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PostPosted: Mon Jan 06, 2014 1:17 pm 
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Posts: 4059
Forum Threads

09/17/13
August 2013 H1N1pdm09 D225G In Utah
viewtopic.php?f=5&t=10456

12/26/13
Q226R in Mississippi H1N1
viewtopic.php?f=5&t=10875

12/28/13
A/Connecticut/02/2013 With RBD L194I 32F
viewtopic.php?f=5&t=10905

12/28/13
H1N1 North Carolina July D225N 55F
viewtopic.php?f=5&t=10904

12/28/13
A/Nevada/06/2013 With RBD Changes S186P & L194I
viewtopic.php?f=5&t=10903

12/28/13
H1N1 D225 In Wisconsin 52M August
viewtopic.php?f=5&t=10902

12/28/13
H1N1 D225G In Wisconsin 25F September
viewtopic.php?f=5&t=10901

12/28/13
Florida/43/2013 With RBD Change L194I
viewtopic.php?f=5&t=10900

12/28/13
D225G In New Hampshire H1N1
viewtopic.php?f=5&t=10899

12/28/13
A/Florida/13/2013 w/ D225G Related to A/Texas/15/2013
viewtopic.php?f=5&t=10898

12/30/13
H1N1 RBD Change Targeting Human Lung L194I
viewtopic.php?f=5&t=10909

12/30/13
November 2013 Massachusetts Case With RBD L194I
viewtopic.php?f=5&t=10911

12/30/13
H1N1 Vietnam Cluster w/ G158E and N159K Lung Targeting
viewtopic.php?f=5&t=10912

12/31/13
2013 H1N1 Acquisition of M230I
viewtopic.php?f=5&t=10916

01/01/14
Hidden D225G In 2013 US H1N1 Sequences
viewtopic.php?f=5&t=10924&p=83573#p83573

Commentaries

12/26/13
H1N1 Q226R In Mississippi
http://www.recombinomics.com/News/12261 ... 6R_MS.html

12/27/13
D225G and Q226R Driving H1N1 Deaths?
http://www.recombinomics.com/News/12271 ... R_CFR.html

12/30/13
Silent Spread of H1N1 RBD Change L194I
http://www.recombinomics.com/News/12301 ... pread.html


Last edited by saraseer on Fri Jan 17, 2014 11:33 pm, edited 3 times in total.

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PostPosted: Mon Jan 06, 2014 1:19 pm 
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Posts: 4059
I might not have gotten them all.

It might be helpful to pin this list for easy access. With all the information coming in, threads - important threads like those above - tend to get buried.


Last edited by saraseer on Mon Jan 13, 2014 12:39 pm, edited 1 time in total.

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PostPosted: Mon Jan 06, 2014 1:25 pm 
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Posts: 4059
And the map:

01/02/14
Google Map of 2013 / 2014 RBD Changes & H274Y In US
viewtopic.php?f=5&t=10926


Last edited by saraseer on Mon Jan 13, 2014 12:39 pm, edited 1 time in total.

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PostPosted: Mon Jan 06, 2014 1:26 pm 
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Joined: Wed Aug 19, 2009 10:42 am
Posts: 56044
Location: Pittsburgh, PA USA
Jason Tetro.

Microbiology, Health & Hygiene Expert

Is the Swine Flu Back and Wreaking Havoc?

Posted: 01/05/2014 11:37 pm

Over the last few weeks, as expected, there has been a transition in the media headlines from the antics of Ford to the augury of flu. The beginning of winter usually signals the onset of the annual influenza influx and the usual messages to increase hygiene and seek out the vaccine. But unlike the last two years, the urgency of this year's message has grown significantly as the number of confirmed cases has exploded and the severity of illness has taken public health officials by surprise.

By all accounts, this wasn't supposed to happen. Even as far back as November, the flu season was expected to be normal with only a small percentage of cases -- the elderly and very young -- requiring medical attention such as hospitalization. Yet, as seen by the Public Health Agency of Canada, by the middle of December, there had been a spike in cases affecting all ages.

