China - H7N9 Human Isolates on Deposit at GISAID - FluTrackers News and Information

This is a sticky topic.

NS1 replied

January 28, 2014, 09:56 PM
Re: China - H7N9 Human Isolates on Deposit at GISAID

Originally posted by sharon sanders

Temporary post on this thread -

I moved some posts about GISAID technical issues on this thread to this forum:

http://www.flutrackers.com/forum/sho...d.php?t=217659

Thank you, Sharon.

GISAID JaiView Java Security Error discussion [FT#217659].
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NS1 replied

January 25, 2014, 11:21 PM
Re: China - H7N9 Human Isolates on Deposit at GISAID

Originally posted by Shiloh View Post

Source: http://www.cidrap.umn.edu/news-persp...an-jan-24-2014

Flu Scan for Jan 24, 2014
H7N9 transmission in songbirds; Possible 1918 pandemic origin
Filed Under:
H7N9 Avian Influenza;Avian Influenza (Bird Flu); Pandemic Influenza

Study shows songbirds might aid in H7N9 spread

H7N9 avian flu replicates well in finches, sparrows, and parakeets experimentally inoculated with the pathogen, and the birds shed the virus in high numbers and show few signs of disease, scientists reported today in Emerging Infectious Diseases.

Researchers from St. Jude Children's Research Hospital in Memphis, Tenn., and from China and Hong Kong inoculated groups of zebra finches, society finches, parakeets, and house sparrows with the H7N9 virus either intranasally, intraocularly, or orally and housed them with birds that were not inoculated (contact birds).

All inoculated birds shed virus, but only via the beak and not via the cloaca (anus). Shedding levels were highest in the two finch species, which shed virus for 6 days. Parakeets also shed virus for 6 days, while the sparrows shed virus for 4 days.

All species of birds were susceptible to H7N9 infection, but only one sparrow showed signs of clinical disease: lethargy, loose and discolored feces, and ruffled feathers.

Contact finches and sparrows showed evidence of H7N9 infection, but only one infected contact finch shed high levels of the virus. The contact parakeets did not become infected.

The authors conclude, "Our demonstration that parakeets and multiple species of songbirds are susceptible to influenza A(H7N9) virus isolated from humans during the recent outbreak in China further supports the possible contribution of songbirds and parakeets to the ecology, maintenance, and transmission of novel A(H7N9) viruses."
Jan 24 Emerg Infect Dis study

. . .

Jones JC, Sonnberg S, Ko?er ZA, Shanmuganatham K, Seiler P, Shu Y, et al.
Possible role of songbirds and parakeets in transmission of influenza A(H7N9) virus to humans.
Emerg Infect Dis [Internet]. 2014 Mar [date cited].
http://dx.doi.org/10.3201/eid2003.131271
DOI: 10.3201/eid2003.131271
<table align="center" border="0px" cellpadding="2px" cellspacing="0px" style="background-color: #ffe9c4; border-color: darkred; border-radius: 4px; border-style: ridge; border-width: 12px; box-shadow: 0 5px 15px rgba(0,0,0,0.8); padding-bottom: 2px; padding-left: 5px; padding-right: 5px; padding-top: 2px; width: 90%;">
<tbody>
<tr style="float: center;"><td style="font-size: 140%; font-weight: bold;">Possible Role of Songbirds and Parakeets in Transmission of Influenza A(H7N9) Virus to Humans
</td></tr>
<tr style="float: center;"><td style="font-size: 90%;">Songbirds are common household pets and are in close contact with humans and domesticated animals. Their wild counterparts also are likely to interact with poultry in backyard farms and in many farming sectors (14,15).
</td></tr>
<tr style="float: center; font-size: 100%;"><td></td></tr>
<tr style="float: center; font-size: 60%;"><td>By Jeremy C. Jones, Stephanie Sonnberg, Zeynep A. Ko?er, Karthik Shanmuganatham, Patrick Seiler, Yuelong Shu, Huachen Zhu, Yi Guan, Malik Peiris, Richard J. Webby, and Robert G. Webster</td></tr>
<tr style="float: center; font-size: 60%;"><td><a href="http://wwwnc.cdc.gov/eid/" target="_blank">EID Journal</a>
Volume 20, Number 3?March 2014
Ahead of Print
January 24, 2014</td></tr>
<tr style="float: center; font-size: 100%;"><td></td></tr>
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<div style="text-align: left;">
'Abstract Extract:

"Our study demonstrates that a human isolate can replicate in and be shed by such songbirds and parakeets into their environment. This finding has implications for these birds? potential as intermediate hosts with the ability to facilitate transmission and dissemination of A(H7N9) virus."'

