The UK Health Protection Agency released a group of 37 sequences at GISAID dated 2010-01-05 that appeared sometime after that date. Some of the sequences in this deposit also appear on the Figure 3 Phylogenetic Tree from the HPA Eurosurveilance paper requested to be cited as:
Ellis J, Galiano M, Pebody R, Lackenby A, Thompson C, Bermingham A, McLean E, Zhao H, Bolotin S, Dar O, Watson JM, Zambon M. Virological analysis of fatal influenza cases in the United Kingdom during the early wave of influenza in winter 2010/11. Euro Surveill. 2011;16(1):pii=19760.
Available online:
http://www.eurosurveillance.org/ViewArt ... leId=19760Date of submission: 31 December 2010
The science community expected a full deposit to back the paper, but not all sequences noted on the phylogenetic table were in place at GISAIS as of this 2nd deposit.
The recent GISAID deposit added 4 of the fatalities noted on the phylogenetic tree to the 4 fatalities previously released on 2010-12-20. The previously released sequences were not marked at GISAID with a fatality notation, but now have been notated as "Deceased" as of yesterday. Oddly enough, on the 2010-01-05 deposit, none of the sequences notated as fatal on the phylogenetic tree were marked as to outcome at GISAID?
None of the sequences at the GISAID database that correspond to notated fatalities on the Eurosurveillance paper carry the severity marker of HA 225G.
225G is found on identical HA sequences noted as 2 severe cases.
UKEngland4880378_2010_12
UKEngland4940476_2010_12
The two sequences fall on a 100N, 188T, syn338G, 377K with 454N background. Appended to that background is a silent 179L previously found in US military sequences and as a regional marker in an alternate coding. A silent 448L completes the 225G sequences and is demonstrated in at least on fatal case, including in Russia.
. . . . UKEngland4940476_2010_12 (
. . . . . . . . 100N,
. . . . . . . . syn179L (CTg) [Regional Marker 2009 (tTA)]
. . . . . . . . . . . . . . . . . . . . [TexasAF2588_2009_10_04,
. . . . . . . . . . . . . . . . . . . . TexasJMS404_2010_01_08],
. . . . . . . . 188T,
. . . . . . . . 225G,
. . . . . . . . syn338G,
. . . . . . . . 377K,
. . . . . . . . syn448L [Yakutsk_EAV_2009_11_18,
. . . . . . . . . . . . . . . Yaroslavl_CHMV_2009_11_10_f with 224K & 225G mix],
. . . . . . . . 454N)
. . . . UKEngland4880378_2010_12 (
. . . . . . . . 100N,
. . . . . . . . syn179L,
. . . . . . . . 188T,
. . . . . . . . 225G,
. . . . . . . . syn338G,
. . . . . . . . 377K,
. . . . . . . . syn448L,
. . . . . . . . 454N)
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Host-Pathogen Immune Dynamics of Zoonotic Influenza Reservoirs