Texas HA 225 Receptor Binding Variance Potential

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.

Publish Date : 2013-12-25
Last Update : 2013-12-25

Current trending indicates a reportable potential for HA 225 Receptor Binding Variance spreading into Texas on the Hemagglutinin of pH1N1. This change may enhance Vaccine Escape from the currently selected vaccine target candidate, CA/07 X181. 

The GeneWurx RnR model approximates that Receptor Binding Variance at HA 225 may spread into Texas sampled from a severe or fatal case on a pH1N1 background carrying either 225N or 225G, according to the following probabilities.

• 60% probability sampled by 2014-02-01 of HA 225N.
• 78% probability sampled by 2014-02-01 of either HA 225N or HA 225G.

• 01% probability sampled by 2014-06-30 of HA 225N conserving across pH1N1.
• 04% probability sampled by 2014-06-30 of HA 225N conserving on one Hydra.
• 16% probability sampled by 2014-06-30 of HA 225N persisting sporadically on one Hydra.

These outcomes are predicated on properly collected and handled specimen material, at a minimum, from broncho-alveolar lavage and / or from lung tissue at autopsy.  Deep sequencing is indicated for these low-trace, quasi-species situations. We are fully aware that these types of collections may be withheld from public issue.  Therefore, this prediction may fail to be validated due to that intentional censoring of public health data.

As we are concerned that no valid specimen may be properly collected, sequenced and made available to researchers, we provide a GeneWurx projection of the highest ranking clinical severity combination of Hemagglutinin and Neuraminidase segments.  HA 225N is the RBS polymorphism that we consider of gravest concern to the Texas citizens at the moment; although, the projected Neuraminidase is a high probability potentiator of clinical morbidity.

Avoidance of Influenza may be a lifesaving behaviour this winter.

HA Projection

. . . . . . . . 21 Polymorphisms (9 Amino and 12 Silent)
. . . . . . . . syn77S (AGt),
. . . . . . . . 100N,
. . . . . . . . syn141H (CAc),
. . . . . . . . 166Q,
. . . . . . . . syn179L (CTg),
. . . . . . . . 188T,
. . . . . . . . 225N,
. . . . . . . . 259T,
. . . . . . . . 286E,
. . . . . . . . syn308K (AAg),
. . . . . . . . syn333F (TTc),
. . . . . . . . syn338G (GGc),
. . . . . . . . syn372Q (CAa),
. . . . . . . . 377K,
. . . . . . . . syn383N (AAc),
. . . . . . . . syn396V (GTg),
. . . . . . . . syn413K (AAg),
. . . . . . . . syn448L (TTg),
. . . . . . . . 454N,
. . . . . . . . 502K,
. . . . . . . . syn537S (AGc))

NA Projection

. . . . . . . . 16 Polymorphisms (10 Amino and 6 Silent)
. . . . . . . . 40V
. . . . . . . . 44S,
. . . . . . . . syn77G (GGg),
. . . . . . . . 79P,
. . . . . . . . 106V,
. . . . . . . . 108V,
. . . . . . . . 199N,
. . . . . . . . 200S,
. . . . . . . . 222D,
. . . . . . . . syn240T (ACc),
. . . . . . . . 241I,
. . . . . . . . 369K,
. . . . . . . . syn377P (CCa),
. . . . . . . . syn378N (AAt),
. . . . . . . . syn439S (AGt),
. . . . . . . . syn452T (ACc))

Additional revisions may compound onto these segments.  HA 225G will variously arise on this same combination given certain collection and passage strategies (E3). CrossClade revision may occur under particular passage strategies and / or plague purifications.

Due to message management and information sparsity, conclusions on clinical progressions may not be finalised at this time.  However, present clinical reports tend toward the suggestion that in all but exceptional cases, patients infected with this background will experience severe to fatal illness.

The pH1N1 reservoir has currently seeded genetic material for this background throughout North America including on TamiFlu Resistant strains.  This genetic bed is positioned to become widely TamiFlu Resistant during the 2013-2014 season in addition to using these Receptor Binding Site polymorphisms to manifest flashfires of High-CFR intensity in North American geographic foci.

These probabilities will be updated as additional data is made public.  Transparency at this post-pandemic stage is essential to formulate viable responses for the risk groups.  Release of sequences and clinical data of a finer detail and higher quantity will allow information-based decisions.

Please visit GeneWurx.com for insight into the latest published studies.

Publication Copyright 2007-2013 GeneWurx.com  · All Rights Reserved.

Prediction Demonstrated of Antigenic Dual Geography sH3N2 HA 140K

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 : 2013-12-02
Last Update : 2013-12-04

Map - Dual Geography Prediction

---

2 Predicted Human Sequences

---

The United States CDC and the UK National Institute for Medical Research published sequences at GISAID respectively on 2013-06-21 (CDC) and 2013-06-26 (NIMR) that fulfill the dual geography genetic change and timing of the GeneWurx spread prediction published on 2013-02-08 titled sH3N2 HA 140K Antigen Polymorphism Potential in Europe and North America.

Antigenic Variance

sH3N2 Antigen Revision Demonstrated As Predicted Sample Date Name Antigen Revision ID  2013-04-24   Alaska04_C2_44M  HA 140K  EPI459829   2013-03-12   RussiaSamara73_C1St1_17F  HA 140K  EPI460558

The Alaska04_C2_44M_2013_04_24 sequence was antigenically characterised as a Victoria361-like vaccine match.

Vaccine Candidate Investigation

On 2013-12-02 the United States CDC produced 3 lab-derived, HA 140K sequences dated 2013-11-29 and 2013-12-02 (2) at GISAID that originated at New York Medical College and are coded similarly to previous Investigational Vaccine Candidates (X-233 & X-233A).  The 3 lab-developed sequences appear to be based on the Hemagglutinin & Neuraminidase of the fixed form derived / purified from an early ambiguous HA 140K emergence, A/New York/39/2012.

That New York sample taken on 2012-10-20 was published with a submission date and update date of 2012-12-07 on a C1 passage with HA 140I, then on an E3 passage with ambiguity at HA aa140.  Those C1 and E3 passages were each antigenically characterised as Victoria361-like vaccine matches, although that E3 passage showed some trace of ambiguity resolving to HA 140K.

In a publication dated 2013-03-14, an E4 passage derived the HA 140K.  An E5 passage of A/New York/39/2012 with ambiguity resolving to HA 140K was added to GISAID today, 2013-12-02, by the United States CDC to join the outcomes of various other passage strategies for a total of 9 sequences on deposit from this New York sample.

