A/Shanghai/60T/2009(H1N1) released 6/22

[Toaster2]

Re: A/Shanghai/60T/2009(H1N1) released 6/22

depends maybe on how warm the eggs are ?

I can see only one PB2 of 71T at genbank

Check E627K, you'll find that it is now E at position 627

[Shannon Bennett]

Re: A/Shanghai/60T/2009(H1N1) released 6/22

There is a chilling thought.

Let's see. The original sequence had E627K. The first clone had E627K. That's called a confirmation. The second clone did not have E627K. Since E627K is mammalian and grows best at low temperatures (33 C), while E627 is avian and grows best at high temperatures (41 C), if the virus is being grown in eggs, there may be selection of E627 (avian version), leading to the loss of E627K during culture in eggs (but may be retained when grown on mammalian MDCK cells).

If so, then labs cloning virus in eggs may be losing E627K during culture and the level may be markedly higher than represented in the database.

[HenryN]

Re: A/Shanghai/60T/2009(H1N1) released 6/22

depends maybe on how warm the eggs are ?

I can see only one PB2 of 71T at genbank

The original is linked in the characterization sheet.

[gsgs]

Re: A/Shanghai/60T/2009(H1N1) released 6/22

concerning the H7N7 outbreak in 2003 in the Netherlands, which caused the
culling of 30M chickens and one veterinarian had lethal infection ...

we talked about this earlier, I can't find it now.
They reported about 14 amino-acid changes in the vet.

http://www.pnas.org/content/101/5/1356.full.pdf

but in Oct.2007 they uploaded another chicken sequence, which
only has 2 nucleotide-differences:

http://www.ncbi.nlm.nih.gov/nuccore/115343242?report=genbank

VRL 01-OCT-2007
A/chicken/Netherlands/03010132/03(H7N7)
Munster,V.J., de Wit,E., Koch,G., Osterhaus,A.D.M.E. and Fouchier,R.A.M.
TITLE Determinants of enhanced replication of human H7N7 influenza A virus isolates
JOURNAL Unpublished


so there were presumably two related viruses going around with common ancestor
in late 2002,early 2003
And those mutations (except presumably E627K) did not develope in the vet

or E627K was a lab-error as in the ****** case from Shanghai ?!


for the outbreak in chickens see:

http://www.journals.uchicago.edu/doi/full/10.1086/425583