</div>
</div>
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Related
Open-Access, Full-Text
H7N9 Publications
on
Passerine Involvement
2013-04-03 [FT#490356] Cross SeroType Homology HA 118A Originated in Passerines

2013-04-09 [FT#491682] HA 541V H5N1 Avian 50 Species

2013-04-11 [FT#492191] HA 202V H5N1 China Pigeon 2010

2013-04-14 [FT#492898] Potential Passerine Involvement as Emergent H7N9 Reservoir

2013-04-17 [FT#493607] A Tale of Two Sequences

2013-04-29 [FT#495364] Passerines Fly Higher than Poultry

2013-04-30 [FT#495496] Unlocking a 3 Piece 4D Puzzle

2013-05-01 [FT#495674] Memorable Magpies & Martins, Probable Pets & Pigeons, Tasty Swallows & Swiftlets

2013-05-01 [FT#495839] RFI from Veterinary Pathogen Storage Facilities

2013-07-12 [FT#503849] Ignition v. Spread

2013-12-08 [eH7N9 Shaoxing] Shaoxing, Zhejiang Fall 2013 Human H7N9 Displays Varied Genetics from Two Laboratories
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NS1 replied

January 4, 2014, 12:37 PM
Re: China - H7N9 Human Isolates on Deposit at GISAID

Novel Genetics
in Guangdong Child
November 2013

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 : 2014-01-04
Last Update : 2014-01-04

On 2013-12-25, the Guangdong CDC released a sequence at GenBank from a recent Emergent H7N9 case sampled from a 3 year old male child (FluTrackers Case #139) on November 4, 2013. This sequence provides a fourth concurrent novel gene constellation in present human circulation. Emergent H7N9 is very active genetically .

The Hemagglutinin resembles the most recent Guandgong case [Deposit Report] with the antigenic HA 128A, but has dropped the HA 277D creating yet another novel Emergent H7N9 Hemagglutinin. The transmission of HA 128A, an antigenic revision from the circulating human seasonal H3N2 that set Hospitalisation and Fatality records <a href="http://www.flutrackers.com/forum/showthread.php?p=491951#post491951" target="_blank">last season</a>, merits close examination for human infectivity.

From the four most recent human sequence deposits of Emergent H7N9, four different sequence beds are in concurrent transmission with interplay.

The Polymerase constellation is novel and again strikingly divergent from the Fall 2013 human cases. The novel Polymerase Acidic (PA) of this child does not resemble the first Guangdong case, but is does share sporadic homology with the recent human Hong Kong case [Deposit Report]. H5N1 Fatalities in Asia also share features of this Guangdong child's PA segment. The ReAssorted Polymerase Basic 1 (PB1) from the first Guangdong case is maintained, but with reversion at the drop of a rare PB1 374V. The ReAssorted Polymerase Basic 2 (PB2) from the first Guangdong case is also maintained, but with the novelty addition of 3 amino polymorphisms. Oddly, after gaining 3 revisions, PB2 in this human child then reverts to the avian base at 627E.

<div style="text-align: center;">
HA Polymorphisms</div>

. . . . ChinaGuangdongChangping2_E1_3M_2013_11_04 (
. . . . . . . . A/Guangdong/2/2013
. . . . . . . . Novel Hemagglutinin
. . . . . . . . GenBank HA <a href="http://www.ncbi.nlm.nih.gov/nuccore/KF922738" target="_blank">KF922738</a>
. . . . . . . . 105 Polymorphisms (19 Amino and 86 Silent)
. . . . . . . . 11I [#4I] [zH3N2],
. . . . . . . . 65K [51K],
. . . . . . . . 130A [118A],
. . . . . . . . 140A [128A] [Emergent H7N9 Novel to Guangdong Province],
. . . . . . . . . . . . . . . . . [H3N2 Human Seasonal],
. . . . . . . . 183S [174S] [zH3N2],
. . . . . . . . 188V [179V] [zH3N2],
. . . . . . . . 195V [186V],
. . . . . . . . 198A [189A],
. . . . . . . . 211V [202V] [zH3N2],
. . . . . . . . 217N [208N],
. . . . . . . . 235L [226L] [zH3N2],
. . . . . . . . 285N [277N],
. . . . . . . . 307D [299D],
. . . . . . . . 321R [313R] [H9N2],
. . . . . . . . 410N [401N],
. . . . . . . . 427I [418I],
. . . . . . . . 455D [446D],
. . . . . . . . 462K [453K] [zH3N2],
. . . . . . . . 541V [533V],
. . . . . . . . HA Truncated after aa554 [HA Truncated after aa546])

<div style="text-align: center;">
PB2 Polymorphisms</div>

. . . . ChinaGuangdongChangping2_E1_3M_2013_11_04 (
. . . . . . . . A/Guangdong/2/2013
. . . . . . . . Novel Polymerase Basic 2
. . . . . . . . GenBank PB2 <a href="http://www.ncbi.nlm.nih.gov/nuccore/KF944958" target="_blank">KF944958</a>
. . . . . . . . 87 Polymorphisms (9 Amino and 78 Silent)
. . . . . . . . 139I,
. . . . . . . . 191E,
. . . . . . . . 251K,
. . . . . . . . 521I,
. . . . . . . . 559T,
. . . . . . . . 570I,
. . . . . . . . 591L,
. . . . . . . . 627E,
. . . . . . . . 676V)

