2014-01-30

pH1N1 HA 225N Severe in Female: Spain Winter s2013

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 : 2014-01-30
Last Update : 2014-03-25

HA 225N Severe in Female: Spain Winter s2013
Geographic Distribution
28 Cases over 28 Sequences

On 2014-01-29, the Instituto de Salud Carlos III of Spain rapidly released 28 pH1N1 HA fragments at GISAID with a submission date of 2014-01-29 on 28 contemporary human cases sampled across December 2013 to January 2014.

We applaud the men and women of this Institute for their devotion to science, for their detailed clinical annotations and their complete age and gender features. Hospitalisation is evident in 22 of the cases and in 7 of the 8 pediatric patients.

HA 225N, an immune deranging polymorphism found on the High-CFR Upsilon subclade, is seen in a 27 year old female in late December [EPI501453].  Two sequences from Madrid in January 2014 demonstrate HA 31N, a polymorphism found only once in the pH1N1 reservoir (2009 Asia), but found as the wild type on Emergent H7N9 and wild type on the most recently circulating Seasonal H3N2.

CrossSeroType Analytic
H7N9 Correlation HA
NameID
 SpainMadrid45_62M_2014_01_05_s EPI501451 
 SpainMadrid83_62M_2014_01_09_s EPI501458 

HA Polymorphisms

. . . . SpainMadrid120_33M_2014_01_14_s (
. . . . . . . . A/Madrid/120/2014
. . . . . . . . Hospitalised & Recovered
. . . . . . . . GISAID HA EPI501447
. . . . . . . . GISAID Isolate EPI_ISL_154263
. . . . . . . . 16 Polymorphisms (6 Amino and 10 Silent)
. . . . . . . . HA Truncated before aa#5,
. . . . . . . . syn#4Y (TAc),
. . . . . . . . 2T [H7N7]
. . . . . . . . . . [zH3N2],
. . . . . . . . syn77S (AGt),
. . . . . . . . 100N,
. . . . . . . . syn116R (AGa),
. . . . . . . . syn141H (CAc),
. . . . . . . . 166Q,
. . . . . . . . syn179L (CTg),
. . . . . . . . 188T,
. . . . . . . . 259T,
. . . . . . . . 286E,
. . . . . . . . syn308K (AAg),
. . . . . . . . syn310V (GTg),
. . . . . . . . syn325P (CCa),
. . . . . . . . syn333F (TTc),
. . . . . . . . syn338G (GGc),
. . . . . . . . HA Truncated after aa346)

. . . . SpainMadrid127_38F_2014_01_13_s (
. . . . . . . . A/Madrid/127/2014
. . . . . . . . Hospitalised & Recovered
. . . . . . . . GISAID HA EPI501450
. . . . . . . . GISAID Isolate EPI_ISL_154266
. . . . . . . . 13 Polymorphisms (6 Amino and 7 Silent)
. . . . . . . . HA Truncated before aa#9,
. . . . . . . . syn77S (AGt),
. . . . . . . . 100N,
. . . . . . . . 129Y [H5N1],
. . . . . . . . syn141H (CAc),
. . . . . . . . 166Q,
. . . . . . . . syn179L (CTg),
. . . . . . . . syn184H (CAc),
. . . . . . . . 188T,
. . . . . . . . 259T,
. . . . . . . . 286E,
. . . . . . . . syn308K (AAg),
. . . . . . . . syn333F (TTc),
. . . . . . . . syn338G (GGc),
. . . . . . . . HA Truncated after aa346)