Vaccine Candidate Investigation

sH3N2 Investigational NewYork39_2012_10_20 Passage Strategies Publish Date Name aa140 Antigen ID  2013-12-02   NewYork39_EXIR_5M_X233A_2012_10_20  HA 140K  EPI490080   2013-12-02   NewYork39_EXIR_5M_X233_2012_10_20  HA 140K  EPI490077   2013-11-29   NewYork39_E4E8E1_5M_X233_2012_10_20  HA 140K  EPI489319   2013-12-02   NewYork39_E5_5M_2012_10_20  HA 140K mix wt  EPI490093   2013-05-08   NewYork39_C2_5M_2012_10_20  HA 140I  EPI445712   2013-03-14   NewYork39_E4_5M_2012_10_20  HA 140K  EPI436261   2013-02-25   NewYork39_C3_5M_2012_10_20  HA 140I  EPI426140   2012-12-07   NewYork39_E3_5M_2012_10_20  HA 140K mix wt  EPI404965   2012-12-07   NewYork39_C1_5M_2012_10_20  HA 140I  EPI404927

MetaData

Our researchers very much appreciate that age and gender information are annotated for each base HA 140K sequence via the originating / submitting organisation's chain of custody.

Although 1 of the 2 HA 140K prediction demonstration sequences was updated subsequent to the original submission, no clinical progression, treatment annotation or clinical outcome has yet been made public corresponding to these very important cases that originated respectively from the Alaska State Virology Lab and WHO National Influenza Centre of Saint Petersburg, Russia.

HA Polymorphisms

. . . . Alaska04_C2_44M_2013_04_24 (

. . . . . . . . A/Alaska/04/2013
. . . . . . . . Emergent H7N9 Correlation HA 131A

. . . . . . . . GISAID HA EPI459829

. . . . . . . . GISAID Isolate EPI_ISL_143267

. . . . . . . . 18 Polymorphisms (10 Amino and 8 Silent)

. . . . . . . . #7Y,

. . . . . . . . syn8N (AAt),

. . . . . . . . 33R,

. . . . . . . . syn79F (TTt),

. . . . . . . . 131A [Emergent H7N9 wild type],

. . . . . . . . 140K,

. . . . . . . . 145S,

. . . . . . . . 156H,

. . . . . . . . 186G,

. . . . . . . . 190D,

. . . . . . . . syn215P (CCa),

. . . . . . . . 278K,

. . . . . . . . syn402V (GTa),

. . . . . . . . syn455L (CTg),

. . . . . . . . syn481I (ATa),

. . . . . . . . 489N,

. . . . . . . . syn490V (GTg),

. . . . . . . . syn492R (AGg))

. . . . RussiaSamara73_C1St1_17F_2013_03_12 (

. . . . . . . . A/Samara/73/2013

. . . . . . . . Emergent H7N9 Correlation HA 128A
. . . . . . . . GISAID HA EPI460558

. . . . . . . . GISAID Isolate EPI_ISL_143568

. . . . . . . . 19 Polymorphisms (10 Amino and 9 Silent)

. . . . . . . . #7Y,

. . . . . . . . syn8N (AAt),

. . . . . . . . 33R,

. . . . . . . . syn36V (GTc),

. . . . . . . . syn79F (TTt),

. . . . . . . . 128A [Emergent H7N9 Count 02:
. . . . . . . . . . . . . . . HongKong5942_M_36F_2013_11_30_s

. . . . . . . . . . . . . . . . . . . Deposit Report
. . . . . . . . . . . . . . . . . . . GISAID HA EPI490882

. . . . . . . . . . . . . . . . . . . GISAID Isolate EPI_ISL_151417,

. . . . . . . . . . . . . . . ChinaGuangdongHuizhou1_51F_2013_08_10_s
. . . . . . . . . . . . . . . . . . . Deposit Report

. . . . . . . . . . . . . . . . . . . GISAID HA EPI476697

. . . . . . . . . . . . . . . . . . . GISAID Isolate EPI_ISL_148417],

. . . . . . . . 140K,

. . . . . . . . 142G,

. . . . . . . . 145S,

. . . . . . . . 156H,

. . . . . . . . syn175D (GAt),

. . . . . . . . 186G,

. . . . . . . . 190D,

. . . . . . . . 278K,

. . . . . . . . syn402V (GTa),

. . . . . . . . syn416T (ACa),

. . . . . . . . syn455L (CTg),

. . . . . . . . syn479G (GGg),

. . . . . . . . syn492R (AGg))

NA Polymorphisms

. . . . Alaska04_C2_44M_2013_04_24 (

. . . . . . . . A/Alaska/04/2013

. . . . . . . . GISAID NA EPI459828

. . . . . . . . GISAID Isolate EPI_ISL_143267

. . . . . . . . 15 Polymorphisms (6 Amino and 9 Silent)

. . . . . . . . syn11G (GGc),

. . . . . . . . syn18S (TCc),

. . . . . . . . syn28I (ATt),

. . . . . . . . syn68L (tTa),

. . . . . . . . syn106I (ATt),

. . . . . . . . 151N mix wt,

. . . . . . . . syn167F (TTc),

. . . . . . . . 197N,

. . . . . . . . 221D,

. . . . . . . . syn248G (GGg),

. . . . . . . . 258E,

. . . . . . . . syn300R (cGG),

. . . . . . . . 329N,

. . . . . . . . 392T,

. . . . . . . . syn439T (ACc))

. . . . RussiaSamara73_C1St1_17F_2013_03_12 (

. . . . . . . . A/Samara/73/2013

. . . . . . . . GISAID NA EPI460559

. . . . . . . . GISAID Isolate EPI_ISL_143568

. . . . . . . . 13 Polymorphisms (4 Amino and 9 Silent)

. . . . . . . . syn11G (GGc),

. . . . . . . . syn18S (TCc),

. . . . . . . . 64K,

. . . . . . . . syn106I (ATt),

. . . . . . . . syn108L (CTa),

. . . . . . . . syn128K (AAa),

. . . . . . . . syn234N (AAc),

. . . . . . . . 258E,

. . . . . . . . syn300R (cGG),

. . . . . . . . 329N,

. . . . . . . . syn395Q (CAg),

. . . . . . . . 427T,

. . . . . . . . syn439T (ACc))

Supporting Sequences

HA Polymorphisms

. . . . NewYork39_EXIR_5M_X233A_2012_10_20 (

. . . . . . . . A/New York/39/2012 X-233A

. . . . . . . . Original Submission: 2013-12-02

. . . . . . . . GISAID HA EPI490080

. . . . . . . . GISAID Isolate EPI_ISL_151399

. . . . . . . . 19 Polymorphisms (11 Amino and 8 Silent)

. . . . . . . . #7Y,

. . . . . . . . syn8N (AAt),

. . . . . . . . 33R,

. . . . . . . . syn79F (TTt),

. . . . . . . . 128A,

. . . . . . . . 140K,

. . . . . . . . 142G,

. . . . . . . . 145S,

. . . . . . . . 156H,

. . . . . . . . syn172E (GAg),

. . . . . . . . 186G,

. . . . . . . . 190D,

. . . . . . . . 194P,

. . . . . . . . 278K,

. . . . . . . . syn281C (TGt),

. . . . . . . . syn402V (GTa),

. . . . . . . . syn416T (ACa),

. . . . . . . . syn455L (CTg),

. . . . . . . . syn492R (AGg))