<div style="text-align: center;">
PB1 Polymorphisms</div>

. . . . ChinaGuangdongChangping2_E1_3M_2013_11_04 (
. . . . . . . . A/Guangdong/2/2013
. . . . . . . . GenBank PB2 <a href="http://www.ncbi.nlm.nih.gov/nuccore/KF944959" target="_blank">KF944959</a>
. . . . . . . . 63 Polymorphisms (4 Amino and 59 Silent)
. . . . . . . . 171V,
. . . . . . . . 397M,
. . . . . . . . 525I,
. . . . . . . . 694S [H7N9 Czech goose 2009])

<div style="text-align: center;">
PA Polymorphisms</div>

. . . . ChinaGuangdongChangping2_E1_3M_2013_11_04 (
. . . . . . . . A/Guangdong/2/2013
. . . . . . . . Novel Polymerase Acidic
. . . . . . . . GenBank PB2 <a href="http://www.ncbi.nlm.nih.gov/nuccore/KF944960" target="_blank">KF944960</a>
. . . . . . . . 76 Polymorphisms (7 Amino and 69 Silent)
. . . . . . . . 96H,
. . . . . . . . 100V,
. . . . . . . . 115S [H5N1 China Human Wet Market],
. . . . . . . . 336M,
. . . . . . . . 356K [H5N1 Asia Human Fatalities],
. . . . . . . . 364G,
. . . . . . . . 394D)

<div align="center">
Please visit <a href="http://genewurx.com/" target="_blank">GeneWurx.com</a> for insight into the latest published studies.
</div>
<div style="text-align: center;">
eH7N9 Influenza Hemagglutinin, Polymerase Basic 2, Polymerase Basic 1 & Polymerase Acidic Segments
elucidated at 2014-01-02-02_01_41_727190 by GeneWurx see.PolyDetector v0, Copyright 2007-2014. 


Publication Copyright 2007-2014 GeneWurx.com, All Rights Reserved.</div>
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NS1 replied

January 4, 2014, 04:06 AM
Re: China - H7N9 Human Isolates on Deposit at GISAID

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 : 2014-01-04
Last Update : 2014-01-04

On 2013-12-31, the Jiangsu CDC released a set of sequences at GenBank from ten early Emergent H7N9 human cases and 2 related environmental samples.

<div style="text-align: center;">
HA Polymorphisms</div>

. . . . Xuzhou1_2013_04_25 (
. . . . . . . . GenBank HA <a href="http://www.ncbi.nlm.nih.gov/nuccore/KF150616" target="_blank">KF150616</a>
. . . . . . . . 109 Polymorphisms (20 Amino and 89 Silent)
. . . . . . . . 11I [#4I],
. . . . . . . . 130A [118A],
. . . . . . . . 183S [174S],
. . . . . . . . 188V [179V],
. . . . . . . . 195V [186V],
. . . . . . . . 198A [189A],
. . . . . . . . 208S [199S] [sH3N2 wild type amino],
. . . . . . . . 211V [202V],
. . . . . . . . 217N [208N],
. . . . . . . . 235L [226L],
. . . . . . . . 285N [277N],
. . . . . . . . 307D [299D],
. . . . . . . . 321R [313R],
. . . . . . . . 410N [401N],
. . . . . . . . 427I [418I],
. . . . . . . . 455D [446D],
. . . . . . . . 462K [453K],
. . . . . . . . 541V [533V],
. . . . . . . . 551S [543S],
. . . . . . . . 552R [544R])

. . . . Nanjing7_2013_04_13 (
. . . . . . . . GenBank HA <a href="http://www.ncbi.nlm.nih.gov/nuccore/KF007148" target="_blank">KF007148</a>
. . . . . . . . 108 Polymorphisms (20 Amino and 88 Silent)
. . . . . . . . 11I [#4I],
. . . . . . . . 65K [51K],
. . . . . . . . 130A [118A],
. . . . . . . . 183S [174S],
. . . . . . . . 188V [179V],
. . . . . . . . 195V [186V],
. . . . . . . . 198A [189A],
. . . . . . . . 211V [202V],
. . . . . . . . 217N [208N],
. . . . . . . . 235L [226L],
. . . . . . . . 285N [277N],
. . . . . . . . 307D [299D],
. . . . . . . . 321R [313R],
. . . . . . . . 410N [401N],
. . . . . . . . 427I [418I],
. . . . . . . . 455D [446D],
. . . . . . . . 462K [453K],
. . . . . . . . 541V [533V],
. . . . . . . . 551S [543S],
. . . . . . . . 552R [544R])

. . . . Suzhou5_2013_04_12 (
. . . . . . . . GenBank HA <a href="http://www.ncbi.nlm.nih.gov/nuccore/KF007140" target="_blank">KF007140</a>
. . . . . . . . 106 Polymorphisms (18 Amino and 88 Silent)
. . . . . . . . 11I [#4I],
. . . . . . . . 130A [118A],
. . . . . . . . 183S [174S],
. . . . . . . . 188V [179V],
. . . . . . . . 195V [186V],
. . . . . . . . 198A [189A],
. . . . . . . . 208S [199S] [sH3N2 wild type amino],
. . . . . . . . 211V [202V],
. . . . . . . . 217N [208N],
. . . . . . . . 235L [226L],
. . . . . . . . 285N [277N],
. . . . . . . . 307D [299D],
. . . . . . . . 321R [313R],
. . . . . . . . 410N [401N],
. . . . . . . . 427I [418I],
. . . . . . . . 455D [446D],
. . . . . . . . 462K [453K],
. . . . . . . . 541V [533V])