. . . . SpainMadrid126_58F_2014_01_13_s (
. . . . . . . . A/Madrid/126/2014
. . . . . . . . Hospitalised & Recovered
. . . . . . . . GISAID HA EPI501448
. . . . . . . . GISAID Isolate EPI_ISL_154264
. . . . . . . . 14 Polymorphisms (5 Amino and 9 Silent)
. . . . . . . . HA Truncated before aa6,
. . . . . . . . syn50V (GTg),
. . . . . . . . syn77S (AGt),
. . . . . . . . 100N,
. . . . . . . . syn141H (CAc),
. . . . . . . . 166Q,
. . . . . . . . syn179L (CTg),
. . . . . . . . 188T,
. . . . . . . . 259T,
. . . . . . . . syn279N (AAc),
. . . . . . . . 286E,
. . . . . . . . syn306C (TGc),
. . . . . . . . syn308K (AAg),
. . . . . . . . syn333F (TTc),
. . . . . . . . syn338G (GGc),
. . . . . . . . HA Truncated after aa346)

. . . . SpainCastillaLaMancha119_29M_2014_01_13 (
. . . . . . . . A/CastillaLaMancha/119/2014
. . . . . . . . GISAID HA EPI501446
. . . . . . . . GISAID Isolate EPI_ISL_154262
. . . . . . . . 13 Polymorphisms (5 Amino and 8 Silent)
. . . . . . . . HA Truncated before aa#6,
. . . . . . . . syn77S (AGt),
. . . . . . . . 100N,
. . . . . . . . syn141H (CAc),
. . . . . . . . 166Q,
. . . . . . . . syn179L (CTg),
. . . . . . . . syn184H (CAc),
. . . . . . . . 188T,
. . . . . . . . syn232Y (TAc),
. . . . . . . . 259T,
. . . . . . . . 286E,
. . . . . . . . syn308K (AAg),
. . . . . . . . syn333F (TTc),
. . . . . . . . syn338G (GGc),
. . . . . . . . HA Truncated after aa346)

. . . . SpainMadrid113_55M_2014_01_13_s (
. . . . . . . . A/Madrid/113/2014
. . . . . . . . Hospitalised & Recovered
. . . . . . . . GISAID HA EPI501443
. . . . . . . . GISAID Isolate EPI_ISL_154259
. . . . . . . . 14 Polymorphisms (5 Amino and 9 Silent)
. . . . . . . . HA Truncated before aa8,
. . . . . . . . syn77S (AGt),
. . . . . . . . 100N,
. . . . . . . . syn116R (AGa),
. . . . . . . . syn141H (CAc),
. . . . . . . . 166Q,
. . . . . . . . syn179L (CTg),
. . . . . . . . 188T,
. . . . . . . . 259T,
. . . . . . . . 286E,
. . . . . . . . syn295F (TTc),
. . . . . . . . syn308K (AAg),
. . . . . . . . syn325P (CCa),
. . . . . . . . syn333F (TTc),
. . . . . . . . syn338G (GGc),
. . . . . . . . HA Truncated after aa346)

. . . . SpainMadrid107_43M_2014_01_13_s (
. . . . . . . . A/Madrid/107/2014
. . . . . . . . Hospitalised & Recovered
. . . . . . . . GISAID HA EPI501442
. . . . . . . . GISAID Isolate EPI_ISL_154258
. . . . . . . . 17 Polymorphisms (6 Amino and 11 Silent)
. . . . . . . . HA Truncated before aa#3,
. . . . . . . . syn5T (ACt),
. . . . . . . . syn42G (GGt),
. . . . . . . . syn77S (AGt),
. . . . . . . . syn83V (GTt),
. . . . . . . . 100N,
. . . . . . . . syn141H (CAc),
. . . . . . . . syn165S (AGt),
. . . . . . . . 166Q,
. . . . . . . . syn179L (CTg),
. . . . . . . . 188T,
. . . . . . . . 259T,
. . . . . . . . 286E,
. . . . . . . . syn308K (AAg),
. . . . . . . . syn318A (GCa),
. . . . . . . . 324I,
. . . . . . . . syn333F (TTc),
. . . . . . . . syn338G (GGc),
. . . . . . . . HA Truncated after aa346)

