Sunday, December 8, 2013

Shaoxing, Zhejiang Fall 2013 Human H7N9 Displays Varied Genetics from Two Laboratories

Sequences discussed in this analysis are variously stored publicly at GenBank and at GISAID. We gratefully acknowledge the authors, originating and submitting laboratories of the sequences from GenBank and from GISAID’s EpiFlu™ Database on which this research is based. A GISAID-generated list is detailed in a linked Excel for completeness in citation.

Publish Date : 2013-12-08
Last Update : 2014-02-11

On 2013-10-16, the Zhejiang CDC rapidly released a full set of sequences at GISAID from a  Emergent H7N9 human case sampled from a 35 year old male who resided in Shaoxing, Zhejiang. The sample was taken on October 14, 2013 during hospitalisation. The patient showed no underlying diseases, nor reported any direct contact with poultry. This Shaoxing, Zhejiang patient is indicated as Case #137 on the 2013 H7N9 Human Case List maintained by the crowd-sourced FluTrackers.com.

On 2013-10-18, Zhejiang University also rapidly released a full set of sequences at GISAID from the same human case with the same sample collection date.  One week later on 2013-10-25, their sequence was updated and renamed.

Neither organisation indicated a passage history for their respective sequences, but the Zhejiang University sequences manifested additional polymorphisms.

The antigens are identical, but the Polymerase Complex varies between the two laboratories.  A novel HA 222P was confirmed by the Zhejiang University deposit. Although the Polymerase vary, these human sequences do share homology at the PB2 627E, generally an avian value. The Polymerase Acidic segments are identical, but the Zhejiang University PB2 and PB1 segments demonstrate polymorphisms not found on the Zhejiang CDC segments.

The Zhejiang CDC issued a press release indicating in translation at Crawford Kilian's H5N1 site that "no significant variation" was found on this case. On our detailed examination of the sequence, variation is in evidence. Perhaps novelty on Antigens is not considered "significant"  by the expert official delivering the public relations missive. A GeneWurx Comparative of the Antigens and Polymerase Complex against the recent human sequences demonstrates what we consider to be significant variation within circulating Emergent H7N9.

The sequences from this October 2013 Zhejiang case do not resemble the genetics from the two current human sequences that border on the calendar, GuangdongHuizhou1 at 2013_08_10 & HongKong5942 at 2013_11_30.