. . . . Nanjing6_2013_04_11 (
. . . . . . . . GenBank HA <a href="http://www.ncbi.nlm.nih.gov/nuccore/KF007116" target="_blank">KF007116</a>
. . . . . . . . 105 Polymorphisms (18 Amino and 87 Silent)
. . . . . . . . 11I [#4I],
. . . . . . . . 130A [118A],
. . . . . . . . 183S [174S],
. . . . . . . . 188V [179V],
. . . . . . . . 195V [186V],
. . . . . . . . 198A [189A],
. . . . . . . . 211V [202V],
. . . . . . . . 217N [208N],
. . . . . . . . 235L [226L],
. . . . . . . . 285N [277N],
. . . . . . . . 307D [299D],
. . . . . . . . 321R [313R],
. . . . . . . . 410N [401N],
. . . . . . . . 427I [418I],
. . . . . . . . 455D [446D],
. . . . . . . . 462K [453K],
. . . . . . . . 541V [533V],
. . . . . . . . 552R [544R])

. . . . Suzhou3_2013_04_09 (
. . . . . . . . GenBank HA <a href="http://www.ncbi.nlm.nih.gov/nuccore/KF007108" target="_blank">KF007108</a>
. . . . . . . . 103 Polymorphisms (17 Amino and 86 Silent)
. . . . . . . . 11I [#4I],
. . . . . . . . 130A [118A],
. . . . . . . . 183S [174S],
. . . . . . . . 188V [179V],
. . . . . . . . 195V [186V],
. . . . . . . . 198A [189A],
. . . . . . . . 211V [202V],
. . . . . . . . 217N [208N],
. . . . . . . . 235L [226L],
. . . . . . . . 285N [277N],
. . . . . . . . 307D [299D],
. . . . . . . . 321R [313R],
. . . . . . . . 410N [401N],
. . . . . . . . 427I [418I],
. . . . . . . . 455D [446D],
. . . . . . . . 462K [453K],
. . . . . . . . 541V [533V])

. . . . envSuzhou8_2013_04_08 (
. . . . . . . . GenBank HA <a href="http://www.ncbi.nlm.nih.gov/nuccore/KF007004" target="_blank">KF007004</a>
. . . . . . . . 108 Polymorphisms (19 Amino and 89 Silent)
. . . . . . . . 11I [#4I],
. . . . . . . . 130A [118A],
. . . . . . . . 183S [174S],
. . . . . . . . 188V [179V],
. . . . . . . . 195V [186V],
. . . . . . . . 198A [189A],
. . . . . . . . 211V [202V],
. . . . . . . . 217N [208N],
. . . . . . . . 235L [226L],
. . . . . . . . 285N [277N],
. . . . . . . . 307D [299D],
. . . . . . . . 321R [313R],
. . . . . . . . 410N [401N],
. . . . . . . . 427I [418I],
. . . . . . . . 455D [446D],
. . . . . . . . 462K [453K],
. . . . . . . . 541V [533V],
. . . . . . . . 551S [543S],
. . . . . . . . 552R [544R])

. . . . Wuxi4_2013_04_07 (
. . . . . . . . GenBank HA <a href="http://www.ncbi.nlm.nih.gov/nuccore/KF007076" target="_blank">KF007076</a>
. . . . . . . . 107 Polymorphisms (20 Amino and 87 Silent)
. . . . . . . . 11I [#4I],
. . . . . . . . 65K [51K],
. . . . . . . . 130A [118A],
. . . . . . . . 183S [174S],
. . . . . . . . 188V [179V],
. . . . . . . . 195V [186V],
. . . . . . . . 198A [189A],
. . . . . . . . 211V [202V],
. . . . . . . . 217N [208N],
. . . . . . . . 235L [226L],
. . . . . . . . 285N [277N],
. . . . . . . . 307D [299D],
. . . . . . . . 321R [313R],
. . . . . . . . 410N [401N],
. . . . . . . . 427I [418I],
. . . . . . . . 455D [446D],
. . . . . . . . 462K [453K],
. . . . . . . . 541V [533V],
. . . . . . . . 551S [543S],
. . . . . . . . 552R [544R])

. . . . Wuxi3_2013_04_07 (
. . . . . . . . GenBank HA <a href="http://www.ncbi.nlm.nih.gov/nuccore/KF007068" target="_blank">KF007068</a>
. . . . . . . . 106 Polymorphisms (19 Amino and 87 Silent)
. . . . . . . . 11I [#4I],
. . . . . . . . 130A [118A],
. . . . . . . . 183S [174S],
. . . . . . . . 188V [179V],
. . . . . . . . 195V [186V],
. . . . . . . . 198A [189A],
. . . . . . . . 211V [202V],
. . . . . . . . 217N [208N],
. . . . . . . . 235L [226L],
. . . . . . . . 285N [277N],
. . . . . . . . 307D [299D],
. . . . . . . . 321R [313R],
. . . . . . . . 410N [401N],
. . . . . . . . 427I [418I],
. . . . . . . . 455D [446D],
. . . . . . . . 462K [453K],
. . . . . . . . 541V [533V],
. . . . . . . . 551S [543S],
. . . . . . . . 552R [544R])