. . . . SpainAragon272_M_78M_2014_01_11_s (
. . . . . . . . A/Aragon/272/2014
. . . . . . . . Hospitalised
. . . . . . . . GISAID HA EPI501459
. . . . . . . . GISAID Isolate EPI_ISL_154275
. . . . . . . . 15 Polymorphisms (6 Amino and 9 Silent)
. . . . . . . . HA Truncated before aa6,
. . . . . . . . syn42G (GGt),
. . . . . . . . syn77S (AGt),
. . . . . . . . 100N,
. . . . . . . . syn141H (CAc),
. . . . . . . . syn165S (AGt),
. . . . . . . . 166Q,
. . . . . . . . syn179L (CTg),
. . . . . . . . 188T,
. . . . . . . . 259T,
. . . . . . . . 286E,
. . . . . . . . syn308K (AAg),
. . . . . . . . syn318A (GCa),
. . . . . . . . 324I,
. . . . . . . . syn333F (TTc),
. . . . . . . . syn338G (GGc),
. . . . . . . . HA Truncated after aa346)

. . . . SpainAragon269_M_35F_2014_01_10_s (
. . . . . . . . A/Aragon/269/2014
. . . . . . . . Hospitalised
. . . . . . . . GISAID HA EPI501462
. . . . . . . . GISAID Isolate EPI_ISL_154278
. . . . . . . . 15 Polymorphisms (5 Amino and 10 Silent)
. . . . . . . . HA Truncated before aa#4,
. . . . . . . . syn#4Y (TAc),
. . . . . . . . syn77S (AGt),
. . . . . . . . 100N,
. . . . . . . . syn116R (AGa),
. . . . . . . . syn141H (CAc),
. . . . . . . . 166Q,
. . . . . . . . syn179L (CTg),
. . . . . . . . 188T,
. . . . . . . . 259T,
. . . . . . . . 286E,
. . . . . . . . syn308K (AAg),
. . . . . . . . syn318A (GCa),
. . . . . . . . syn325P (CCa),
. . . . . . . . syn333F (TTc),
. . . . . . . . syn338G (GGc),
. . . . . . . . HA Truncated after aa346)

. . . . SpainMadrid74_4F_2014_01_10_s (
. . . . . . . . A/Madrid/74/2014
. . . . . . . . Hospitalised
. . . . . . . . Child Female 4 Years
. . . . . . . . GISAID HA EPI501457
. . . . . . . . GISAID Isolate EPI_ISL_154273
. . . . . . . . 16 Polymorphisms (6 Amino and 10 Silent)
. . . . . . . . HA Truncated before aa0,
. . . . . . . . syn5T (ACt),
. . . . . . . . syn42G (GGt),
. . . . . . . . syn77S (AGt),
. . . . . . . . 100N,
. . . . . . . . syn141H (CAc),
. . . . . . . . syn165S (AGt),
. . . . . . . . 166Q,
. . . . . . . . syn179L (CTg),
. . . . . . . . 188T,
. . . . . . . . 259T,
. . . . . . . . 286E,
. . . . . . . . syn308K (AAg),
. . . . . . . . syn318A (GCa),
. . . . . . . . 324I,
. . . . . . . . syn333F (TTc),
. . . . . . . . syn338G (GGc),
. . . . . . . . HA Truncated after aa346)

. . . . SpainCastillaLaMancha146_1F_2014_01_09_s (
. . . . . . . . A/CastillaLaMancha/146/2014
. . . . . . . . Hospitalised
. . . . . . . . Infant Female 1 Year
. . . . . . . . GISAID HA EPI501461
. . . . . . . . GISAID Isolate EPI_ISL_154277
. . . . . . . . 16 Polymorphisms (6 Amino and 10 Silent)
. . . . . . . . HA Truncated before aa#2,
. . . . . . . . syn5T (ACt),
. . . . . . . . syn42G (GGt),
. . . . . . . . syn77S (AGt),
. . . . . . . . 100N,
. . . . . . . . syn141H (CAc),
. . . . . . . . syn165S (AGt),
. . . . . . . . 166Q,
. . . . . . . . syn179L (CTg),
. . . . . . . . 188T,
. . . . . . . . 259T,
. . . . . . . . 286E,
. . . . . . . . syn308K (AAg),
. . . . . . . . syn318A (GCa),
. . . . . . . . 324I,
. . . . . . . . syn333F (TTc),
. . . . . . . . syn338G (GGc),
. . . . . . . . HA Truncated after aa346)

