812/2009(H1N1... 32.2 11
gb|GQ229293.1| Influenza A virus (A/swine/Hong Kong/NS1659/20... 32.2 11
gb|EU521831.1| Influenza A Virus (A/Yurimaguas/FLU4785/2006(H... 32.2 11
gb|EU521815.1| Influenza A Virus (A/Chanchamayo/FLU4292/2006(... 32.2 11
gb|EU521813.1| Influenza A Virus (A/Chanchamayo/FLU4036/2006(... 32.2 11
gb|EU521812.1| Influenza A Virus (A/Chanchamayo/FLU4032/2006(... 32.2 11
gb|EU521807.1| Influenza A virus (A/Chanchamayo/FLU3954/2006(... 32.2 11
gb|DQ431990.1| Influenza A virus (A/swine/Taiwan/CO935/2004(H... 32.2 11
gb|DQ447187.1| Influenza A virus (A/swine/Taiwan/CO935/2004(H... 32.2 11
gb|AY060041.1| Influenza A virus (A/SW/NE/21147/01(H1N2)) hem... 32.2 11
gb|CY009332.1| Influenza A virus (A/Fort Worth/50(H1N1)) segm... 32.2 11
gb|CY008988.1| Influenza A virus (A/Denver/57(H1N1)) segment ... 32.2 11
gb|AY377929.1| Influenza A virus (A/swine/Taichung/200-8/2002... 32.2 11
gb|AF117241.1|AF117241 Influenza A virus (A/South Carolina/1/... 32.2 11
dbj|D00837.1|FLA39HA Influenza A virus (A/swine/Cambridge/193... 32.2 11
dbj|AB043486.1| Influenza A virus (A/Saga/2/1957(H1N1)) HA ge... 32.2 11
dbj|AB043485.1| Influenza A virus (A/Meguro/1/1956(H1N1)) HA ... 32.2 11
dbj|AB043484.1| Influenza A virus (A/Yamagishi/55(H1N1)) HA g... 32.2 11
dbj|AB043483.1| Influenza A virus (A/Taiwan/13/1954(H1N1)) HA... 32.2 11
dbj|AB043482.1| Influenza A virus (A/Kojiya/1/1952(H1N1)) HA ... 32.2 11
gb|AF116576.1|AF116576 Influenza A virus (A/New_York/1/18(H1N... 32.2 11
gb|AF116575.1|AF116575 Influenza A virus (A/Brevig_Mission/1/... 32.2 11
gb|U04859.1|IAU04859 Influenza A virus (H1N1) A/swine/Cambrid... 32.2 11
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Re: July San Paolo Sequence Released
Originally posted by gsgs View Postdo we have data from the other Brasil cases ?
Some sequences are Mexico-City , pre-Cancun and
some Cancun (with S220T in HA)
It could be that the Mexico-City strain is more virulent in average,
I think we should try to figure that out so other countries
can avoid it.
gb|GQ402203.1| Influenza A virus (A/Canada-MB/RV1982/2009(H1N... 35.6 0.008
gb|GQ392029.1| Influenza A virus (A/Italy/127/2009(H1N1)) seg... 35.6 0.008
gb|GQ368664.1| Influenza A virus (A/Sao Paulo/2233/2009(H1N1)... 35.6 0.008
gb|GQ330653.1| Influenza A virus (A/Italy/56/2009(H1N1)) segm... 35.6 0.008
gb|GQ329076.1| Influenza A virus (A/Paris/2722/2009(H1N1)) se... 35.6 0.008
gb|CY041830.1| Influenza A virus (A/New York/3348/2009(H1N1))... 35.6 0.008
gb|CY041822.1| Influenza A virus (A/New York/3352/2009(H1N1))... 35.6 0.008
gb|CY041782.1| Influenza A virus (A/New York/3337/2009(H1N1))... 35.6 0.008
gb|GQ323551.1| Influenza A virus (A/Massachusetts/08/2009(H1N... 35.6 0.008
gb|GQ323451.1| Influenza A virus (A/Rhode Island/03/2009(H1N1... 35.6 0.008
gb|GQ323446.1| Influenza A virus (A/Maine/03/2009(H1N1)) segm... 35.6 0.008
gb|GQ287625.1| Influenza A virus (A/Tokushima/1/2009(H1N1)) s... 35.6 0.008
gb|GQ283493.1| Influenza A virus (A/Finland/555/2009(H1N1)) s... 35.6 0.008
gb|GQ232044.1| Influenza A virus (A/Rhode Island/02/2009(H1N1... 35.6 0.008
gb|GQ232007.1| Influenza A virus (A/Vermont/03/2009(H1N1)) se... 35.6 0.008
gb|GQ200287.1| Influenza A virus (A/Shandong/1/2009(H1N1)) se... 35.6 0.008
gb|GQ166222.1| Influenza A virus (A/Italy/07/2009(H1N1)) segm... 35.6 0.008
Leave a comment:
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Re: July San Paolo Sequence Released
Originally posted by gsgs View Postdo we have data from the other Brasil cases ?
Some sequences are Mexico-City , pre-Cancun and
some Cancun (with S220T in HA)
It could be that the Mexico-City strain is more virulent in average,
I think we should try to figure that out so other countries
can avoid it.
Leave a comment:
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Re: July San Paolo Sequence Released
do we have data from the other Brasil cases ?
Some sequences are Mexico-City , pre-Cancun and
some Cancun (with S220T in HA)
It could be that the Mexico-City strain is more virulent in average,
I think we should try to figure that out so other countries
can avoid it.
Leave a comment:
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Re: July San Paolo Sequence Released
Originally posted by Mamabird View PostI'm totally confused. How does V252M in Swine Flu have anything to do with 1918 H1N1? I see no comparison whatsoever with SC, BM, NY, etc. Are we looking at the same sequences?
The recombination happens at the nucleotide level, and the travel log represent nucleotide identity for the non-synonymous change, as well as the upstream region.
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Re: July San Paolo Sequence Released
Originally posted by Rwilmer View PostI don't see where many family members died, I only see the little 11 year old girl died in that family, in brazil.
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Re: July San Paolo Sequence Released
Originally posted by Rwilmer View PostI don't see where many family members died, I only see the little 11 year old girl died in that family, in brazil.
"The family Laguna had eight other cases of swine flu confirmed: mother, father, younger brother, three cousins, grandmother and an aunt of the girl. The tragedy led the silence of their parents.
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Re: July San Paolo Sequence Released
Originally posted by niman View PostOnly the first change is human, but that is the only one that is "new". The other two are also in earlier 2009 pandemic sequences (but different combinations).
It is V252M that is not found in other pandemic swine sequences, but a single change can have a big effect.
From the quote I posted, it sounds like many family members died.
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