. . . . Zhenjiang1_2013_04_07 (
. . . . . . . . GenBank HA <a href="http://www.ncbi.nlm.nih.gov/nuccore/KF007060" target="_blank">KF007060</a>
. . . . . . . . 110 Polymorphisms (21 Amino and 89 Silent)
. . . . . . . . 11I [#4I],
. . . . . . . . 65M [51M],
. . . . . . . . 130A [118A],
. . . . . . . . 183S [174S],
. . . . . . . . 188V [179V],
. . . . . . . . 195V [186V],
. . . . . . . . 198A [189A],
. . . . . . . . 211V [202V],
. . . . . . . . 217N [208N],
. . . . . . . . 235L [226L],
. . . . . . . . 285N [277N],
. . . . . . . . 307D [299D],
. . . . . . . . 321R [313R],
. . . . . . . . 410N [401N],
. . . . . . . . 427I [418I],
. . . . . . . . 455D [446D],
. . . . . . . . 462K [453K],
. . . . . . . . 541V [533V],
. . . . . . . . 551S [543S],
. . . . . . . . 552R [544R],
. . . . . . . . 554K [546K])

. . . . Nanjing4_2013_04_07 (
. . . . . . . . GenBank HA <a href="http://www.ncbi.nlm.nih.gov/nuccore/KF007052" target="_blank">KF007052</a>
. . . . . . . . 103 Polymorphisms (17 Amino and 86 Silent)
. . . . . . . . 11I [#4I],
. . . . . . . . 130A [118A],
. . . . . . . . 183S [174S],
. . . . . . . . 188V [179V],
. . . . . . . . 195V [186V],
. . . . . . . . 198A [189A],
. . . . . . . . 211V [202V],
. . . . . . . . 217N [208N],
. . . . . . . . 235L [226L],
. . . . . . . . 285N [277N],
. . . . . . . . 307D [299D],
. . . . . . . . 321R [313R],
. . . . . . . . 410N [401N],
. . . . . . . . 427I [418I],
. . . . . . . . 455D [446D],
. . . . . . . . 462K [453K],
. . . . . . . . 541V [533V])

. . . . envZhenjiang4_2013_04_07 (
. . . . . . . . GenBank HA <a href="http://www.ncbi.nlm.nih.gov/nuccore/KF007012" target="_blank">KF007012</a>
. . . . . . . . 102 Polymorphisms (16 Amino and 86 Silent)
. . . . . . . . 11I [#4I],
. . . . . . . . 130A [118A],
. . . . . . . . 183S [174S],
. . . . . . . . 188V [179V],
. . . . . . . . 195V [186V],
. . . . . . . . 198A [189A],
. . . . . . . . 211V [202V],
. . . . . . . . 217N [208N],
. . . . . . . . 285N [277N],
. . . . . . . . 307D [299D],
. . . . . . . . 321R [313R],
. . . . . . . . 410N [401N],
. . . . . . . . 427I [418I],
. . . . . . . . 455D [446D],
. . . . . . . . 462K [453K],
. . . . . . . . 541V [533V])

. . . . Nanjing2_2013_04_05 (
. . . . . . . . GenBank HA <a href="http://www.ncbi.nlm.nih.gov/nuccore/KF007044" target="_blank">KF007044</a>
. . . . . . . . 110 Polymorphisms (20 Amino and 90 Silent)
. . . . . . . . 11I [#4I],
. . . . . . . . 65M [51M],
. . . . . . . . 130A [118A],
. . . . . . . . 183S [174S],
. . . . . . . . 188V [179V],
. . . . . . . . 195V [186V],
. . . . . . . . 198A [189A],
. . . . . . . . 211V [202V],
. . . . . . . . 217N [208N],
. . . . . . . . 235L [226L],
. . . . . . . . 285N [277N],
. . . . . . . . 307D [299D],
. . . . . . . . 321R [313R],
. . . . . . . . 410N [401N],
. . . . . . . . 427I [418I],
. . . . . . . . 455D [446D],
. . . . . . . . 462K [453K],
. . . . . . . . 541V [533V],
. . . . . . . . 551S [543S],
. . . . . . . . 552R [544R])

<div style="text-align: center;">
NA Polymorphisms</div>

. . . . Xuzhou1_2013_04_25 (
. . . . . . . . GenBank NA <a href="http://www.ncbi.nlm.nih.gov/nuccore/KF150618" target="_blank">KF150618</a>
. . . . . . . . 34 Polymorphisms (12 Amino and 22 Silent)
. . . . . . . . 7V [7V] [avH1N1],
. . . . . . . . 10S [10S],
. . . . . . . . 16I [16I],
. . . . . . . . 19A [19A],
. . . . . . . . 40G [40G],
. . . . . . . . 53T [53T],
. . . . . . . . 81T [80T],
. . . . . . . . 84N [83N],
. . . . . . . . 112S [111S],
. . . . . . . . 335I [332I],
. . . . . . . . 359A [355A],
. . . . . . . . 401A [397A])

