Rhiza Labs FluTracker Forum

CDC is characterizing a new H1N1 target, A/South Carolina/02/2010, with K157E and Q226R.

_________________
www.twitter.com/hniman

Only other HA1 nonsynonymous change is K25R.

_________________
www.twitter.com/hniman

Original sample grown in eggs did not have K157E or Q226R. Reassortant is characterized as:

TWO WAY A/SOUTH CAROLINA/02/2010-LIKE LOW FAIL

_________________
www.twitter.com/hniman

K157E
EPI328748 A/South Carolina/02/2010 NYMC X-205A (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI328743 A/South Carolina/02/2010 NYMC X-205A (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI278904 A/St. Petersburg/204/2010 (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI273783 A/St. Petersburg/204/2010 (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI273780 A/St. Petersburg/204/2010 (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI247057 A/Delhi/NIV3610/2009 (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI243712 A/New Mexico/10/2009 (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI240393 A/Norway/3206/2009 (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI239634 A/Nordrhein-Westfalen/79/2009 (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI226256 A/NIIGATA-C/56/2009 (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI218063 A/New York/4459/2009 (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI211669 A/Nordrhein-Westfalen/79/2009 (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)

_________________
www.twitter.com/hniman

Q226R

EPI328748 A/South Carolina/02/2010 NYMC X-205A (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI328743 A/South Carolina/02/2010 NYMC X-205A (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI325576 A/Heilongjiang-Xiangfang/191/2011 (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI325573 A/Santiago/7774/2011 (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI324784 A/Novosibirsk/01/2011 (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI324272 A/swine/QC/7780-PO/2009 (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI324255 A/swine/QC/F8037/2009 (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI324233 A/swine/QC/4362-1/2009 (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI324209 A/swine/MB/33/2009 (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI320835 A/Saint-Petersburg/RII174/2011 (A/H1N1) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI320442 A/Changchun/01/2009 (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI320173 A/Voronezh/1/2011 (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI320150 A/Texas/01/2011 (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI320141 A/St. Petersburg/100/2011 (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI320139 A/South Dakota/01/2011 (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI320008 A/Colorado/05/2011 (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI319533 A/Thessaloniki/1078/2011 (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI319529 A/Thessaloniki/1151/2011 (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI319527 A/St. Petersburg/27/2011 (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI319481 A/Kavala/19/2011 (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI319479 A/Kaluga/1/2011 (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI319449 A/Czech Republic/4/2011 (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI316654 A/swine/Thailand/CU-PL65/2010 (A/H1N1) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI316647 A/swine/Thailand/CU-DP83/2010 (A/H1N1) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI316435 A/St. Petersburg/100/2011 (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI310235 A/swine/England/73690/2010 (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI309639 A/Egypt/73/2010 (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI309633 A/Croatia/18576-1/2010 (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI309631 A/Croatia/17897-2/2010 (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI304591 A/swine/QLD/09-02865-07/2009 (A/H1N1) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI304555 A/Korea/S1/2009 (A/H1N1) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI302538 A/Shanghai-Zhangning/SWL1700/2010 (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI302108 A/Taiwan/733/2010 (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI297593 A/Mexico/LaGloria-8/2009 (A/H1N1) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI297585 A/Mexico/LaGloria-4/2009 (A/H1N1) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI297577 A/Mexico/LaGloria-3/2009 (A/H1N1) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI295605 A/Bulgaria/035/2010 (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI295604 A/Bulgaria/034/2010 (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI295603 A/Bulgaria/033/2010 (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI295390 A/Taiwan/733/2010 (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI290934 A/Shiraz/8/2010 (A/H1N1) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI290929 A/Shiraz/3/2010 (A/H1N1) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI290928 A/Shiraz/2/2010 (A/H1N1) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI290926 A/Tehran/18/2010 (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI280308 A/Santiago/14851/2010 (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI278850 A/Chita/01/2009 (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI278532 A/St. Petersburg/20/2010 (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI277049 A/Singapore/527/2009 (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI277034 A/Singapore/471/2009 (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI273917 A/Puerto Montt/12498/2010 (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI273882 A/Mexico/5569/2009 (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI271943 A/GUAM/2122/2009 (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI267914 A/Iran/16273/2009 (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI267912 A/Iran/16245/2009 (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI259034 A/Jalna/NIV9436/2009 (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI258196 A/Chongqing-Nanchuan/SWL31/2010 (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI258156 A/Fujian-Gulou/SWL1141/2010 (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI258116 A/Fujian-Gulou/SWL1155/2010 (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI258056 A/Fujian-Gulou/SWL1549/2010 (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI258048 A/Fujian-Gulou/SWL1494/2010 (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI257944 A/Fujian-Gulou/SWL1280/2010 (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI257892 A/Fujian-Gulou/SWL119/2010 (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI257740 A/Fujian-Gulou/SWL1257/2010 (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI257704 A/Neimenggu-Huimin/SWL11560/2009 (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI257624 A/Guangdong-Luohu/SWL130/2010 (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI257508 A/Guangdong-Luohu/SWL1916/2009 (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI257504 A/Guangdong-Luohu/SWL1902/2009 (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI257284 A/Fujian-Gulou/SWL11875/2009 (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI257201 A/California/07/2009 X-179A (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI256502 A/Guangdong-Luohu/SWL1808/2009 (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI256498 A/Guangdong-Luohu/SWL1792/2009 (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI256170 A/Guangdong-Futian/SWL1480/2009 (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI255110 A/swine/Thailand/CU-RA4/2009 (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI253544 A/Cat/Italy/304678-2/2009 (A/H1N1) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI253206 A/Tianjin/SWL2/2009 (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI252124 A/Alabama/01/2010 (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI250039 A/Texas/77/2009 (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI249806 A/reassortant/NYMC X-179A(California/07/2009 x NYMC X-157) (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI249798 A/reassortant/NYMC X-179(California/07/2009 x NYMC X-157) (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI247393 A/New York/109/2009 (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI247301 A/Hawaii/02/2010 (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI247146 A/Guangzhou/GIRD07/2009 (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI247044 A/Blore/NIV236/2009 (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI246391 A/Germany-BY/74/09 (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI246370 A/Trabzon/01/2009 (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI246048 A/Fujian-gulou/SWL11878/2009 (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI243781 A/Hungary/33/2009 (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI243778 A/Hungary/20/2009 (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI243753 A/Kaliningrad/01/2009 (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI242476 A/reassortant/IDCDC-RG20(Texas/05/2009 x Puerto Rico/8/1934) (A/H1N1) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI240319 A/England/195/2009 (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI239904 A/California/07/2009 X-181A (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI239901 A/California/07/2009 X-181 (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI234432 A/cat/OR/29573/2009 (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI233163 A/Hungary/33/2009 (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI232362 A/Hungary/20/2009 (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI232346 A/Hungary/36/2009 (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI231321 A/Hungary/20/2009 (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI230288 A/Novgorod/01/2009 (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI227827 A/St Petersburg/03/2009 (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI218359 A/Omsk/01/2009 (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI217481 A/Irkutsk/02/2009 (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI217449 A/Ekaterinburg/01/2009 (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI216830 A/El Salvador/1553/2009 (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI215866 A/GUAM/2050/2009 (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI215862 A/EAST TIMOR/2002/2009 (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI215813 A/PORT MORESBY/2008/2009 (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI215809 A/TASMANIA/2004/2009 (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI213908 A/Singapore/TLL51/2009 (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI213904 A/Singapore/TLL10/2009 (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI212448 A/Lishui/01/2009 (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI211620 A/Verona-Italy/2810/2009 (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI184917 A/Zhejiang/DTID-ZJU01/2009 (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI183202 A/Mexico/InDRE4487/2009 (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI181843 IVR-153 (A/California/7/2009) (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI181827 A/Texas/17/2009 (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI180574 A/Texas/05/2009(H1N1)-PR8-IDCDC-RG15 (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI180554 A/California/07/2009(H1N1)v X-179A (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI180235 A/Finland/553/2009 (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)
EPI178428 A/Mexico/4603/2009 (A/H1N1 swl) segment 4 (HA) 27.0 6.707038e+00 14/14 (100%)