Just by looking at these two facts alone, there was more than enough reason to believe that the virus that caused the pandemic from 2009-2010, better known as H1N1pdm or "swine flu" was back. During that 16 month scourge, some 3.5-million people were infected and 428 people died. Long lineups for the flu vaccine were common and the overall feeling in the community was one of fear. By the time the pandemic was declared over in August of 2010, Canada had been put through a wringer and was glad to be able to move on.

The laboratory data has since confirmed what officials have feared: swine flu is back and responsible for over 70 per cent of the cases seen to date. But even as this mystery is resolved, another more sinister one is upon us. It comes as a result of the severity of the disease in those with the strongest immune systems. To date, over 75 per cent of people admitted to the intensive care unit are between the ages of 20 and 64. There is every indication that this form of H1N1pdm is not the same one seen by most in 2009-10. Instead, this might be an evil cousin or, as flu researchers call it, a virulent quasispecies.

The concept of a quasispecies is well known in the microbiological world although rarely discussed in the public realm. It is similar to a faction of a particular species that has somehow evolved and adapted to improve its ability to survive and thrive. The actual mechanisms are quite complex and only a few have mastered the understanding of these rogue strains. However, when one comes about, it can leave even the most confident researcher scratching his or her head wondering what has happened.

In 2009, amidst all the surveillance and detections, one such quasispecies was identified. It differed infinitesimally from the normal H1N1pdm strain and was only seen in a small percentage of cases. However, what it lacked in presence, it made up for in pathogenesis. Known as the D225G mutant the virus could cause a more severe infection and leave even the hardiest person weakened to the point of death. Thankfully, back then, there was little indication that D225G was going to come to Canada...at least that year.

But now, it seems that this quasispecies, as well as two others known as Q226R and L194I may have made their way to the United States. So far, 13 deaths in Houston nine in Dallas County and seven in Oregon may be attributed to these newer strains. Many more may also be accounted as the CDC acquires and analyzes samples.

In Canada, no evidence yet exists to determine whether the rise in cases -- and deaths -- are due to original pandemic H1N1 strain or these menacing mutants. Only time will tell as laboratories do their best to determine the types of viruses circulating the country. With any luck, more information will be known in the coming weeks and the picture will be clearer.

Regardless of the nature of the viruses, however, there is every reason to be even more vigilant this winter and do everything possible to avoid becoming infected, including proper hygiene and acquisition of the vaccine. While this may not have been as great a priority over the last few years, there is every indication that the current explosion of cases is merely the beginning. For those who were infected in 2009 and/or were vaccinated, the threat is lessened although prudence is always recommended.

As for those who were lucky enough to avoid infection during the pandemic and/or not yet been vaccinated, the best option is to eschew infected people and be alert to any potential changes in health. As has already been seen with H1N1pdm and in particular these three mutant strains, symptoms can happen quite quickly and if they are not managed quickly, can lead to serious consequences.

http://www.huffingtonpost.ca/jason-tetr ... _hp_ref=tw

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PostPosted: Mon Jan 13, 2014 11:51 am 
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01/13/12
A/Massachusetts/15/2013 Egg Isolate With Q226R
viewtopic.php?f=5&t=11001&p=84179#p84179


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PostPosted: Mon Jan 13, 2014 11:56 am 
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Posts: 4059
Commentary
12/23/14
H1N1 Swine Flu Tamiflu Resistance Spreads To Mississippi
http://www.recombinomics.com/News/12231 ... 4Y_MS.html

Thread
01/13/14
H274Y Tamiflu Resistance Spread In Mississippi
viewtopic.php?f=5&t=11002&p=84188#p84188


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PostPosted: Mon Jan 13, 2014 6:53 pm 
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Joined: Mon Sep 28, 2009 10:19 pm
Posts: 4059
01/13/14
RBD G228A In Egg Isolate of A/Louisiana/23/2013
viewtopic.php?f=5&t=11003