. . . . SpainMadrid83_62M_2014_01_09_s (
. . . . . . . . A/Madrid/83/2014
. . . . . . . . H7N9 Correlation HA 31N
. . . . . . . . Hospitalised
. . . . . . . . GISAID HA EPI501458
. . . . . . . . GISAID Isolate EPI_ISL_154274
. . . . . . . . 14 Polymorphisms (6 Amino and 8 Silent)
. . . . . . . . HA Truncated before aa#1,
. . . . . . . . 31N [Emergent H7N9 wild type],
. . . . . . . . . . . [pH1N1 Singular: Japan 2009],
. . . . . . . . . . . [Seasonal H3N2 wild type],
. . . . . . . . syn77S (AGt),
. . . . . . . . 100N,
. . . . . . . . syn116R (AGa),
. . . . . . . . syn141H (CAc),
. . . . . . . . 166Q,
. . . . . . . . syn179L (CTg),
. . . . . . . . 188T,
. . . . . . . . 259T,
. . . . . . . . 286E,
. . . . . . . . syn308K (AAg),
. . . . . . . . syn325P (CCa),
. . . . . . . . syn333F (TTc),
. . . . . . . . syn338G (GGc),
. . . . . . . . HA Truncated after aa346)

. . . . SpainMadrid69_38F_2014_01_09_s (
. . . . . . . . A/Madrid/69/2014
. . . . . . . . Hospitalised & Recovered
. . . . . . . . GISAID HA EPI501456
. . . . . . . . GISAID Isolate EPI_ISL_154272
. . . . . . . . 17 Polymorphisms (6 Amino and 11 Silent)
. . . . . . . . HA Truncated before aa#6,
. . . . . . . . syn#1A (GCg),
. . . . . . . . syn5T (ACt),
. . . . . . . . syn42G (GGt),
. . . . . . . . syn77S (AGt),
. . . . . . . . 100N,
. . . . . . . . syn141H (CAc),
. . . . . . . . syn165S (AGt),
. . . . . . . . 166Q,
. . . . . . . . syn179L (CTg),
. . . . . . . . 188T,
. . . . . . . . 259T,
. . . . . . . . 286E,
. . . . . . . . syn308K (AAg),
. . . . . . . . syn318A (GCa),
. . . . . . . . 324I,
. . . . . . . . syn333F (TTc),
. . . . . . . . syn338G (GGc),
. . . . . . . . HA Truncated after aa346)

. . . . SpainAragon268_M_67M_2014_01_09_s (
. . . . . . . . A/Aragon/268/2014
. . . . . . . . Hospitalised
. . . . . . . . GISAID HA EPI501449
. . . . . . . . GISAID Isolate EPI_ISL_154265
. . . . . . . . 10 Polymorphisms (4 Amino and 6 Silent)
. . . . . . . . HA Truncated before aa#5,
. . . . . . . . syn77S (AGt),
. . . . . . . . 100N,
. . . . . . . . syn141H (CAc),
. . . . . . . . 166Q,
. . . . . . . . syn179L (CTg),
. . . . . . . . syn184H (CAc),
. . . . . . . . 188T,
. . . . . . . . syn232Y (TAc),
. . . . . . . . 259T,
. . . . . . . . syn262R (AGg),
. . . . . . . . HA Truncated after aa275)