. . . . NewYork39_EXIR_5M_X233_2012_10_20 (

. . . . . . . . A/New York/39/2012 X-233

. . . . . . . . Original Submission: 2013-12-02

. . . . . . . . GISAID HA EPI490077

. . . . . . . . GISAID Isolate EPI_ISL_151398

. . . . . . . . 19 Polymorphisms (11 Amino and 8 Silent)

. . . . . . . . #7Y,

. . . . . . . . syn8N (AAt),

. . . . . . . . 33R,

. . . . . . . . syn79F (TTt),

. . . . . . . . 128A,

. . . . . . . . 140K,

. . . . . . . . 142G,

. . . . . . . . 145S,

. . . . . . . . 156H,

. . . . . . . . syn172E (GAg),

. . . . . . . . 186G,

. . . . . . . . 190D,

. . . . . . . . 194P,

. . . . . . . . 278K,

. . . . . . . . syn281C (TGt),

. . . . . . . . syn402V (GTa),

. . . . . . . . syn416T (ACa),

. . . . . . . . syn455L (CTg),

. . . . . . . . syn492R (AGg))

. . . . NewYork39_E4E8E1_5M_X233_2012_10_20 (

. . . . . . . . A/New York/39/2012 X-233

. . . . . . . . Original Submission: 2013-11-29

. . . . . . . . GISAID HA EPI489319

. . . . . . . . GISAID Isolate EPI_ISL_151026

. . . . . . . . 19 Polymorphisms (11 Amino and 8 Silent)

. . . . . . . . #7Y,

. . . . . . . . syn8N (AAt),

. . . . . . . . 33R,

. . . . . . . . syn79F (TTt),

. . . . . . . . 128A,

. . . . . . . . 140K,

. . . . . . . . 142G,

. . . . . . . . 145S,

. . . . . . . . 156H,

. . . . . . . . syn172E (GAg),

. . . . . . . . 186G,

. . . . . . . . 190D,

. . . . . . . . 194P,

. . . . . . . . 278K,

. . . . . . . . syn281C (TGt),

. . . . . . . . syn402V (GTa),

. . . . . . . . syn416T (ACa),

. . . . . . . . syn455L (CTg),

. . . . . . . . syn492R (AGg))

. . . . NewYork39_E5_5M_2012_10_20 (

. . . . . . . . A/New York/39/2012

. . . . . . . . Original Submission: 2013-12-02

. . . . . . . . GISAID HA EPI490093

. . . . . . . . GISAID Isolate EPI_ISL_151400

. . . . . . . . 19 Polymorphisms (11 Amino and 8 Silent)

. . . . . . . . #7Y,

. . . . . . . . syn8N (AAt),

. . . . . . . . 33R,

. . . . . . . . syn79F (TTt),

. . . . . . . . 128A,

. . . . . . . . 140K mix wt,

. . . . . . . . 142G,

. . . . . . . . 145S,

. . . . . . . . 156H,

. . . . . . . . syn172E (GAg),

. . . . . . . . 186G,

. . . . . . . . 190D,

. . . . . . . . 194P mix wt,

. . . . . . . . 278K,

. . . . . . . . syn281C (TGt),

. . . . . . . . syn402V (GTa),

. . . . . . . . syn416T (ACa),

. . . . . . . . syn455L (CTg),

. . . . . . . . syn492R (AGg))

. . . . NewYork39_C2_5M_2012_10_20 (

. . . . . . . . A/New York/39/2012

. . . . . . . . Original Submission: 2013-05-08

. . . . . . . . GISAID HA EPI445712

. . . . . . . . GISAID Isolate EPI_ISL_140279

. . . . . . . . 17 Polymorphisms (9 Amino and 8 Silent)

. . . . . . . . #7Y,

. . . . . . . . syn8N (AAt),

. . . . . . . . 33R,

. . . . . . . . syn79F (TTt),

. . . . . . . . 128A,

. . . . . . . . 142G,

. . . . . . . . 145S,

. . . . . . . . 156H,

. . . . . . . . syn172E (GAg),

. . . . . . . . 186G,

. . . . . . . . 190D,

. . . . . . . . 278K,

. . . . . . . . syn281C (TGt),

. . . . . . . . syn402V (GTa),

. . . . . . . . syn416T (ACa),

. . . . . . . . syn455L (CTg),

. . . . . . . . syn492R (AGg))

. . . . NewYork39_E4_5M_2012_10_20 (

. . . . . . . . A/New York/39/2012

. . . . . . . . Original Submission: 2013-03-14

. . . . . . . . GISAID HA EPI436261

. . . . . . . . GISAID Isolate EPI_ISL_138001

. . . . . . . . 19 Polymorphisms (11 Amino and 8 Silent)

. . . . . . . . #7Y,

. . . . . . . . syn8N (AAt),

. . . . . . . . 33R,

. . . . . . . . syn79F (TTt),

. . . . . . . . 128A,

. . . . . . . . 140K,

. . . . . . . . 142G,

. . . . . . . . 145S,

. . . . . . . . 156H,

. . . . . . . . syn172E (GAg),

. . . . . . . . 186G,

. . . . . . . . 190D,

. . . . . . . . 194P mix wt,

. . . . . . . . 278K,

. . . . . . . . syn281C (TGt),

. . . . . . . . syn402V (GTa),

. . . . . . . . syn416T (ACa),

. . . . . . . . syn455L (CTg),

. . . . . . . . syn492R (AGg))

. . . . NewYork39_C3_5M_2012_10_20 (

. . . . . . . . A/New York/39/2012

. . . . . . . . Original Submission: 2013-02-25

. . . . . . . . GISAID HA EPI426140

. . . . . . . . GISAID Isolate EPI_ISL_136409

. . . . . . . . 17 Polymorphisms (9 Amino and 8 Silent)

. . . . . . . . #7Y,

. . . . . . . . syn8N (AAt),

. . . . . . . . 33R,

. . . . . . . . syn79F (TTt),

. . . . . . . . 128A,

. . . . . . . . 142G,

. . . . . . . . 145S,

. . . . . . . . 156H,

. . . . . . . . syn172E (GAg),

. . . . . . . . 186G,

. . . . . . . . 190D,

. . . . . . . . 278K,

. . . . . . . . syn281C (TGt),

. . . . . . . . syn402V (GTa),

. . . . . . . . syn416T (ACa),

. . . . . . . . syn455L (CTg),

. . . . . . . . syn492R (AGg))

. . . . NewYork39_E3_5M_2012_10_20 (

. . . . . . . . A/New York/39/2012

. . . . . . . . Original Submission: 2012-12-07

. . . . . . . . GISAID HA EPI404965

. . . . . . . . GISAID Isolate EPI_ISL_131823

. . . . . . . . 19 Polymorphisms (11 Amino and 8 Silent)