HA Polymorphisms

. . . . ChinaZhejiangShaoxing22_35M_2013_10_14_s (
. . . . . . . . A/Zhejiang/22/2013
. . . . . . . . Hemagglutinin Identical to
. . . . . . . . . . . . ChinaZhejiangShaoxingDTIDZJU10_35M_2013_10_14_s
. . . . . . . . Novel Hemagglutinin, 1 Case Over 2 Sequences
. . . . . . . . GISAID HA EPI477410
. . . . . . . . GISAID Isolate EPI_ISL_148728
. . . . . . . . 107 Polymorphisms (18 Amino and 89 Silent)
. . . . . . . . 11I [#4I],
. . . . . . . . syn74L (CTa) [syn60L (CTa)] [H7N9 Novel],
. . . . . . . . . . . . . . . . . .[pH1N1 syn60I ATa 3rd Base Donor,
. . . . . . . . . . . . . . . . . . . . . . . ReEmergent 2013,
. . . . . . . . . . . . . . . . . . . . . . . Japan, Corsica 2013-January,
. . . . . . . . . . . . . . . . . . . . . . . Asia Extensive 2010, 2011],
. . . . . . . . . . . . . . . . . .[H5N1 syn60V GTA 3rd Base Donor,
. . . . . . . . . . . . . . . . . . . . . . . Canada Alberta Human 2013], 
. . . . . . . . syn108G (GGa) [syn96G (GGa)] [Emergent H7N9 Novel],
. . . . . . . . . . . . . . . . . . . [H7N9 Rare],
. . . . . . . . . . . . . . . . . . . [pH1N1 wild type],
. . . . . . . . . . . . . . . . . . . [H5N1 Indonesia Human
. . . . . . . . . . . . . . . . . . . . . . . . . . including Karo cluster
. . . . . . . . . . . . . . . . . . . . . . . . . . . . and Recent Fatality,
. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . IndonesiaNIHRD13157_f
. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 30mM 2013_06_18],
. . . . . . . . . . . . . . . . . . . [H5N1 Indonesia Feline 2006],
. . . . . . . . . . . . . . . . . . . [H5N1 Indonesia Passerine 2010],
. . . . . . . . . . . . . . . . . . . [H5N1 Indonesia Commercial Poultry 2006-2010],
. . . . . . . . . . . . . . . . . . . [H9N2 Korea Commercial Poultry Rare 2006],
. . . . . . . . . . . . . . . . . . . [H9N2 Rare migratory birds 2008-2009],
. . . . . . . . . . . . . . . . . . . [H7N7 Italy Commercial Poultry
. . . . . . . . . . . . . . . . . . . . . . . . . . including Recent
. . . . . . . . . . . . . . . . . . . . . . . . . . . . ckItaly13VIR452711_2013_08_14],
. . . . . . . . . . . . . . . . . . . [H7N7 Massachusetts Sea Mammal 1980],
. . . . . . . . . . . . . . . . . . . [H7N7 Worldwide Equine wt 1956-1977],
. . . . . . . . . . . . . . . . . . . [H7N7 United States migratory birds 2006-2011],
. . . . . . . . . . . . . . . . . . . [H7N7 Egypt Passerine 2004],
. . . . . . . . . . . . . . . . . . . [H6N1 wild type],
. . . . . . . . 130A [118A],
. . . . . . . . 183S [174S],
. . . . . . . . 188V [179V],
. . . . . . . . 195V [186V],
. . . . . . . . 198A [189A],
. . . . . . . . 211V [202V],
. . . . . . . . 217N [208N],
. . . . . . . . 231P [222P] [H7N9 Novel],
. . . . . . . . . . . . . . . . .[H7N9 LookAsideu],
. . . . . . . . . . . . . . . . .[pH1N1 LookAsideu],
. . . . . . . . . . . . . . . . .[H9N2 Hong Kong Avian Rare 2012],
. . . . . . . . . . . . . . . . .[H7N7 Avian Rare 1975-1976 ],
. . . . . . . . . . . . . . . . .[H6N1 Avian Singular 2002],
. . . . . . . . . . . . . . . . .[H6N2, N3, N5, N6, N7, N8],
. . . . . . . . 235L [226L],
. . . . . . . . 285N [277N],
. . . . . . . . 307D [299D],
. . . . . . . . 321R [313R],
. . . . . . . . 410N [401N],
. . . . . . . . 427I [418I],
. . . . . . . . 455D [446D],
. . . . . . . . 462K [453K],
. . . . . . . . syn517L (tTA) [syn508L (tTA)] [Emergent H7N9 Novel],
. . . . . . . . . . . . . . . . . . [H7N9 North America Avian wild type (tTg)],
. . . . . . . . . . . . . . . . . . [pH1N1 (tTg)],
. . . . . . . . . . . . . . . . . . [H1N1v Human 2012-2013 (tTg)
. . . . . . . . . . . . . . . . . . . . . . . . . including Arkansas14_2013_09_06],
. . . . . . . . . . . . . . . . . . [H1N1 Seasonal 1951],
. . . . . . . . . . . . . . . . . . [H5N1 Human and Avian 2013 (tTg)
. . . . . . . . . . . . . . . . . . . . . . . . . including Recent Fatality,
. . . . . . . . . . . . . . . . . . . . . . . . . . . . . IndonesiaNIHRD13157_f
. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 30mM 2013_06_18],
. . . . . . . . . . . . . . . . . . [H3N2],
. . . . . . . . . . . . . . . . . . [H7N7],
. . . . . . . . . . . . . . . . . . [H6N1 Rare Count < 10],
. . . . . . . . 541V [533V])