. . . . SpainCastillaLaMancha106_49F_2014_01_09 (
. . . . . . . . A/CastillaLaMancha/106/2014
. . . . . . . . GISAID HA EPI501445
. . . . . . . . GISAID Isolate EPI_ISL_154261
. . . . . . . . 14 Polymorphisms (6 Amino and 8 Silent)
. . . . . . . . HA Truncated before aa#9,
. . . . . . . . syn77S (AGt),
. . . . . . . . 100N,
. . . . . . . . 132D [H6N1],
. . . . . . . . syn141H (CAc),
. . . . . . . . 166Q,
. . . . . . . . syn179L (CTg),
. . . . . . . . syn184H (CAc),
. . . . . . . . 188T,
. . . . . . . . 259T,
. . . . . . . . 286E,
. . . . . . . . syn308K (AAg),
. . . . . . . . syn333F (TTc),
. . . . . . . . syn338G (GGc),
. . . . . . . . syn342G (GGa),
. . . . . . . . HA Truncated after aa346)

. . . . SpainCastillaLaMancha104_14F_2014_01_09 (
. . . . . . . . A/CastillaLaMancha/104/2014
. . . . . . . . Hospitalised
. . . . . . . . Child Female 14 Years
. . . . . . . . GISAID HA EPI501444
. . . . . . . . GISAID Isolate EPI_ISL_154260
. . . . . . . . 17 Polymorphisms (6 Amino and 11 Silent)
. . . . . . . . HA Truncated before aa#9,
. . . . . . . . syn5T (ACt),
. . . . . . . . syn42G (GGt),
. . . . . . . . syn77S (AGt),
. . . . . . . . 100N,
. . . . . . . . syn122K (AAa),
. . . . . . . . syn141H (CAc),
. . . . . . . . syn165S (AGt),
. . . . . . . . 166Q,
. . . . . . . . syn179L (CTg),
. . . . . . . . 188T,
. . . . . . . . 259T,
. . . . . . . . 286E,
. . . . . . . . syn308K (AAg),
. . . . . . . . syn318A (GCa),
. . . . . . . . 324I,
. . . . . . . . syn333F (TTc),
. . . . . . . . syn338G (GGc),
. . . . . . . . HA Truncated after aa346)

. . . . SpainMadrid60_62F_2014_01_08_s (
. . . . . . . . A/Madrid/60/2014
. . . . . . . . Hospitalised & Recovered
. . . . . . . . GISAID HA EPI501455
. . . . . . . . GISAID Isolate EPI_ISL_154271
. . . . . . . . 16 Polymorphisms (6 Amino and 10 Silent)
. . . . . . . . HA Truncated before aa#8,
. . . . . . . . syn5T (ACt),
. . . . . . . . syn42G (GGt),
. . . . . . . . syn77S (AGt),
. . . . . . . . 100N,
. . . . . . . . syn141H (CAc),
. . . . . . . . syn165S (AGt),
. . . . . . . . 166Q,
. . . . . . . . syn179L (CTg),
. . . . . . . . 188T,
. . . . . . . . 259T,
. . . . . . . . 286E,
. . . . . . . . syn308K (AAg),
. . . . . . . . syn318A (GCa),
. . . . . . . . 324I,
. . . . . . . . syn333F (TTc),
. . . . . . . . syn338G (GGc),
. . . . . . . . HA Truncated after aa346)

. . . . SpainMadrid45_62M_2014_01_05_s (
. . . . . . . . A/Madrid/45/2014
. . . . . . . . H7N9 Correlation HA 31N
. . . . . . . . Hospitalised
. . . . . . . . GISAID HA EPI501451
. . . . . . . . GISAID Isolate EPI_ISL_154267
. . . . . . . . 14 Polymorphisms (6 Amino and 8 Silent)
. . . . . . . . HA Truncated before aa3,
. . . . . . . . 31N [Emergent H7N9 wild type],
. . . . . . . . . . . [pH1N1 Singular: Japan 2009],
. . . . . . . . . . . [Seasonal H3N2 wild type],
. . . . . . . . syn77S (AGt),
. . . . . . . . 100N,
. . . . . . . . syn116R (AGa),
. . . . . . . . syn141H (CAc),
. . . . . . . . 166Q,
. . . . . . . . syn179L (CTg),
. . . . . . . . 188T,
. . . . . . . . 259T,
. . . . . . . . 286E,
. . . . . . . . syn308K (AAg),
. . . . . . . . syn325P (CCa),
. . . . . . . . syn333F (TTc),
. . . . . . . . syn338G (GGc),
. . . . . . . . HA Truncated after aa346)