. . . . . . . . #7Y,

. . . . . . . . syn8N (AAt),

. . . . . . . . 33R,

. . . . . . . . syn79F (TTt),

. . . . . . . . 128A,

. . . . . . . . 140K mix wt,

. . . . . . . . 142G,

. . . . . . . . 145S,

. . . . . . . . 156H,

. . . . . . . . syn172E (GAg),

. . . . . . . . 186G mix wt,

. . . . . . . . 190D,

. . . . . . . . 219Y mix wt,

. . . . . . . . 278K,

. . . . . . . . syn281C (TGt),

. . . . . . . . syn402V (GTa),

. . . . . . . . syn416T (ACa),

. . . . . . . . syn455L (CTg),

. . . . . . . . syn492R (AGg))

. . . . NewYork39_C1_5M_2012_10_20 (

. . . . . . . . A/New York/39/2012

. . . . . . . . Original Submission: 2012-12-07

. . . . . . . . GISAID HA EPI404927

. . . . . . . . GISAID Isolate EPI_ISL_131810

. . . . . . . . 17 Polymorphisms (9 Amino and 8 Silent)

. . . . . . . . #7Y,

. . . . . . . . syn8N (AAt),

. . . . . . . . 33R,

. . . . . . . . syn79F (TTt),

. . . . . . . . 128A,

. . . . . . . . 142G,

. . . . . . . . 145S,

. . . . . . . . 156H,

. . . . . . . . syn172E (GAg),

. . . . . . . . 186G,

. . . . . . . . 190D,

. . . . . . . . 278K,

. . . . . . . . syn281C (TGt),

. . . . . . . . syn402V (GTa),

. . . . . . . . syn416T (ACa),

. . . . . . . . syn455L (CTg),

. . . . . . . . syn492R (AGg))

NA Polymorphisms

. . . . NewYork39_EXIR_5M_X233A_2012_10_20 (

. . . . . . . . A/New York/39/2012 X-233A

. . . . . . . . Original Submission: 2013-12-02

. . . . . . . . GISAID NA EPI490079

. . . . . . . . GISAID Isolate EPI_ISL_151399

. . . . . . . . 10 Polymorphisms (3 Amino and 7 Silent)

. . . . . . . . syn11G (GGc),

. . . . . . . . syn18S (TCc),

. . . . . . . . 43D,

. . . . . . . . syn106I (ATt),

. . . . . . . . 258E,

. . . . . . . . syn275V (GTt),

. . . . . . . . syn300R (cGG),

. . . . . . . . 329N,

. . . . . . . . syn439T (ACc),

. . . . . . . . syn465N (AAc))

. . . . NewYork39_EXIR_5M_X233_2012_10_20 (

. . . . . . . . A/New York/39/2012 X-233

. . . . . . . . Original Submission: 2013-12-02

. . . . . . . . GISAID NA EPI490076

. . . . . . . . GISAID Isolate EPI_ISL_151398

. . . . . . . . 10 Polymorphisms (3 Amino and 7 Silent)

. . . . . . . . syn11G (GGc),

. . . . . . . . syn18S (TCc),

. . . . . . . . 43D,

. . . . . . . . syn106I (ATt),

. . . . . . . . 258E,

. . . . . . . . syn275V (GTt),

. . . . . . . . syn300R (cGG),

. . . . . . . . 329N,

. . . . . . . . syn439T (ACc),

. . . . . . . . syn465N (AAc))

. . . . NewYork39_E5_5M_2012_10_20 (

. . . . . . . . A/New York/39/2012

. . . . . . . . Original Submission: 2013-12-02

. . . . . . . . GISAID NA EPI490092

. . . . . . . . GISAID Isolate EPI_ISL_151400

. . . . . . . . 10 Polymorphisms (3 Amino and 7 Silent)

. . . . . . . . syn11G (GGc),

. . . . . . . . syn18S (TCc),

. . . . . . . . 43D,

. . . . . . . . syn106I (ATt),

. . . . . . . . 258E,

. . . . . . . . syn275V (GTt),

. . . . . . . . syn300R (cGG),

. . . . . . . . 329N,

. . . . . . . . syn439T (ACc),

. . . . . . . . syn465N (AAc))

. . . . NewYork39_C2_5M_2012_10_20 (

. . . . . . . . A/New York/39/2012

. . . . . . . . Original Submission: 2013-05-08

. . . . . . . . GISAID NA EPI445711

. . . . . . . . GISAID Isolate EPI_ISL_140279

. . . . . . . . 11 Polymorphisms (4 Amino and 7 Silent)

. . . . . . . . syn11G (GGc),

. . . . . . . . syn18S (TCc),

. . . . . . . . 43D,

. . . . . . . . syn106I (ATt),

. . . . . . . . 151N mix wt,

. . . . . . . . 258E,

. . . . . . . . syn275V (GTt),

. . . . . . . . syn300R (cGG),

. . . . . . . . 329N,

. . . . . . . . syn439T (ACc),

. . . . . . . . syn465N (AAc))

. . . . NewYork39_E4_5M_2012_10_20 (

. . . . . . . . A/New York/39/2012

. . . . . . . . Original Submission: 2013-03-14

. . . . . . . . GISAID NA EPI436260

. . . . . . . . GISAID Isolate EPI_ISL_138001

. . . . . . . . 10 Polymorphisms (3 Amino and 7 Silent)

. . . . . . . . syn11G (GGc),

. . . . . . . . syn18S (TCc),

. . . . . . . . 43D,

. . . . . . . . syn106I (ATt),

. . . . . . . . 258E,

. . . . . . . . syn275V (GTt),

. . . . . . . . syn300R (cGG),

. . . . . . . . 329N,

. . . . . . . . syn439T (ACc),

. . . . . . . . syn465N (AAc))

. . . . NewYork39_C3_5M_2012_10_20 (

. . . . . . . . A/New York/39/2012

. . . . . . . . Original Submission: 2013-02-25

. . . . . . . . GISAID NA EPI465202

. . . . . . . . GISAID Isolate EPI_ISL_136409

. . . . . . . . 11 Polymorphisms (4 Amino and 7 Silent)

. . . . . . . . syn11G (GGc),

. . . . . . . . syn18S (TCc),

. . . . . . . . 43D,

. . . . . . . . syn106I (ATt),

. . . . . . . . 151N mix wt,

. . . . . . . . 258E,

. . . . . . . . syn275V (GTt),

. . . . . . . . syn300R (cGG),

. . . . . . . . 329N,

. . . . . . . . syn439T (ACc),

. . . . . . . . syn465N (AAc))