01/13/14
D225G In Egg Isolate of A/Wyoming/07/2013
viewtopic.php?f=5&t=11005

01/13/14
RBD Changes In A/Indiana/30/2013 D190N & R224K
viewtopic.php?f=5&t=11009


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PostPosted: Mon Jan 13, 2014 7:20 pm 
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Posts: 4059
Dr. Niman - on another tread [ viewtopic.php?f=5&t=10938&start=10 ] you wrote:
Quote:
I don't expect to see major sequences changes other than those noted (D225G, D225N, Q226R, L194I) which are most easily seen in egg isolates. As long as CDC keeps generating sequences from upper respiratory samples that lead to isolates from mammalian cells. more recent sequences will match the earlier data, which will continue to lag by 4-8 weeks.
So, CDC released some egg isolates today. I guess they generated some sequences from lower respiratory samples?

Does this indicate a level of concern on the part of CDC?

With the addition of G228A, D190N and R224K, I think that makes around eight RBD changes you've identified recently. Your level of concern?


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PostPosted: Tue Jan 14, 2014 2:05 pm 
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Posts: 56044
Location: Pittsburgh, PA USA
saraseer wrote:
Dr. Niman - on another tread [ viewtopic.php?f=5&t=10938&start=10 ] you wrote:
Quote:
I don't expect to see major sequences changes other than those noted (D225G, D225N, Q226R, L194I) which are most easily seen in egg isolates. As long as CDC keeps generating sequences from upper respiratory samples that lead to isolates from mammalian cells. more recent sequences will match the earlier data, which will continue to lag by 4-8 weeks.
So, CDC released some egg isolates today. I guess they generated some sequences from lower respiratory samples?

Does this indicate a level of concern on the part of CDC?

With the addition of G228A, D190N and R224K, I think that makes around eight RBD changes you've identified recently. Your level of concern?

The CDC has released some egg isolates. Not sure which samples are selected for growth on eggs (either severe / fatal cases or samples that give a hint of mixed signals).

I think the CDC is still focused on trying to maintain their initial position that lung targeting polymorphisms in egg isolates are artifacts.

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PostPosted: Thu Jan 16, 2014 9:06 pm 
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Joined: Mon Sep 28, 2009 10:19 pm
Posts: 4059
Commentary

01/16/14
China H1N1 Sequences Target Lung
http://www.recombinomics.com/News/01161 ... _Lung.html

Threads

01/15/14
2013 H1N1 RBD Changes In China - D225G
A/Shanghai-Changning/SWL1568/2013
A/Chongqing-Yuzhong/SWL11434/2013
viewtopic.php?f=5&t=11024

01/15/14
2013 H1N1 RBD Changes In China - S193R
A/Sichuan-Wuhou/SWL2259/2013
viewtopic.php?f=5&t=11026

01/15/14
2013 H1N1 RBD Changes In China - S193I & L194I
A/Sichuan-Yucheng/SWL1693/2013
viewtopic.php?f=5&t=11027

01/15/14
2013 H1N1 RBD Changes In China - L194I
A/Chongqing-Yuzhong/SWL11676/2013
viewtopic.php?f=5&t=11028

01/15/14
2013 H1N1 RBD Changes In China - N159G Q196K E227G
A/Guang-Xi-Xixiang-Tang/SWL1578/2013
viewtopic.php?f=5&t=11029

01/16/14
2013 H1N1 RBD Changes in China - Q226R
A/Shanghai-Minxing/SWL1660/2013
A/Sichuan-Qingyang/SWL1544/2013
A/Jiangsu-Sucheng/SWL1726/2013
A/Guangdong-Chancheng/SWL1583/2013
A/Jiangsu-Tinghu/SWL1623/2013
A/Jiangsu-Qinhuai/SWL11396/2013
viewtopic.php?f=5&t=11025


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