. . . . SpainMadridSO11443_1F_2014_01_04_s (
. . . . . . . . A/Madrid/SO11443/2014
. . . . . . . . Hospitalised
. . . . . . . . Infant Female 1 Year
. . . . . . . . GISAID HA EPI501465
. . . . . . . . GISAID Isolate EPI_ISL_154281
. . . . . . . . 16 Polymorphisms (6 Amino and 10 Silent)
. . . . . . . . HA Truncated before aa#3,
. . . . . . . . syn5T (ACt),
. . . . . . . . syn42G (GGt),
. . . . . . . . syn77S (AGt),
. . . . . . . . 100N,
. . . . . . . . syn141H (CAc),
. . . . . . . . syn165S (AGt),
. . . . . . . . 166Q,
. . . . . . . . syn179L (CTg),
. . . . . . . . 188T,
. . . . . . . . 259T,
. . . . . . . . 286E,
. . . . . . . . syn308K (AAg),
. . . . . . . . syn318A (GCa),
. . . . . . . . 324I,
. . . . . . . . syn333F (TTc),
. . . . . . . . syn338G (GGc),
. . . . . . . . HA Truncated after aa346)

. . . . SpainCastillaLaMancha57_60M_2014_01_03_s (
. . . . . . . . A/CastillaLaMancha/57/2014
. . . . . . . . Hospitalised
. . . . . . . . Novel Hemagglutinin
. . . . . . . . GISAID HA EPI501454
. . . . . . . . GISAID Isolate EPI_ISL_154270
. . . . . . . . 17 Polymorphisms (7 Amino and 10 Silent)
. . . . . . . . HA Truncated before aa#3,
. . . . . . . . syn5T (ACt),
. . . . . . . . syn42G (GGt),
. . . . . . . . 71K [pH1N1 Rare: 2 Cases over 2 Sequences,
. . . . . . . . . . . . . . . . . Singapore 2011-January,
. . . . . . . . . . . . . . . . . Cyprus 2009-June],
. . . . . . . . syn77S (AGt),
. . . . . . . . 100N,
. . . . . . . . syn141H (CAc),
. . . . . . . . syn165S (AGt),
. . . . . . . . 166Q,
. . . . . . . . syn179L (CTg),
. . . . . . . . 188T,
. . . . . . . . 259T,
. . . . . . . . 286E,
. . . . . . . . syn308K (AAg),
. . . . . . . . syn318A (GCa),
. . . . . . . . 324I,
. . . . . . . . syn333F (TTc),
. . . . . . . . syn338G (GGc),
. . . . . . . . HA Truncated after aa346)

. . . . SpainPaisVasco86_M_51F_2014_01_03 (
. . . . . . . . A/PaisVasco/86/2014
. . . . . . . . GISAID HA EPI501441
. . . . . . . . GISAID Isolate EPI_ISL_154257
. . . . . . . . 14 Polymorphisms (5 Amino and 9 Silent)
. . . . . . . . HA Truncated before aa#3,
. . . . . . . . syn77S (AGt),
. . . . . . . . 100N,
. . . . . . . . syn116R (AGa),
. . . . . . . . syn141H (CAc),
. . . . . . . . 166Q,
. . . . . . . . syn178V (GTa),
. . . . . . . . syn179L (CTg),
. . . . . . . . 188T,
. . . . . . . . 259T,
. . . . . . . . 286E,
. . . . . . . . syn308K (AAg),
. . . . . . . . syn325P (CCa),
. . . . . . . . syn333F (TTc),
. . . . . . . . syn338G (GGc),
. . . . . . . . HA Truncated after aa346)