_________________
www.twitter.com/hniman

Recently release sequences by CDC had a high frequency of Q226R

http://www.recombinomics.com/News/06231 ... R_Egg.html

_________________
www.twitter.com/hniman

Commentary

http://www.recombinomics.com/News/08031 ... ccine.html

_________________
www.twitter.com/hniman

CDC Test and Isolation Bias Raises H1N1 Pandemic Concerns
Recombinomics Commentary 14:20
May 4, 2011

DR. GELLIN: I am always impressed by what a body of work that is. Two questions. One of them, you had mentioned about the low reactors and the biological issues at the lab in London, is that the same issue for the H1 as well as the H3? Because they showed, I think, that there was a higher percentage of H1 low reactors in the London lab, as well. The question really is that a lab problem or does that signal some other evolution, since they have had more H1 this year?

DR. COX: Yes. What we know for H1N1 viruses is that if you isolate them in a particular cell line, you tend to get more of the variance with changes within that region that I mentioned -- the 153 to 158 region. They had been using the particular cell line that pulls out that particular variant or that selects for that particular variant.

They have subsequently switched to normal MDCK cells. I think what they are seeing is a combination of the two phenomena. Plus, they receive a lot of viruses that have been isolated COT, the special kind of MDCK cells. I think it is a combination of they are receiving viruses with changes that cause that reduction in activity and then having some additional low reactors, but they are scattered throughout the tree.

_________________
www.twitter.com/hniman

New targets will be discussed tonight on Rense at 11 PM EST

Dr. Henry L. Niman, PhD
FDA Vaccine Weirdness


http://www.renseradio.com/listenlive.htm

_________________
www.twitter.com/hniman