. . . . ChinaZhejiangShaoxingDTIDZJU10_35M_2013_10_14_s (
. . . . . . . . A/Zhejiang/DTID-ZJU10/2013
. . . . . . . . renamed after 2013-10-18 Deposit from
. . . . . . . . . . . . A/Zhejiang/DTID-ZJU05/2013
. . . . . . . . . . . . ChinaZhejiangShaoxingDTIDZJU05_35M_2013_10_14_s
. . . . . . . . Hemagglutinin Identical to
. . . . . . . . . . . . ChinaZhejiangShaoxing22_35M_2013_10_14_s
. . . . . . . . Novel Hemagglutinin, 1 Case Over 2 Sequences
. . . . . . . . GISAID HA EPI477450
. . . . . . . . GISAID Isolate EPI_ISL_148744
. . . . . . . . 107 Polymorphisms (18 Amino and 89 Silent)
. . . . . . . . HA Truncated before aa3 [HA Truncated before aa#12],
. . . . . . . . 11I [#4I],
. . . . . . . . syn74L (CTa) [syn60L (CTa)] [H7N9 Novel],
. . . . . . . . . . . . . . . . . .[pH1N1 syn60I ATa 3rd Base Donor,
. . . . . . . . . . . . . . . . . . . . . . . ReEmergent 2013,
. . . . . . . . . . . . . . . . . . . . . . . Japan, Corsica 2013-January,
. . . . . . . . . . . . . . . . . . . . . . . Asia Extensive 2010, 2011],
. . . . . . . . . . . . . . . . . .[H5N1 syn60V GTA 3rd Base Donor,
. . . . . . . . . . . . . . . . . . . . . . . Canada Alberta Human 2013], 
. . . . . . . . syn108G (GGa) [syn96G (GGa)] [Emergent H7N9 Novel],
. . . . . . . . . . . . . . . . . . . [H7N9 Rare],
. . . . . . . . . . . . . . . . . . . [pH1N1 wild type],
. . . . . . . . . . . . . . . . . . . [H5N1 Indonesia Human
. . . . . . . . . . . . . . . . . . . . . . . . . . including Karo cluster
. . . . . . . . . . . . . . . . . . . . . . . . . . . . and Recent Fatality,
. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . IndonesiaNIHRD13157_f
. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 30mM 2013_06_18],
. . . . . . . . . . . . . . . . . . . [H5N1 Indonesia Feline 2006],
. . . . . . . . . . . . . . . . . . . [H5N1 Indonesia Passerine 2010],
. . . . . . . . . . . . . . . . . . . [H5N1 Indonesia Commercial Poultry 2006-2010],
. . . . . . . . . . . . . . . . . . . [H9N2 Korea Commercial Poultry Rare 2006],
. . . . . . . . . . . . . . . . . . . [H9N2 Rare migratory birds 2008-2009],
. . . . . . . . . . . . . . . . . . . [H7N7 Italy Commercial Poultry
. . . . . . . . . . . . . . . . . . . . . . . . . . including Recent
. . . . . . . . . . . . . . . . . . . . . . . . . . . . ckItaly13VIR452711_2013_08_14],
. . . . . . . . . . . . . . . . . . . [H7N7 Massachusetts Sea Mammal 1980],
. . . . . . . . . . . . . . . . . . . [H7N7 Worldwide Equine wt 1956-1977],
. . . . . . . . . . . . . . . . . . . [H7N7 United States migratory birds 2006-2011],
. . . . . . . . . . . . . . . . . . . [H7N7 Egypt Passerine 2004],
. . . . . . . . . . . . . . . . . . . [H6N1 wild type],
. . . . . . . . 130A [118A],
. . . . . . . . 183S [174S],
. . . . . . . . 188V [179V],
. . . . . . . . 195V [186V],
. . . . . . . . 198A [189A],
. . . . . . . . 211V [202V],
. . . . . . . . 217N [208N],
. . . . . . . . 231P [222P] [H7N9 Novel],
. . . . . . . . . . . . . . . . .[H7N9 LookAsideu],
. . . . . . . . . . . . . . . . .[pH1N1 LookAsideu],
. . . . . . . . . . . . . . . . .[H9N2 Hong Kong Avian Rare 2012],
. . . . . . . . . . . . . . . . .[H7N7 Avian Rare 1975-1976 ],
. . . . . . . . . . . . . . . . .[H6N1 Avian Singular 2002],
. . . . . . . . . . . . . . . . .[H6N2, N3, N5, N6, N7, N8],
. . . . . . . . 235L [226L],
. . . . . . . . 285N [277N],
. . . . . . . . 307D [299D],
. . . . . . . . 321R [313R],
. . . . . . . . 410N [401N],
. . . . . . . . 427I [418I],
. . . . . . . . 455D [446D],
. . . . . . . . 462K [453K],
. . . . . . . . syn517L (tTA) [syn508L (tTA)] [Emergent H7N9 Novel],
. . . . . . . . . . . . . . . . . . [H7N9 North America Avian wild type (tTg)],
. . . . . . . . . . . . . . . . . . [pH1N1 (tTg)],
. . . . . . . . . . . . . . . . . . [H1N1v Human 2012-2013 (tTg)
. . . . . . . . . . . . . . . . . . . . . . . . . including Arkansas14_2013_09_06],
. . . . . . . . . . . . . . . . . . [H1N1 Seasonal 1951],
. . . . . . . . . . . . . . . . . . [H5N1 Human and Avian 2013 (tTg)
. . . . . . . . . . . . . . . . . . . . . . . . . including Recent Fatality,
. . . . . . . . . . . . . . . . . . . . . . . . . . . . . IndonesiaNIHRD13157_f
. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 30mM 2013_06_18],
. . . . . . . . . . . . . . . . . . [H3N2],
. . . . . . . . . . . . . . . . . . [H7N7],
. . . . . . . . . . . . . . . . . . [H6N1 Rare Count < 10],
. . . . . . . . 541V [533V])