. . . . Nanjing7_2013_04_13 (
. . . . . . . . GenBank NA <a href="http://www.ncbi.nlm.nih.gov/nuccore/KF007150" target="_blank">KF007150</a>
. . . . . . . . 34 Polymorphisms (11 Amino and 23 Silent)
. . . . . . . . 16I [16I],
. . . . . . . . 19A [19A],
. . . . . . . . 40G [40G],
. . . . . . . . 53T [53T],
. . . . . . . . 81T [80T],
. . . . . . . . 84N [83N],
. . . . . . . . 112S [111S],
. . . . . . . . 271A [270A],
. . . . . . . . 335I [332I],
. . . . . . . . 359A [355A],
. . . . . . . . 401A [397A])

. . . . Suzhou5_2013_04_12 (
. . . . . . . . GenBank NA <a href="http://www.ncbi.nlm.nih.gov/nuccore/KF007142" target="_blank">KF007142</a>
. . . . . . . . 32 Polymorphisms (10 Amino and 22 Silent)
. . . . . . . . 16I [16I],
. . . . . . . . 19A [19A],
. . . . . . . . 40G [40G],
. . . . . . . . 53T [53T],
. . . . . . . . 81T [80T],
. . . . . . . . 84N [83N],
. . . . . . . . 112S [111S],
. . . . . . . . 335I [332I],
. . . . . . . . 359A [355A],
. . . . . . . . 401A [397A])

. . . . Nanjing6_2013_04_11 (
. . . . . . . . GenBank NA <a href="http://www.ncbi.nlm.nih.gov/nuccore/KF007118" target="_blank">KF007118</a>
. . . . . . . . 33 Polymorphisms (11 Amino and 22 Silent)
. . . . . . . . 16T [16T] [H9N2],
. . . . . . . . 19A [19A],
. . . . . . . . 26T [26T] [H6N1],
. . . . . . . . 40G [40G],
. . . . . . . . 53T [53T],
. . . . . . . . 81T [80T],
. . . . . . . . 84N [83N],
. . . . . . . . 112S [111S],
. . . . . . . . 335I [332I],
. . . . . . . . 359A [355A],
. . . . . . . . 401A [397A])

. . . . Suzhou3_2013_04_09 (
. . . . . . . . GenBank NA <a href="http://www.ncbi.nlm.nih.gov/nuccore/KF007110" target="_blank">KF007110</a>
. . . . . . . . 32 Polymorphisms (10 Amino and 22 Silent)
. . . . . . . . 16I [16I],
. . . . . . . . 19A [19A],
. . . . . . . . 40G [40G],
. . . . . . . . 53T [53T],
. . . . . . . . 81T [80T],
. . . . . . . . 84N [83N],
. . . . . . . . 112S [111S],
. . . . . . . . 335I [332I],
. . . . . . . . 359A [355A],
. . . . . . . . 401A [397A])

. . . . envSuzhou8_2013_04_08 (
. . . . . . . . GenBank NA <a href="http://www.ncbi.nlm.nih.gov/nuccore/KF007006" target="_blank">KF007006</a>
. . . . . . . . 34 Polymorphisms (11 Amino and 23 Silent)
. . . . . . . . 15T [15T],
. . . . . . . . 16T [16T] [H9N2],
. . . . . . . . 19A [19A],
. . . . . . . . 40G [40G],
. . . . . . . . 53T [53T],
. . . . . . . . 81T [80T],
. . . . . . . . 84N [83N],
. . . . . . . . 112S [111S],
. . . . . . . . 335I [332I],
. . . . . . . . 359A [355A],
. . . . . . . . 401A [397A])

. . . . Wuxi4_2013_04_07 (
. . . . . . . . GenBank NA <a href="http://www.ncbi.nlm.nih.gov/nuccore/KF007078" target="_blank">KF007078</a>
. . . . . . . . 32 Polymorphisms (10 Amino and 22 Silent)
. . . . . . . . 16I [16I],
. . . . . . . . 19A [19A],
. . . . . . . . 40G [40G],
. . . . . . . . 53T [53T],
. . . . . . . . 81T [80T],
. . . . . . . . 84N [83N],
. . . . . . . . 112S [111S],
. . . . . . . . 335I [332I],
. . . . . . . . 359A [355A],
. . . . . . . . 401A [397A])

. . . . Wuxi3_2013_04_07 (
. . . . . . . . GenBank NA <a href="http://www.ncbi.nlm.nih.gov/nuccore/KF007070" target="_blank">KF007070</a>
. . . . . . . . 32 Polymorphisms (10 Amino and 22 Silent)
. . . . . . . . 16I [16I],
. . . . . . . . 19A [19A],
. . . . . . . . 40G [40G],
. . . . . . . . 53T [53T],
. . . . . . . . 81T [80T],
. . . . . . . . 84N [83N],
. . . . . . . . 112S [111S],
. . . . . . . . 335I [332I],
. . . . . . . . 359A [355A],
. . . . . . . . 401A [397A])

