Rhiza Labs FluTracker Forum

NIID released 33 HA sequences, which were largely from 2011. All 33 sequences had S188T, once agin demonstrating the dominance of that sub-clade in early 2011 throughout the northern hemisphere.

However, these sequences frequently had changes at positions 156, 157, 158, 159 (1, 3, 5, 1 respectively) which is the antigenic site most commonly linked to low reactors (the 5 all were mixed signals for G158E). Moreover, all 10 changes were mixtures with wild type, allowing for rapid dominance of the "low reactor" genotype within the patient, if subjected to selection pressure.

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Recent GISAID sequences with S188T (dominated by the latest sequences from Sween and Japan):
EPI316300 A/Sweden1/2011 (A/H1N1 swl) segment 4 (HA) 27.0 6.39006
EPI316294 A/Malmoe/1/2011 (A/H1N1 swl) segment 4 (HA) 27.0 6.39006
EPI316291 A/Malmoe/4/2010 (A/H1N1 swl) segment 4 (HA) 27.0 6.39006
EPI316287 A/Stockholm/2/2011 (A/H1N1 swl) segment 4 (HA) 27.0 6.39006
EPI316284 A/Karlstad/1/2011 (A/H1N1 swl) segment 4 (HA) 27.0 6.39006
EPI316281 A/SHIMANE/26/2011 (A/H1N1 swl) segment 4 (HA) 27.0 6.39006
EPI316280 A/HOKKAIDO/12/2011 (A/H1N1 swl) segment 4 (HA) 27.0 6.39006
EPI316279 A/NIIGATA/51/2011 (A/H1N1 swl) segment 4 (HA) 27.0 6.39006
EPI316278 A/NIIGATA/51/2011 (A/H1N1 swl) segment 4 (HA) 27.0 6.39006
EPI316277 A/KOBE/537/2011 (A/H1N1 swl) segment 4 (HA) 27.0 6.39006
EPI316276 A/IWATE/1008/2011 (A/H1N1 swl) segment 4 (HA) 27.0 6.39006
EPI316275 A/AKITA/1/2011 (A/H1N1 swl) segment 4 (HA) 27.0 6.39006
EPI316274 A/KITAKYUSYU/9/2010 (A/H1N1 swl) segment 4 (HA) 27.0 6.39006
EPI316273 A/YOKOHAMA/31/2011 (A/H1N1 swl) segment 4 (HA) 27.0 6.39006
EPI316272 A/YAMAGATA/175/2010 (A/H1N1 swl) segment 4 (HA) 27.0 6.39006
EPI316271 A/KAGAWA/2/2011 (A/H1N1 swl) segment 4 (HA) 27.0 6.39006
EPI316270 A/SHIGA/45/2011 (A/H1N1 swl) segment 4 (HA) 27.0 6.39006
EPI316269 A/SHIGA/39/2011 (A/H1N1 swl) segment 4 (HA) 27.0 6.39006
EPI316268 A/SHIGA/35/2011 (A/H1N1 swl) segment 4 (HA) 27.0 6.39006
EPI316267 A/NIIGATA/61/2011 (A/H1N1 swl) segment 4 (HA) 27.0 6.39006
EPI316266 A/NIIGATA/52/2011 (A/H1N1 swl) segment 4 (HA) 27.0 6.39006
EPI316265 A/NAGANO/2219/2010 (A/H1N1 swl) segment 4 (HA) 27.0 6.39006
EPI316263 A/HIROSHIMA/49/2011 (A/H1N1 swl) segment 4 (HA) 27.0 6.39006
EPI316262 A/OITA/68/2010 (A/H1N1 swl) segment 4 (HA) 27.0 6.39006
EPI316261 A/WAKAYAMA/23/2011 (A/H1N1 swl) segment 4 (HA) 27.0 6.39006
EPI316260 A/SHIGA/43/2011 (A/H1N1 swl) segment 4 (HA) 27.0 6.39006
EPI316259 A/SHIGA/34/2011 (A/H1N1 swl) segment 4 (HA) 27.0 6.39006
EPI316258 A/SHIGA/30/2011 (A/H1N1 swl) segment 4 (HA) 27.0 6.39006
EPI316257 A/SHIGA/29/2011 (A/H1N1 swl) segment 4 (HA) 27.0 6.39006
EPI316256 A/NIIGATA/62/2011 (A/H1N1 swl) segment 4 (HA) 27.0 6.39006
EPI316255 A/NIIGATA/53/2011 (A/H1N1 swl) segment 4 (HA) 27.0 6.39006
EPI316254 A/HIROSHIMA/22/2011 (A/H1N1 swl) segment 4 (HA) 27.0 6.39006
EPI316253 A/Laos/O055/2010 (A/H1N1 swl) segment 4 (HA) 27.0 6.39006
EPI316252 A/SAPPORO/19/2011 (A/H1N1 swl) segment 4 (HA) 27.0 6.39006
EPI316251 A/YAMAGUCHI/35/2010 (A/H1N1 swl) segment 4 (HA) 27.0 6.39006
EPI316250 A/FUKUOKA-C/39/2010 (A/H1N1 swl) segment 4 (HA) 27.0 6.39006
EPI316249 A/Laos/SA012/2010 (A/H1N1 swl) segment 4 (HA) 27.0 6.39006

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Commentary

http://www.recombinomics.com/News/05031 ... Japan.html

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