NA Polymorphisms

. . . . ChinaZhejiangShaoxing22_35M_2013_10_14_s (
. . . . . . . . A/Zhejiang/22/2013
. . . . . . . . Novel Neuraminidase, 1 Case Over 2 Sequences
. . . . . . . . Neuraminidase Identical to
. . . . . . . . . . . . ChinaZhejiangShaoxingDTIDZJU10_35M_2013_10_14_s
. . . . . . . . GISAID NA EPI477412
. . . . . . . . GISAID Isolate EPI_ISL_148728
. . . . . . . . 39 Polymorphisms (15 Amino and 24 Silent)
. . . . . . . . 16I [16I],
. . . . . . . . 19A [19A],
. . . . . . . . 40G [40G],
. . . . . . . . 53T [53T],
. . . . . . . . 81T [80T],
. . . . . . . . 84N [83N],
. . . . . . . . 112S [111S],
. . . . . . . . 241I [240I],
. . . . . . . . 266E [265E] [Emergent H7N9 Novel:
. . . . . . . . . . . . . . . . . . . . . . 1 Case Over 2 Sequences],
. . . . . . . . 327T [325T] [Emergent H7N9 Novel:
. . . . . . . . . . . . . . . . . . . . . . 1 Case Over 2 Sequences],
. . . . . . . . . . . . . . . . . [H9N2 wild type],
. . . . . . . . 335I [332I],
. . . . . . . . 346D [342D] [Emergent H7N9 Novel:
. . . . . . . . . . . . . . . . . . . . . . 1 Case Over 2 Sequences],
. . . . . . . . . . . . . . . . . [pH1N1 First Base Donor GGA wild type],
. . . . . . . . 359A [355A],
. . . . . . . . 401A [397A],
. . . . . . . . 465R [464R] [Emergent H7N9 Novel:
. . . . . . . . . . . . . . . . . . . . . . 1 Case Over 2 Sequences],
. . . . . . . . . . . . . . . . . [H9N2 Second Base Donor AGT])