. . . . Zhenjiang1_2013_04_07 (
. . . . . . . . GenBank NA <a href="http://www.ncbi.nlm.nih.gov/nuccore/KF007062" target="_blank">KF007062</a>
. . . . . . . . 32 Polymorphisms (11 Amino and 21 Silent)
. . . . . . . . 16I [16I],
. . . . . . . . 19A [19A],
. . . . . . . . 53T [53T],
. . . . . . . . 81T [80T],
. . . . . . . . 84N [83N],
. . . . . . . . 112S [111S],
. . . . . . . . 305V [304V] [pH1N1 Upsilon],
. . . . . . . . 335I [332I],
. . . . . . . . 345I [341I],
. . . . . . . . 359A [355A],
. . . . . . . . 401A [397A],

. . . . Nanjing4_2013_04_07 (
. . . . . . . . GenBank NA <a href="http://www.ncbi.nlm.nih.gov/nuccore/KF007054" target="_blank">KF007054</a>
. . . . . . . . 33 Polymorphisms (11 Amino and 22 Silent)
. . . . . . . . 16I [16I],
. . . . . . . . 18S [18S],
. . . . . . . . 19A [19A],
. . . . . . . . 40G [40G],
. . . . . . . . 53T [53T],
. . . . . . . . 81T [80T],
. . . . . . . . 84N [83N],
. . . . . . . . 112S [111S],
. . . . . . . . 335I [332I],
. . . . . . . . 359A [355A],
. . . . . . . . 401A [397A])

. . . . envZhenjiang4_2013_04_07 (
. . . . . . . . GenBank NA <a href="http://www.ncbi.nlm.nih.gov/nuccore/KF007014" target="_blank">KF007014</a>
. . . . . . . . 34 Polymorphisms (11 Amino and 23 Silent)
. . . . . . . . 16I [16I],
. . . . . . . . 18S [18S],
. . . . . . . . 19A [19A],
. . . . . . . . 40G [40G],
. . . . . . . . 53T [53T],
. . . . . . . . 81T [80T],
. . . . . . . . 84N [83N],
. . . . . . . . 112S [111S],
. . . . . . . . 335I [332I],
. . . . . . . . 359A [355A],
. . . . . . . . 401A [397A])

. . . . Nanjing2_2013_04_05 (
. . . . . . . . GenBank NA <a href="http://www.ncbi.nlm.nih.gov/nuccore/KF007046" target="_blank">KF007046</a>
. . . . . . . . 32 Polymorphisms (11 Amino and 21 Silent)
. . . . . . . . 16I [16I],
. . . . . . . . 19A [19A],
. . . . . . . . 53T [53T],
. . . . . . . . 81T [80T],
. . . . . . . . 84N [83N],
. . . . . . . . 112S [111S],
. . . . . . . . 305V [304V] [pH1N1 Upsilon],
. . . . . . . . 335I [332I],
. . . . . . . . 345I [341I],
. . . . . . . . 359A [355A],
. . . . . . . . 401A [397A])

<div align="center">
Please visit <a href="http://genewurx.com/" target="_blank">GeneWurx.com</a> for insight into the latest published studies.
</div>
<div style="text-align: center;">
eH7N9 Influenza Hemagglutinin & Neuraminidase Segments elucidated at 2014-01-04-01_17_23_305990 by GeneWurx see.PolyDetector v0, Copyright 2007-2014. 


Publication Copyright 2007-2014 GeneWurx.com, All Rights Reserved.</div>
Leave a comment:
NS1 replied

December 9, 2013, 05:46 AM
Re: China - H7N9 Human Isolates on Deposit at GISAID

GeneWurx Comparative of the 4 Most Recently Deposited Human eH7N9 Sequences:

Fall 2013 H7N9 Human Genetic Diversity
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NS1 replied

December 8, 2013, 08:11 AM
Re: China - H7N9 Human Isolates on Deposit at GISAID

Shaoxing, Zhejiang Fall 2013 Human H7N9 Displays Varied Genetics from Two Laboratories
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NS1 replied

December 7, 2013, 07:07 PM
Re: China - H7N9 Human Isolates on Deposit at GISAID

Originally posted by NS1 View Post

GeneWurx rNr Analytics have been updated to delineate differences between the Antigens (HA & NA) and the Polymerase Complexes for these two recent human Emergent H7N9 sequences.

The two alternate ReAssortments are detailed and contrasted at Emergent H7N9 Genetics.