. . . . NewYork39_E3_5M_2012_10_20 (

. . . . . . . . A/New York/39/2012

. . . . . . . . Original Submission: 2012-12-07

. . . . . . . . GISAID NA EPI404964

. . . . . . . . GISAID Isolate EPI_ISL_131823

. . . . . . . . 11 Polymorphisms (3 Amino and 8 Silent)

. . . . . . . . syn11G (GGc),

. . . . . . . . syn18S (TCc),

. . . . . . . . 43D,

. . . . . . . . syn106I (ATt),

. . . . . . . . syn116V (GTa) mix wt,

. . . . . . . . 258E,

. . . . . . . . syn275V (GTt),

. . . . . . . . syn300R (cGG),

. . . . . . . . 329N,

. . . . . . . . syn439T (ACc),

. . . . . . . . syn465N (AAc))

. . . . NewYork39_C1_5M_2012_10_20 (

. . . . . . . . A/New York/39/2012

. . . . . . . . Original Submission: 2012-12-07

. . . . . . . . GISAID NA EPI404926

. . . . . . . . GISAID Isolate EPI_ISL_131810

. . . . . . . . 10 Polymorphisms (3 Amino and 7 Silent)

. . . . . . . . syn11G (GGc),

. . . . . . . . syn18S (TCc),

. . . . . . . . 43D,

. . . . . . . . syn106I (ATt),

. . . . . . . . 258E,

. . . . . . . . syn275V (GTt),

. . . . . . . . syn300R (cGG),

. . . . . . . . 329N,

. . . . . . . . syn439T (ACc),

. . . . . . . . syn465N (AAc))

Please visit GeneWurx.com for insight into the latest published studies.

sH3N2 Influenza Hemagglutinin & Neuraminidase Segments elucidated at 2013-12-02-23_34_14_375380 by GeneWurx see.PolyDetector v0, Copyright 2007-2013.
Supporting Influenza HA & NA Segments elucidated at 2013-12-03-03_05_27_920970 by GeneWurx see.PolyDetector v0, Copyright 2007-2013.

Publication Copyright 2007-2013 GeneWurx.com  · All Rights Reserved.

Prediction Demonstrated in USA of Triple Polymorphism pH1N1 HA 166N, 188T & 189T

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 : 2013-11-28
Last Update : 2013-11-29

---

1 Predicted Sequence

---

The United States CDC published a sequence on 2013-09-09 with Clade Crossing evidence sampled on 2013-08-13 from a 57 year old male in Indiana.  This Indiana22_C2_57M_2013_08_13 sequence fulfills the triple polymorphism genetic change and timing of the prediction published on 2013-02-26 titled HA 166N Polymorphism Potential on pH1N1 Cross-Clade Background with Both 188T and 189T.

No clinical progression, treatment annotation or clinical outcome has yet been published corresponding to this very important case that originated from the Indiana State Department of Health Laboratories.

HA Polymorphisms

. . . . Indiana22_C2_57M_2013_08_13 (

. . . . . . . . A/Indiana/22/2013
. . . . . . . . H7N9 Correlation NA 94I
. . . . . . . . Host Transition Indication NA 94I
. . . . . . . . CrossClade 188T and 189T
. . . . . . . . GISAID HA EPI467365

. . . . . . . . GISAID Isolate EPI_ISL_145658

. . . . . . . . 20 Polymorphisms (9 Amino and 11 Silent)

. . . . . . . . syn#4Y (TAc),

. . . . . . . . syn77S (AGt),

. . . . . . . . 100N,

. . . . . . . . 166N,

. . . . . . . . syn174K (AAg),

. . . . . . . . syn179L (CTg),

. . . . . . . . 188T,

. . . . . . . . 189T,

. . . . . . . . 237I,

. . . . . . . . 286E,

. . . . . . . . syn308K (AAg),

. . . . . . . . syn333F (TTc),

. . . . . . . . syn338G (GGc),

. . . . . . . . syn372Q (CAa),

. . . . . . . . 377K,

. . . . . . . . syn396V (GTg),

. . . . . . . . syn448L (TTg),

. . . . . . . . 454N,

. . . . . . . . syn500R (AGg) [pH1N1 Rare],

. . . . . . . . . . . . . . . . . . [H7N9 Avian],

. . . . . . . . 502K)

NA Polymorphisms

. . . . Indiana22_C2_57M_2013_08_13 (

. . . . . . . . A/Indiana/22/2013
. . . . . . . . H7N9 Correlation NA 94I
. . . . . . . . Host Transition Indication NA 94I
. . . . . . . . CrossClade 188T and 208K
. . . . . . . . GISAID NA EPI467364

. . . . . . . . GISAID Isolate EPI_ISL_145658

. . . . . . . . 14 Polymorphisms (6 Amino and 8 Silent)

. . . . . . . . 44S,

. . . . . . . . 94I [pH1N1 Rare:
. . . . . . . . . . . . . 10(9) Cases over 10 Sequences,
. . . . . . . . . . . . . . . . . 2013 - Count 02
. . . . . . . . . . . . . . . . . 2012 - Count 02
. . . . . . . . . . . . . . . . . 2011 - Count 00
. . . . . . . . . . . . . . . . . 2010 - Count 04
. . . . . . . . . . . . . . . . . 2009 - Count 02],
. . . . . . . . . . [Emergent H7N9 wild type],
. . . . . . . . . . [Host Transition Indication:
. . . . . . . . . . . . . H7N1 Passerine Starling England,
. . . . . . . . . . . . . H7N1 Parrot Ireland,
. . . . . . . . . . . . . H7N1 Ostrich South Africa],

. . . . . . . . . . [H5N1 China Human wild type],
. . . . . . . . . . [s2007 H1N1],
. . . . . . . . 106V,

. . . . . . . . syn156R (CGg),

. . . . . . . . syn176S (TCg),

. . . . . . . . 200S [H5N1],

. . . . . . . . syn205V (GTa) [Emergent H7N9 wild type],
. . . . . . . . . . . . . . . . . . [avH1N1_farm],
. . . . . . . . . . . . . . . . . . [H5N1 wild type],
. . . . . . . . . . . . . . . . . . [H6N1],

. . . . . . . . syn209N (AAt) [H5N1 wild type],

. . . . . . . . syn240T (ACc),

. . . . . . . . 241I [H5N1],

. . . . . . . . syn243T (ACt) [H5N1 China Human wild type],

. . . . . . . . . . . . . . . . . . [H7N9 Avian],

. . . . . . . . 369K,

. . . . . . . . syn377P (CCa) [H5N1 wild type],

. . . . . . . . syn378N (AAt) [H5N1 wild type])

Please visit GeneWurx.com for insight into the latest published studies.

pH1N1 Influenza Hemagglutinin & Neuraminidase Segments elucidated at 2013-09-10-23_00_00_621110 by GeneWurx see.PolyDetector v0, Copyright 2007-2013.

Publication Copyright 2007-2013 GeneWurx.com  · All Rights Reserved.