. . . . ChinaZhejiangShaoxingDTIDZJU10_35M_2013_10_14_s (
. . . . . . . . A/Zhejiang/DTID-ZJU10/2013
. . . . . . . . renamed after 2013-10-18 Deposit from
. . . . . . . . . . . . A/Zhejiang/DTID-ZJU05/2013
. . . . . . . . . . . . ChinaZhejiangShaoxingDTIDZJU05_35M_2013_10_14_s
. . . . . . . . Novel Neuraminidase, 1 Case Over 2 Sequences
. . . . . . . . Neuraminidase Identical to
. . . . . . . . . . . . ChinaZhejiangShaoxing22_35M_2013_10_14_s
. . . . . . . . GISAID NA EPI477451
. . . . . . . . GISAID Isolate EPI_ISL_148744
. . . . . . . . 39 Polymorphisms (15 Amino and 24 Silent)
. . . . . . . . 16I [16I],
. . . . . . . . 19A [19A],
. . . . . . . . 40G [40G],
. . . . . . . . 53T [53T],
. . . . . . . . 81T [80T],
. . . . . . . . 84N [83N],
. . . . . . . . 112S [111S],
. . . . . . . . 241I [240I],
. . . . . . . . 266E [265E] [Emergent H7N9 Novel:
. . . . . . . . . . . . . . . . . . . . . . 1 Case Over 2 Sequences],
. . . . . . . . 327T [325T] [Emergent H7N9 Novel:
. . . . . . . . . . . . . . . . . . . . . . 1 Case Over 2 Sequences],
. . . . . . . . . . . . . . . . . [H9N2 wild type],
. . . . . . . . 335I [332I],
. . . . . . . . 346D [342D] [Emergent H7N9 Novel:
. . . . . . . . . . . . . . . . . . . . . . 1 Case Over 2 Sequences],
. . . . . . . . . . . . . . . . . [pH1N1 First Base Donor GGA wild type],
. . . . . . . . 359A [355A],
. . . . . . . . 401A [397A],
. . . . . . . . 465R [464R] [Emergent H7N9 Novel:
. . . . . . . . . . . . . . . . . . . . . . 1 Case Over 2 Sequences],
. . . . . . . . . . . . . . . . . [H9N2 Second Base Donor AGT])

PB2 Polymorphisms

. . . . ChinaZhejiangShaoxing22_35M_2013_10_14_s (
. . . . . . . . A/Zhejiang/22/2013
. . . . . . . . GISAID PB2 EPI477407
. . . . . . . . GISAID Isolate EPI_ISL_148728
. . . . . . . . 18 Polymorphisms (3 Amino and 15 Silent)
. . . . . . . . syn58T (ACa),
. . . . . . . . syn149P (CCa),
. . . . . . . . syn153D (GAc),
. . . . . . . . syn160Q (CAa),
. . . . . . . . syn185I (ATa),
. . . . . . . . 197R [pH1N1],
. . . . . . . . syn288Q (CAa),
. . . . . . . . syn415R (AGg),
. . . . . . . . syn490S (AGt),
. . . . . . . . 559T,
. . . . . . . . 627E,
. . . . . . . . syn630R (AGa),
. . . . . . . . syn643S (TCa),
. . . . . . . . syn652N (AAc),
. . . . . . . . syn653S (TCc),
. . . . . . . . syn666T (ACa),
. . . . . . . . syn679P (CCa),
. . . . . . . . syn724V (GTa))

