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 Post subject: Re: Swine H3N2 Pandemic
PostPosted: Sat Nov 13, 2010 2:30 pm 
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PB1 E618D in all pH1N1

http://www.recombinomics.com/News/11131 ... E618D.html

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 Post subject: Re: Swine H3N2 Pandemic
PostPosted: Sat Nov 13, 2010 8:23 pm 
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Although the CDC is withholding the human trH3N2 sequences, Kansas/13/2009 can be phylogentically analyzed against existing swine H3N2 HA sequences. Although the number of such sequences is small, Kansas/13 is on a branch with other sequences which match the locations of the other human cases. Most closely related is A/swine/Iowa/03017/2010, followed by A/swine/Illinois/02945/2010, followed by A/swine/Minnesota/578/2007.

I expect the human cases to fall on the branch formed by these isolates.

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 Post subject: Re: Swine H3N2 Pandemic
PostPosted: Sat Nov 13, 2010 8:39 pm 
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niman wrote:
Although the CDC is withholding the human trH3N2 sequences, Kansas/13/2009 can be phylogentically analyzed against existing swine H3N2 HA sequences. Although the number of such sequences is small, Kansas/13 is on a branch with other sequences which match the locations of the other human cases. Most closely related is A/swine/Iowa/03017/2010, followed by A/swine/Illinois/02945/2010, followed by A/swine/Minnesota/578/2007.

I expect the human cases to fall on the branch formed by these isolates.

The viruses identified in Pennsylvania and Wisconsin are similar to viruses that infected a patient in Iowa in September 2009, a patient in Kansas in August 2009 and a patient in Minnesota in May 2010.

http://www.cdc.gov/media/subtopic/heard.htm#h3n2

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 Post subject: Re: Swine H3N2 Pandemic
PostPosted: Sat Nov 13, 2010 11:31 pm 
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Commentary

http://www.recombinomics.com/News/11141 ... lysis.html

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 Post subject: Re: Swine H3N2 Pandemic
PostPosted: Sun Nov 14, 2010 11:23 am 
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Closest NA to KS/13 is a reassortant, A/swine/Minnesota/44837-3/2009

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 Post subject: Re: Swine H3N2 Pandemic
PostPosted: Sun Nov 14, 2010 11:45 am 
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niman wrote:
It is worth noting that swine H3N2 has human H3 and N2 genes. Therefore, most assays that identify H3N2 would not make a distinction between seasonal H3N2 and swine H3N2.

The recent outbreak at a psyciatric ward in Akita, Japan has led to at least 8 fatalities. the outbreak is linked to the "Hong Kong" strain, which is H3N2 (which caused the 1968 pandemic commonly called the "Hong Kong flu").

http://www.recombinomics.com/News/11091 ... ita_8.html

The H3 subtyping of the outbreak in Japan would not distinguish a new seasonal H3N2 strain from a triple reassorted swine H3N2, since both would have human H3 and N2.


So, what I'm understanding is that we could possibly have a novel flu virus circulating that per testing would look like our regular seasonal H3N2 virus? How did they pick up on the U.S. cases documented so far? Did those patients survive the infection?

Also, what aspect of the virus is avian? I know 2009 H1N1 had an avian PB2 gene. Does this novel H3N2 more closely resemble pandemic viruses of our past in their genetic makeup, or does it resemble 2009 H1N1?

Very interesting information.

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Last edited by littlebird on Sun Nov 14, 2010 3:09 pm, edited 2 times in total.

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 Post subject: Re: Swine H3N2 Pandemic
PostPosted: Sun Nov 14, 2010 1:46 pm 
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I believe that the trH3N2 cases were identified by sequenciing. There may be some efforts underway to distinguish comtemporary H3 from earlier H3. The internal genes of trH3 are similar to pH1N1 including avian PA and PB2.

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 Post subject: Re: Swine H3N2 Pandemic
PostPosted: Sun Nov 14, 2010 3:19 pm 
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I took care of three kids this past week who were hospitalized for Respiratory distress. Two presented in the E.R. one presented in the Pediatricians office. All three had flu-like symptoms, and they all had been vaccinated for influenza earlier this Fall. None of them were tested for flu (Maybe because they had all been vaccinated?) They were all negative for Strep A.

None of the three were critical, and all appeared to be improving. Their symptoms were cough, (sore throat, and body aches in the oldest child) fever, vomiting, malaise, lung infliltrates (by x-ray) and a significant increase in work of breathing .

None recieved an antiviral. They all recieved antibiotics prophylactically.

The vomiting and body aches is unusual for any other Respiratory virus this time of year, and it just struck me as odd. The two younger patients were too young to verbally express symptoms. (both of these two babies were RSV negative.)

None of these three patients had any underlying health conditions, or a history of hospitalizations. There were all previously healthy according to their charts.

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 Post subject: Re: Swine H3N2 Pandemic
PostPosted: Mon Nov 15, 2010 7:56 am 
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littlebird wrote:
I took care of three kids this past week who were hospitalized for Respiratory distress. Two presented in the E.R. one presented in the Pediatricians office. All three had flu-like symptoms, and they all had been vaccinated for influenza earlier this Fall. None of them were tested for flu (Maybe because they had all been vaccinated?) They were all negative for Strep A.

None of the three were critical, and all appeared to be improving. Their symptoms were cough, (sore throat, and body aches in the oldest child) fever, vomiting, malaise, lung infliltrates (by x-ray) and a significant increase in work of breathing .

None recieved an antiviral. They all recieved antibiotics prophylactically.

The vomiting and body aches is unusual for any other Respiratory virus this time of year, and it just struck me as odd. The two younger patients were too young to verbally express symptoms. (both of these two babies were RSV negative.)

None of these three patients had any underlying health conditions, or a history of hospitalizations. There were all previously healthy according to their charts.

Surveillance worldwide is poor, as is testing. Although the vaccine is a "match", the H1N1 has evolved away from California/7 and H3N2 has evolved away from Perth/16, the current targets in the trivalent vaccine. These results are largely lost in the comments issued by the CDC.

However, trH3N2 has human H3 that was circulating in the mid-90's, so children would be most vulnerable (those born within the last 10-15 years).

Testing for trH3N2 requires sequencing to distinguish from contemporary H3N2.

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 Post subject: Re: Swine H3N2 Pandemic
PostPosted: Mon Nov 15, 2010 12:04 pm 
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niman wrote:
Top 100 PB2 matches


gb|CY035430.2| Influenza A virus (A/swine/Minnesota/SG-00239/... 3975 0.0
gb|EU604691.1| Influenza A virus (A/swine/OH/511445/2007(H1N1... 3970 0.0
gb|EU409946.1| Influenza A virus (A/swine/Ohio/24366/07(H1N1)... 3970 0.0

The two Ohio isolates above are from the Huron County fair cluster in 2007

http://www.recombinomics.com/News/07071001/pH1N1x2.html

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