Burkina Faso Off-Clade pH1N1 Sequences with Strong Homology to H7N9 Vaccine Candidate

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 : 2013-11-21
Last Update : 2013-12-18

Burkina Faso

---

3 Sequences

---

Three Off-Clade Pandemic H1N1 sequences sampled from Burkina Faso were published recently at GISAID by the United States CDC.  These West African sequences group with a small set of highly divergent sequences we have been following that carries an unusually strong polymorphic homology to H7N9.  The set of distinct pH1N1 HA polymorphisms also displays a 51% homology to zoonotic H3N2 and a rather high 44% homology to the H7 serotypes.

On Wednesday, November 20, 2013, the National Institute of Infectious Diseases of Japan produced the details at GISAID of an Investigational Vaccine Candidate for Emergent H7N9 based on the Anhui1 base sequence.  Evidently, when their candidate culturing process was modified with an initial Lewis Lung Carcinoma passage, a novel polymorphism to Emergent H7N9 manifested [Deposit Report].

That H7N9 host switching revision, HA 131T, also features on this group of avian-centric human pH1N1 sequences we have been following.  The HA 131T has previously been seen in H7N9 Avian, the H7N7 human fatality, current H3N2 Human Seasonal (wild type), H1N1 Seasonal 2008, H1N1 Variant Human and in 1918.  Two of the fatalities from the 2006 Egyptian H5N1 HA 230I-bearing Gharbiyah cluster carry this HA 131T.  Animal occurrences include H3N2, avH1N1, H5N1 (including a parrot) and H6N1.

We note when a Group 1 serotype (H1) develops contemporaneous homology with Group 2 serotypes (H3 & H7).  Identifying a reservoir for this small, but persisting, Off-Clade pH1N1 set found primarily in western Africa would be useful in understanding the factors involved for minority strain maturation.

The Burkina Faso details are annotated at the polymorphism level in the following sequence list.

HA Polymorphisms

. . . . BurkinaFaso875_C2_2013_02_26 (

. . . . . . . . A/Burkina Faso/875/2013

. . . . . . . . H7N9 Correlation HA 131T
. . . . . . . . H7N9 Correlation NA 386K
. . . . . . . . Off-Clade

. . . . . . . . GISAID HA EPI482169

. . . . . . . . GISAID Isolate EPI_ISL_149349

. . . . . . . . 38 Polymorphisms (11 Amino and 27 Silent)

. . . . . . . . #11T [avH1N1, zH3N2, H9N2],

. . . . . . . . 35I [avH1N1, zH3N2, H5N1],

. . . . . . . . syn56G (GGc) [Emergent H7N9 Avian],

. . . . . . . . 89E [avH1N1_farm, zH3N2, 1918],

. . . . . . . . syn99I (ATt),

. . . . . . . . syn122K (AAa),

. . . . . . . . 131T [Emergent H7N9

. . . . . . . . . . . . . . . Investigational Vaccine Candidate:

. . . . . . . . . . . . . . . ChinaAnhuiChuzhou1_LLC1E3_35F_2013_03_15_f

. . . . . . . . . . . . . . . . . . . A/Anhui/1/2013 NIIDRG-10.1

. . . . . . . . . . . . . . . . . . . Deposit Report
. . . . . . . . . . . . . . . . . . . GISAID HA EPI486492

. . . . . . . . . . . . . . . . . . . GISAID Isolate EPI_ISL_150198

. . . . . . . . . . . . . . . Japan NIID Lab-Derived,

. . . . . . . . . . . . . . . Initial Passage in Lewis Lung Carcinoma culture],

. . . . . . . . . . . [H7N9 Avian],

. . . . . . . . . . . [H7N7 Human Fatality],
. . . . . . . . . . . [H3N2 Human Seasonal],

. . . . . . . . . . . [H1N1 Human Seasonal 2008],

. . . . . . . . . . . [H1N1 Variant Human 2007, 2011, 2012, 2013],

. . . . . . . . . . . [H1N1 Variant Swine 2011, 2012, 2013],

. . . . . . . . . . . [H1N1 Variant Mink 2012],

. . . . . . . . . . . [1918],

. . . . . . . . syn152I (ATt),

. . . . . . . . syn154L (CTg),

. . . . . . . . syn164L (CTt) [pH1N1 Upsilon],

. . . . . . . . 173R [H7N9 Avian],

. . . . . . . . 206S,

. . . . . . . . syn214K (AAa),

. . . . . . . . syn215P (CCa),

. . . . . . . . syn219I (ATt),

. . . . . . . . syn239P (CCa),

. . . . . . . . syn254P (CCa),

. . . . . . . . 262K [Emergent H7N9 wild type],

. . . . . . . . 266A [H7N9 Avian United States:

. . . . . . . . . . . . . . . . First Base Donor 266V gTC, gTT],

. . . . . . . . syn276H (CAt),

. . . . . . . . syn295F (TTc),

. . . . . . . . syn301I (ATt),

. . . . . . . . syn326S (TCc),

. . . . . . . . syn331G (GGt) [H7N9 Avian],

. . . . . . . . syn337A (GCt) [H7N9 Avian United States],

. . . . . . . . . . . . . . . . .  [Pennsylvania07_C1_1F_2013_10_02

. . . . . . . . . . . . . . . . . . . . . GISAID HA EPI485754

. . . . . . . . . . . . . . . . . . . . . GISAID Isolate EPI_ISL_150035

. . . . . . . . . . . . . . . . .  DominicanRep7626_C2_34F_2013_06_15_TmX_VxX

. . . . . . . . . . . . . . . . . . . . . GISAID HA EPI477445

. . . . . . . . . . . . . . . . . . . . . GISAID Isolate EPI_ISL_148743],

. . . . . . . . syn338G (GGc),

. . . . . . . . 377K,

. . . . . . . . syn379T (ACc),

. . . . . . . . syn433E (GAg) [Emergent H7N9 wild type],

. . . . . . . . syn451K (AAa),

. . . . . . . . syn456L (cTA),

. . . . . . . . 463V [H6N1],

. . . . . . . . syn475D (GAc),

. . . . . . . . syn486T (ACc) [Emergent H7N9 wild type],

. . . . . . . . . . . . . . . . . . [zH3N2],

. . . . . . . . . . . . . . . . . . [H3N8 Avian],

. . . . . . . . syn505G (GGa),

. . . . . . . . 523A,

. . . . . . . . syn526S (TCc),

. . . . . . . . syn527L (TTa))

. . . . BurkinaFaso876_C2_2013_02_26_VxX (

. . . . . . . . A/Burkina Faso/876/2013

. . . . . . . . Vaccine Escape Genotype HA 158E
. . . . . . . . H7N9 Correlation HA 131T
. . . . . . . . H7N9 Correlation NA 386K
. . . . . . . . Off-Clade