. . . . ChinaZhejiangShaoxingDTIDZJU10_35M_2013_10_14_s (
. . . . . . . . A/Zhejiang/DTID-ZJU10/2013
. . . . . . . . renamed after 2013-10-18 Deposit from
. . . . . . . . . . . . A/Zhejiang/DTID-ZJU05/2013
. . . . . . . . . . . . ChinaZhejiangShaoxingDTIDZJU05_35M_2013_10_14_s
. . . . . . . . Novel PolymeraseBasic2
. . . . . . . . Host Transition Potential
. . . . . . . . GISAID PB2 EPI477446
. . . . . . . . GISAID Isolate EPI_ISL_148744
. . . . . . . . 20 Polymorphisms (5 Amino and 15 Silent)
. . . . . . . . PB2 Truncated before aa5,
. . . . . . . . syn58T (ACa),
. . . . . . . . 60N [Host Transition Potential],
. . . . . . . . . . . [Emergent H7N9 Novel:
. . . . . . . . . . . . . . . 1 Case Over 2 Sequences],
. . . . . . . . . . . [pH1N1 2009-2011],
. . . . . . . . . . . [sH1N1 1981, 2006, 2008],
. . . . . . . . . . . [sH3N2 Hong Kong 1999],
. . . . . . . . . . . [zH3N2 North America 2011],
. . . . . . . . . . . [H5N1 Qinghai pika 2007],
. . . . . . . . . . . [H7N7 duck],
. . . . . . . . . . . [H9N2],
. . . . . . . . 87N [Host Transition Potential],
. . . . . . . . . . . [Emergent H7N9 Novel:
. . . . . . . . . . . . . . . 1 Case Over 2 Sequences],
. . . . . . . . . . . [pH1N1 2009 Widespread],
. . . . . . . . syn149P (CCa),
. . . . . . . . syn153D (GAc),
. . . . . . . . syn160Q (CAa),
. . . . . . . . syn185I (ATa),
. . . . . . . . 197R [pH1N1],
. . . . . . . . syn288Q (CAa),
. . . . . . . . syn415R (AGg),
. . . . . . . . syn490S (AGt),
. . . . . . . . 559T,
. . . . . . . . 627E,
. . . . . . . . syn630R (AGa),
. . . . . . . . syn643S (TCa),
. . . . . . . . syn652N (AAc),
. . . . . . . . syn653S (TCc),
. . . . . . . . syn666T (ACa),
. . . . . . . . syn679P (CCa),
. . . . . . . . syn724V (GTa))

PB1 Polymorphisms

. . . . ChinaZhejiangShaoxing22_35M_2013_10_14_s (
. . . . . . . . A/Zhejiang/22/2013
. . . . . . . . Novel PolymeraseBasic1
. . . . . . . . GISAID PB1 EPI477408
. . . . . . . . GISAID Isolate EPI_ISL_148728
. . . . . . . . 9 Polymorphisms (2 Amino and 7 Silent)
. . . . . . . . syn57T (ACa),
. . . . . . . . 195T [Host Transition Potential],
. . . . . . . . . . . . [Emergent H7N9 Novel:
. . . . . . . . . . . . . . . . 1 Case Over 2 Sequences],
. . . . . . . . . . . . [H5N1 Human Indonesia 2011],
. . . . . . . . . . . . [H5N1 Avian Asia 2002, 2003, 2004, 2007],
. . . . . . . . . . . . [pH1N1 Shenzhen 2009],
. . . . . . . . . . . . [sH1N1 Spain 2008],
. . . . . . . . . . . . [sH3N2 Boston 2011],
. . . . . . . . . . . . [H10N7 Avian 2007],
. . . . . . . . syn259A (GCa),
. . . . . . . . 361N [Emergent H7N9 Novel:
. . . . . . . . . . . . . . . . 1 Case Over 2 Sequences],
. . . . . . . . . . . . [H3N2 swine Thailand 2005],
. . . . . . . . . . . . [H9N2 gal Korea 2003],
. . . . . . . . . . . . [H1N3 anas Taiwan 2010],
. . . . . . . . syn365R (CGa),
. . . . . . . . syn463V (GTg),
. . . . . . . . syn544A (GCc),
. . . . . . . . syn630P (CCa),
. . . . . . . . syn659A (GCt))