First Guangdong Human Case Acquires Antigenic H3N2 HA 128A
A/Guangdong/1/2013

HA_: Emergent H7N9 Novel

NA_: Emergent H7N9 Standard

PB2: H9N2

PB1: H9N2

PA_: Emergent H7N9 Novel

First Hong Kong Human Case, 36F, Repeats H3N2 Antigenic HA 128A
A/Hong Kong/5942/2013

HA_: Emergent H7N9, Similar, but NOT Matched, to Guangdong

NA_: Emergent H7N9 Novel

PB2: H9N2 ReAssort, Similar, but NOT Matched, to Guangdong

PB1: H9N2 ReAssort, NOT Similar to Guangdong

PA_: H9N2 ReAssort

Originally posted by sharon sanders View Post

In plain English, for non-scientific people, can you explain the ramifications of your recent posts please? Thanks!

Emergent H7N9 Promiscuity
Leads to
Genetic Instability

Among the most recent human cases, at least three distinct strains of Emergent H7N9 have been detected in humans from the late Summer and throughout the Fall of 2013 (the second phase of Emergence).

HyperAssortment appears to be the norm with an emphasis at the segments of the Polymerase Complex. Beyond the increased ReAssortment activity, Single Nucleotide Polymorphisms (SNPs) are entering the H7N9 reservoir that have also occurred during Host-Switching (zoonosis / animals to people) in currently circulating human influenza such as Pandemic H1N1 2009 and Seasonal H3N2. The aggressive nature of this HyperMorphic behaviour suggests a viral reservoir that allocates resources to Host-Seeking mode.

On the segments that are considered Antigenic (included in Vaccine Designs), those SNP revisions, "Tried-and-True" in circulating human serotypes, continue to create Emergent H7N9 novelty. That Emergent H7N9 novelty, in turn, differentiates the currently transmitting disease from the genetics of the February / March 2013 early strains and the vaccine target.

During the emergence of Pandemic H1N1, that viral reservoir exhibited a similar series of distinguishment stages, at times with up to 7 distinct transmitting backgrounds and fatality on multiple contemporaneous backgrounds. While H7N9 is NOT in a pandemic phase, the reservoir does presently exhibit the characteristics of bi-directional promiscuity and genetic signals of active Host-Seeking behaviour.

The Open Access, Full Text studies at Emergent H7N9 Genetics and pH1N1 Genetics describe notable scenarios that underlie this synopsis of Emergent H7N9 promiscuity leading to genetic instability.
Leave a comment:
sharon sanders replied

December 7, 2013, 01:59 PM
Re: China - H7N9 Human Isolates on Deposit at GISAID

In plain English, for non-scientific people, can you explain the ramifications of your recent posts please? Thanks!
Leave a comment:
NS1 replied

December 7, 2013, 05:30 AM
Re: China - H7N9 Human Isolates on Deposit at GISAID

Human H7N9 Antigen & Polymerase Constellations, Guangdong v. Hong Kong
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NS1 replied

December 6, 2013, 10:12 PM
Re: China - H7N9 Human Isolates on Deposit at GISAID

GeneWurx rNr Analytics have been updated to delineate differences between the Antigens (HA & NA) and the Polymerase Complexes for these two recent human Emergent H7N9 sequences.

The two alternate ReAssortments are detailed and contrasted at Emergent H7N9 Genetics.

First Guangdong Human Case Acquires Antigenic H3N2 HA 128A
A/Guangdong/1/2013

HA_: Emergent H7N9 Novel

NA_: Emergent H7N9 Standard

PB2: H9N2

PB1: H9N2

PA_: Emergent H7N9 Novel

First Hong Kong Human Case, 36F, Repeats H3N2 Antigenic HA 128A
A/Hong Kong/5942/2013

HA_: Emergent H7N9, Similar, but NOT Matched, to Guangdong

NA_: Emergent H7N9 Novel

PB2: H9N2 ReAssort, Similar, but NOT Matched, to Guangdong

PB1: H9N2 ReAssort, NOT Similar to Guangdong

PA_: H9N2 ReAssort
Leave a comment:
NS1 replied

December 6, 2013, 05:23 AM
Re: China - H7N9 Human Isolates on Deposit at GISAID

Emergent H7N9 Vaccine Candidate Manifests Rare Pandemic H1N1 HA 131T
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NS1 replied

December 5, 2013, 09:23 PM
Re: China - H7N9 Human Isolates on Deposit at GISAID

First Hong Kong Human Case, 36F, Repeats H3N2 Antigenic HA 128A
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NS1 replied

December 5, 2013, 09:22 PM
Re: China - H7N9 Human Isolates on Deposit at GISAID

First Guangdong Human Case Acquires Antigenic H3N2 HA 128A
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NS1 replied

July 15, 2013, 12:49 PM
Re: China - H7N9 Human Isolates on Deposit at GISAID

Discussion on the Notable Absence of Mention: Ongoing 2013 H7N3 Outbreak throughout Mexico

Morens DM, Taubenberger JK, Fauci AS. 2013. H7N9 Avian Influenza A Virus and the Perpetual Challenge of Potential Human Pandemicity. mBio 4(4):e00445-13. doi:10.1128/mBio.00445-13.
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NS1 replied

July 15, 2013, 11:23 AM
Re: China - H7N9 Human Isolates on Deposit at GISAID

Discussion of Alternate Surveillance Methods to protect the public from Pandemic Disease when UnTrustworthy Primary Sources Force Indirect Measurements.
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