. . . . . . . . GISAID HA EPI482162

. . . . . . . . GISAID Isolate EPI_ISL_149346

. . . . . . . . 39 Polymorphisms (12 Amino and 27 Silent)

. . . . . . . . #11T [avH1N1, zH3N2, H9N2],

. . . . . . . . 13T [H5N1, H9N2, H13],

. . . . . . . . 35I [avH1N1, zH3N2, H5N1],

. . . . . . . . syn56G (GGc) [Emergent H7N9 Avian],

. . . . . . . . 89E [avH1N1_farm, zH3N2, 1918],

. . . . . . . . syn99I (ATt),

. . . . . . . . syn122K (AAa),

. . . . . . . . 131T [Emergent H7N9

. . . . . . . . . . . . . . . Investigational Vaccine Candidate:

. . . . . . . . . . . . . . . ChinaAnhuiChuzhou1_LLC1E3_35F_2013_03_15_f

. . . . . . . . . . . . . . . . . . . A/Anhui/1/2013 NIIDRG-10.1
. . . . . . . . . . . . . . . . . . . Deposit Report

. . . . . . . . . . . . . . . . . . . GISAID HA EPI486492

. . . . . . . . . . . . . . . . . . . GISAID Isolate EPI_ISL_150198

. . . . . . . . . . . . . . . Japan NIID Lab-Derived,

. . . . . . . . . . . . . . . Initial Passage in Lewis Lung Carcinoma culture],

. . . . . . . . . . . [H7N9 Avian],

. . . . . . . . . . . [H7N7 Human Fatality],
. . . . . . . . . . . [H3N2 Human Seasonal],

. . . . . . . . . . . [H1N1 Human Seasonal 2008],

. . . . . . . . . . . [H1N1 Variant Human 2007, 2011, 2012, 2013],

. . . . . . . . . . . [H1N1 Variant Swine 2011, 2012, 2013],

. . . . . . . . . . . [H1N1 Variant Mink 2012],

. . . . . . . . . . . [1918],

. . . . . . . . syn152I (ATt),

. . . . . . . . syn154L (CTg),

. . . . . . . . 158E,

. . . . . . . . 206S,

. . . . . . . . syn214K (AAa),

. . . . . . . . syn215P (CCa),

. . . . . . . . syn219I (ATt),

. . . . . . . . syn239P (CCa),

. . . . . . . . syn254P (CCa),

. . . . . . . . 262K [Emergent H7N9 wild type],

. . . . . . . . 266A [H7N9 Avian United States:

. . . . . . . . . . . . . . . . First Base Donor 266V gTC, gTT],

. . . . . . . . syn276H (CAt),

. . . . . . . . syn295F (TTc),

. . . . . . . . syn301I (ATt),

. . . . . . . . syn326S (TCc),

. . . . . . . . syn331G (GGt) [H7N9 Avian],

. . . . . . . . syn337A (GCt) [H7N9 Avian United States],

. . . . . . . . . . . . . . . . .  [Pennsylvania07_C1_1F_2013_10_02

. . . . . . . . . . . . . . . . . . . . . GISAID HA EPI485754

. . . . . . . . . . . . . . . . . . . . . GISAID Isolate EPI_ISL_150035

. . . . . . . . . . . . . . . . .  DominicanRep7626_C2_34F_2013_06_15_TmX_VxX

. . . . . . . . . . . . . . . . . . . . . GISAID HA EPI477445

. . . . . . . . . . . . . . . . . . . . . GISAID Isolate EPI_ISL_148743],

. . . . . . . . syn338G (GGc),

. . . . . . . . 377K,

. . . . . . . . syn379T (ACc),

. . . . . . . . syn425N (AAc) [H7N9 Avian],

. . . . . . . . . . . . . . . . . . .[H7N7 Human Fatality],

. . . . . . . . syn433E (GAg) [Emergent H7N9 wild type],

. . . . . . . . syn451K (AAa),

. . . . . . . . syn456L (cTA),

. . . . . . . . 463V [H6N1],

. . . . . . . . syn475D (GAc),

. . . . . . . . syn486T (ACc) [Emergent H7N9 wild type],

. . . . . . . . . . . . . . . . . . [zH3N2],

. . . . . . . . . . . . . . . . . . [H3N8 Avian],

. . . . . . . . syn505G (GGa),

. . . . . . . . 523A,

. . . . . . . . syn526S (TCc),

. . . . . . . . syn527L (TTa))

. . . . BurkinaFaso859_C1_2013_02_18 (

. . . . . . . . A/Burkina Faso/859/2013

. . . . . . . . H7N9 Correlation HA 131T
. . . . . . . . H7N9 Correlation NA 386K
. . . . . . . . Off-Clade

. . . . . . . . GISAID HA EPI484718

. . . . . . . . GISAID Isolate EPI_ISL_148736

. . . . . . . . 37 Polymorphisms (10 Amino and 27 Silent)

. . . . . . . . #11T [avH1N1, zH3N2, H9N2],

. . . . . . . . 35I [avH1N1, zH3N2, H5N1],

. . . . . . . . syn56G (GGc) [Emergent H7N9 Avian],

. . . . . . . . 89E [avH1N1_farm, zH3N2, 1918],

. . . . . . . . syn99I (ATt),

. . . . . . . . syn122K (AAa),

. . . . . . . . 131T [Emergent H7N9

. . . . . . . . . . . . . . . Investigational Vaccine Candidate:

. . . . . . . . . . . . . . . ChinaAnhuiChuzhou1_LLC1E3_35F_2013_03_15_f

. . . . . . . . . . . . . . . . . . . A/Anhui/1/2013 NIIDRG-10.1
. . . . . . . . . . . . . . . . . . . Deposit Report

. . . . . . . . . . . . . . . . . . . GISAID HA EPI486492

. . . . . . . . . . . . . . . . . . . GISAID Isolate EPI_ISL_150198

. . . . . . . . . . . . . . . Japan NIID Lab-Derived,

. . . . . . . . . . . . . . . Initial Passage in Lewis Lung Carcinoma culture],

. . . . . . . . . . . [H7N9 Avian],

. . . . . . . . . . . [H7N7 Human Fatality],
. . . . . . . . . . . [H3N2 Human Seasonal],

. . . . . . . . . . . [H1N1 Human Seasonal 2008],

. . . . . . . . . . . [H1N1 Variant Human 2007, 2011, 2012, 2013],

. . . . . . . . . . . [H1N1 Variant Swine 2011, 2012, 2013],

. . . . . . . . . . . [H1N1 Variant Mink 2012],

. . . . . . . . . . . [1918],

. . . . . . . . syn152I (ATt),

. . . . . . . . syn154L (CTg),

. . . . . . . . 206S,

. . . . . . . . syn214K (AAa),

. . . . . . . . syn215P (CCa),

. . . . . . . . syn219I (ATt),

. . . . . . . . syn239P (CCa),

. . . . . . . . syn254P (CCa),

. . . . . . . . 262K [Emergent H7N9 wild type],

. . . . . . . . 266A [H7N9 Avian United States:

. . . . . . . . . . . . . . . . First Base Donor 266V gTC, gTT],

. . . . . . . . syn276H (CAt),

. . . . . . . . syn295F (TTc),

. . . . . . . . syn301I (ATt),

. . . . . . . . syn326S (TCc),

. . . . . . . . syn331G (GGt) [H7N9 Avian],

. . . . . . . . syn337A (GCt) [H7N9 Avian United States],

. . . . . . . . . . . . . . . . .  [Pennsylvania07_C1_1F_2013_10_02

. . . . . . . . . . . . . . . . . . . . . GISAID HA EPI485754

. . . . . . . . . . . . . . . . . . . . . GISAID Isolate EPI_ISL_150035

. . . . . . . . . . . . . . . . .  DominicanRep7626_C2_34F_2013_06_15_TmX_VxX

. . . . . . . . . . . . . . . . . . . . . GISAID HA EPI477445

. . . . . . . . . . . . . . . . . . . . . GISAID Isolate EPI_ISL_148743],

. . . . . . . . syn338G (GGc),

. . . . . . . . 377K,

. . . . . . . . syn379T (ACc),

. . . . . . . . syn425N (AAc) [H7N9 Avian],

. . . . . . . . . . . . . . . . . . .[H7N7 Human Fatality],

. . . . . . . . syn433E (GAg) [Emergent H7N9 wild type],

. . . . . . . . syn451K (AAa),

. . . . . . . . syn456L (cTA),

. . . . . . . . 463V [H6N1],

. . . . . . . . syn475D (GAc),

. . . . . . . . syn486T (ACc) [Emergent H7N9 wild type],

. . . . . . . . . . . . . . . . . . [zH3N2],

. . . . . . . . . . . . . . . . . . [H3N8 Avian],

. . . . . . . . syn505G (GGa),

. . . . . . . . 523A,

. . . . . . . . syn526S (TCc),

. . . . . . . . syn527L (TTa))

NA Polymorphisms

. . . . BurkinaFaso875_C2_2013_02_26 (

. . . . . . . . A/Burkina Faso/875/2013

. . . . . . . . H7N9 Correlation HA 131T
. . . . . . . . H7N9 Correlation NA 386K
. . . . . . . . Off-Clade
. . . . . . . . GISAID NA EPI482168

. . . . . . . . GISAID Isolate EPI_ISL_149349

. . . . . . . . 14 Polymorphisms (5 Amino and 9 Silent)

. . . . . . . . 13I [Emergent H7N9 wild type
. . . . . . . . . . . . . . First Base Donor ACc, ACT, Atg],
. . . . . . . . . . . [avH1N1_farm],
. . . . . . . . . . . [H5N1],
. . . . . . . . . . . [H6N1],

. . . . . . . . syn20A (GCc),

. . . . . . . . 74V,

. . . . . . . . syn89S (TCt),

. . . . . . . . 106V,

. . . . . . . . syn127L (cTG),

. . . . . . . . syn183A (GCc),

. . . . . . . . syn192T (ACc),

. . . . . . . . syn304V (GTt),

. . . . . . . . syn370G (GGg),

. . . . . . . . syn382G (GGa),

. . . . . . . . 385T,

. . . . . . . . 386K [Emergent H7N9 wild type],

. . . . . . . . . . . . [pH1N1 Upsilon],

. . . . . . . . . . . . [H9N2],

. . . . . . . . syn433E (GAa))

. . . . BurkinaFaso876_C2_2013_02_26_VxX (

. . . . . . . . A/Burkina Faso/876/2013

. . . . . . . . Vaccine Escape Genotype HA 158E
. . . . . . . . H7N9 Correlation HA 131T
. . . . . . . . H7N9 Correlation NA 386K
. . . . . . . . Off-Clade
. . . . . . . . GISAID NA EPI482161

. . . . . . . . GISAID Isolate EPI_ISL_149346

. . . . . . . . 15 Polymorphisms (5 Amino and 10 Silent)

. . . . . . . . 13I [Emergent H7N9 wild type
. . . . . . . . . . . . . . First Base Donor ACc, ACT, Atg],
. . . . . . . . . . . [avH1N1_farm],
. . . . . . . . . . . [H5N1],
. . . . . . . . . . . [H6N1],

. . . . . . . . syn20A (GCc),

. . . . . . . . 74V,

. . . . . . . . syn89S (TCt),

. . . . . . . . 106V,

. . . . . . . . syn127L (cTG),

. . . . . . . . syn140L (tTA),

. . . . . . . . syn183A (GCc),

. . . . . . . . syn192T (ACc),

. . . . . . . . syn304V (GTt),

. . . . . . . . syn370G (GGg),

. . . . . . . . syn382G (GGa),

. . . . . . . . 385T,

. . . . . . . . 386K [Emergent H7N9 wild type],

. . . . . . . . . . . . [pH1N1 Upsilon],

. . . . . . . . . . . . [H9N2],

. . . . . . . . syn433E (GAa))

. . . . BurkinaFaso859_C1_2013_02_18 (

. . . . . . . . A/Burkina Faso/859/2013

. . . . . . . . H7N9 Correlation HA 131T
. . . . . . . . H7N9 Correlation NA 386K
. . . . . . . . Off-Clade
. . . . . . . . GISAID NA EPI477427

. . . . . . . . GISAID Isolate EPI_ISL_148736

. . . . . . . . 15 Polymorphisms (5 Amino and 10 Silent)

. . . . . . . . 13I [Emergent H7N9 wild type
. . . . . . . . . . . . . . First Base Donor ACc, ACT, Atg],
. . . . . . . . . . . [avH1N1_farm],
. . . . . . . . . . . [H5N1],
. . . . . . . . . . . [H6N1],

. . . . . . . . syn20A (GCc),

. . . . . . . . syn47E (GAg),

. . . . . . . . 74V,

. . . . . . . . syn89S (TCt),

. . . . . . . . 106V,

. . . . . . . . syn127L (cTG),

. . . . . . . . syn183A (GCc),

. . . . . . . . syn192T (ACc),

. . . . . . . . syn304V (GTt),

. . . . . . . . syn370G (GGg),

. . . . . . . . syn382G (GGa),

. . . . . . . . 385T,

. . . . . . . . 386K [Emergent H7N9 wild type],

. . . . . . . . . . . . [pH1N1 Upsilon],

. . . . . . . . . . . . [H9N2],

. . . . . . . . syn433E (GAa))

Please visit GeneWurx.com for insight into the latest published studies.

pH1N1 Influenza Hemagglutinin & Neuraminidase Segments elucidated at 2013-11-20-01_51_10_493570 by GeneWurx see.PolyDetector v0, Copyright 2007-2013.

Publication Copyright 2007-2013 GeneWurx.com  · All Rights Reserved.