. . . . ChinaZhejiangShaoxingDTIDZJU10_35M_2013_10_14_s (
. . . . . . . . A/Zhejiang/DTID-ZJU10/2013
. . . . . . . . renamed after 2013-10-18 Deposit from
. . . . . . . . . . . . A/Zhejiang/DTID-ZJU05/2013
. . . . . . . . . . . . ChinaZhejiangShaoxingDTIDZJU05_35M_2013_10_14_s
. . . . . . . . Novel PolymeraseBasic1
. . . . . . . . GISAID PB1 EPI477447
. . . . . . . . GISAID Isolate EPI_ISL_148744
. . . . . . . . 12 Polymorphisms (5 Amino and 7 Silent)
. . . . . . . . PB1 Truncated before aa31,
. . . . . . . . 31R,
. . . . . . . . 32D,
. . . . . . . . 45K,
. . . . . . . . syn57T (ACa),
. . . . . . . . 195T [Host Transition Potential],
. . . . . . . . . . . . [Emergent H7N9 Novel:
. . . . . . . . . . . . . . . . 1 Case Over 2 Sequences],
. . . . . . . . . . . . [H5N1 Human Indonesia 2011],
. . . . . . . . . . . . [H5N1 Avian Asia 2002, 2003, 2004, 2007],
. . . . . . . . . . . . [pH1N1 Shenzhen 2009],
. . . . . . . . . . . . [sH1N1 Spain 2008],
. . . . . . . . . . . . [sH3N2 Boston 2011],
. . . . . . . . . . . . [H10N7 Avian 2007],
. . . . . . . . syn259A (GCa),
. . . . . . . . 361N [Emergent H7N9 Novel:
. . . . . . . . . . . . . . . . 1 Case Over 2 Sequences],
. . . . . . . . . . . . [H3N2 swine Thailand 2005],
. . . . . . . . . . . . [H9N2 gal Korea 2003],
. . . . . . . . . . . . [H1N3 anas Taiwan 2010],
. . . . . . . . syn365R (CGa),
. . . . . . . . syn463V (GTg),
. . . . . . . . syn544A (GCc),
. . . . . . . . syn630P (CCa),
. . . . . . . . syn659A (GCt),
. . . . . . . . PB1 Truncated after aa755)

PA Polymorphisms

. . . . ChinaZhejiangShaoxing22_35M_2013_10_14_s (
. . . . . . . . A/Zhejiang/22/2013
. . . . . . . . Polymerase Acidic Identical to
. . . . . . . . . . . . ChinaZhejiangShaoxingDTIDZJU10_35M_2013_10_14_s
. . . . . . . . GISAID PA EPI477409
. . . . . . . . GISAID Isolate EPI_ISL_148728
. . . . . . . . 9 Polymorphisms (0 Amino and 9 Silent)
. . . . . . . . syn58G (GGc) [Emergent H7N9 wild type],
. . . . . . . . . . . . . . . . . .[H5N1 China, Xinjiang Human Fatality (wet market)],
. . . . . . . . . . . . . . . . . .[H5N1 Vietnam Human Fatality],
. . . . . . . . . . . . . . . . . .[H9N2 China, Hangzhou quail 2013-04-04],
. . . . . . . . syn109L (tTG) [Emergent H7N9 Novel:
. . . . . . . . . . . . . . . . . . . . . . 1 Case Over 2 Sequences],
. . . . . . . . . . . . . . . . . . [H7N9 Avian wild type],
. . . . . . . . . . . . . . . . . . [H7N7 Asia Avian],
. . . . . . . . . . . . . . . . . . [H7N6 Japan quail 2009],
. . . . . . . . . . . . . . . . . . [H9N2 China, Guangdong environment 2013-05],
. . . . . . . . . . . . . . . . . . [H9N2 China, Zhejiang anas wild 2013-03-28],
. . . . . . . . . . . . . . . . . . [H5N1 China Human Fatality],
. . . . . . . . . . . . . . . . . . [H5N1 Asia Avian 2010-2012],
. . . . . . . . . . . . . . . . . . [H5N1 China Avian 2009],
. . . . . . . . . . . . . . . . . . [H5N2 England passerine 1991],
. . . . . . . . . . . . . . . . . . [H3N2 Vietnam swine 2010],
. . . . . . . . . . . . . . . . . . [H1N1 Human 1951],
. . . . . . . . . . . . . . . . . . [H1N1 US avian 2009, 2011],
. . . . . . . . . . . . . . . . . . [H1N1 US swine 2004,2005],
. . . . . . . . . . . . . . . . . . [H1N2 US swine 2012],
. . . . . . . . . . . . . . . . . . [H1N2 South Africa ostrich 2011],
. . . . . . . . syn147I (ATc),
. . . . . . . . syn163L (CTc),
. . . . . . . . syn236F (TTt),
. . . . . . . . syn502G (GGg),
. . . . . . . . syn608T (ACa),
. . . . . . . . syn625P (CCc),
. . . . . . . . syn673R (cGG))

. . . . ChinaZhejiangShaoxingDTIDZJU10_35M_2013_10_14_s (
. . . . . . . . A/Zhejiang/DTID-ZJU10/2013
. . . . . . . . renamed after 2013-10-18 Deposit from
. . . . . . . . . . . . A/Zhejiang/DTID-ZJU05/2013
. . . . . . . . . . . . ChinaZhejiangShaoxingDTIDZJU05_35M_2013_10_14_s
. . . . . . . . Polymerase Acidic Identical to
. . . . . . . . . . . . ChinaZhejiangShaoxing22_35M_2013_10_14_s
. . . . . . . . GISAID PA EPI477448
. . . . . . . . GISAID Isolate EPI_ISL_148744
. . . . . . . . 9 Polymorphisms (0 Amino and 9 Silent)
. . . . . . . . PA Truncated before aa8,
. . . . . . . . syn58G (GGc) [Emergent H7N9 wild type],
. . . . . . . . . . . . . . . . . .[H5N1 China, Xinjiang Human Fatality (wet market)],
. . . . . . . . . . . . . . . . . .[H5N1 Vietnam Human Fatality],
. . . . . . . . . . . . . . . . . .[H9N2 China, Hangzhou quail 2013-04-04],
. . . . . . . . syn109L (tTG) [Emergent H7N9 Novel:
. . . . . . . . . . . . . . . . . . . . . . 1 Case Over 2 Sequences],
. . . . . . . . . . . . . . . . . . [H7N9 Avian wild type],
. . . . . . . . . . . . . . . . . . [H7N7 Asia Avian],
. . . . . . . . . . . . . . . . . . [H7N6 Japan quail 2009],
. . . . . . . . . . . . . . . . . . [H9N2 China, Guangdong environment 2013-05],
. . . . . . . . . . . . . . . . . . [H9N2 China, Zhejiang anas wild 2013-03-28],
. . . . . . . . . . . . . . . . . . [H5N1 China Human Fatality],
. . . . . . . . . . . . . . . . . . [H5N1 Asia Avian 2010-2012],
. . . . . . . . . . . . . . . . . . [H5N1 China Avian 2009],
. . . . . . . . . . . . . . . . . . [H5N2 England passerine 1991],
. . . . . . . . . . . . . . . . . . [H3N2 Vietnam swine 2010],
. . . . . . . . . . . . . . . . . . [H1N1 Human 1951],
. . . . . . . . . . . . . . . . . . [H1N1 US avian 2009, 2011],
. . . . . . . . . . . . . . . . . . [H1N1 US swine 2004,2005],
. . . . . . . . . . . . . . . . . . [H1N2 US swine 2012],
. . . . . . . . . . . . . . . . . . [H1N2 South Africa ostrich 2011],
. . . . . . . . syn147I (ATc),
. . . . . . . . syn163L (CTc),
. . . . . . . . syn236F (TTt),
. . . . . . . . syn502G (GGg),
. . . . . . . . syn608T (ACa),
. . . . . . . . syn625P (CCc),
. . . . . . . . syn673R (cGG))

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eH7N9 Influenza PolymeraseBasic2, PolymeraseBasic1, PolymeraseAcidic, Hemagglutinin & Neuraminidase Segments for
the Zhejiang CDC and Zhejiang University
elucidated respectively at
2013-10-18-13_58_23_165540 and 2013-10-18-16_02_21_195590 
by GeneWurx see.PolyDetector v0, Copyright 2007-2013.

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