. . . . SpainPaisVasco85_M_62F_2014_01_03 (
. . . . . . . . A/PaisVasco/85/2014
. . . . . . . . GISAID HA EPI501440
. . . . . . . . GISAID Isolate EPI_ISL_154256
. . . . . . . . 14 Polymorphisms (5 Amino and 9 Silent)
. . . . . . . . HA Truncated before aa0,
. . . . . . . . syn77S (AGt),
. . . . . . . . 100N,
. . . . . . . . syn116R (AGa),
. . . . . . . . syn141H (CAc),
. . . . . . . . 166Q,
. . . . . . . . syn178V (GTa),
. . . . . . . . syn179L (CTg),
. . . . . . . . 188T,
. . . . . . . . 259T,
. . . . . . . . 286E,
. . . . . . . . syn308K (AAg),
. . . . . . . . syn325P (CCa),
. . . . . . . . syn333F (TTc),
. . . . . . . . syn338G (GGc),
. . . . . . . . HA Truncated after aa346)

. . . . SpainCastillaLaMancha14046_24M_2013_12_29_s (
. . . . . . . . A/CastillaLaMancha/14046/2013
. . . . . . . . Hospitalised
. . . . . . . . GISAID HA EPI501452
. . . . . . . . GISAID Isolate EPI_ISL_154268
. . . . . . . . 12 Polymorphisms (5 Amino and 7 Silent)
. . . . . . . . HA Truncated before aa5,
. . . . . . . . syn77S (AGt),
. . . . . . . . 100N,
. . . . . . . . syn141H (CAc),
. . . . . . . . 166Q,
. . . . . . . . syn179L (CTg),
. . . . . . . . syn184H (CAc),
. . . . . . . . 188T,
. . . . . . . . 259T,
. . . . . . . . 286E,
. . . . . . . . syn308K (AAg),
. . . . . . . . syn333F (TTc),
. . . . . . . . syn338G (GGc),
. . . . . . . . HA Truncated after aa346)

. . . . SpainMadridSO11449_1mF_2013_12_28_s (
. . . . . . . . A/Madrid/SO11449/2013
. . . . . . . . Hospitalised
. . . . . . . . Infant Female 1 Month
. . . . . . . . GISAID HA EPI501464
. . . . . . . . GISAID Isolate EPI_ISL_154280
. . . . . . . . 14 Polymorphisms (6 Amino and 8 Silent)
. . . . . . . . HA Truncated before aa#3,
. . . . . . . . 2T [H7N7]
. . . . . . . . . . [zH3N2],
. . . . . . . . syn77S (AGt),
. . . . . . . . 100N,
. . . . . . . . syn116R (AGa),
. . . . . . . . syn141H (CAc),
. . . . . . . . 166Q,
. . . . . . . . syn179L (CTg),
. . . . . . . . 188T,
. . . . . . . . 259T,
. . . . . . . . 286E,
. . . . . . . . syn308K (AAg),
. . . . . . . . syn325P (CCa),
. . . . . . . . syn333F (TTc),
. . . . . . . . syn338G (GGc),
. . . . . . . . HA Truncated after aa346)

. . . . SpainCastillaLaMancha14056_27F_2013_12_27_VxX_s (
. . . . . . . . A/CastillaLaMancha/14056/2013
. . . . . . . . Vaccine Escape GenoType HA 225N
. . . . . . . . Hospitalised
. . . . . . . . GISAID HA EPI501453
. . . . . . . . GISAID Isolate EPI_ISL_154269
. . . . . . . . 15 Polymorphisms (7 Amino and 8 Silent)
. . . . . . . . HA Truncated before aa#3,
. . . . . . . . syn5T (ACt),
. . . . . . . . syn42G (GGt),
. . . . . . . . syn77S (AGt),
. . . . . . . . 100N,
. . . . . . . . syn141H (CAc),
. . . . . . . . syn165S (AGt),
. . . . . . . . 166Q,
. . . . . . . . syn179L (CTg),
. . . . . . . . 188T,
. . . . . . . . 225N [pH1N1 Upsilon],
. . . . . . . . 259T,
. . . . . . . . 286E,
. . . . . . . . syn308K (AAg),
. . . . . . . . syn318A (GCa),
. . . . . . . . 324I,
. . . . . . . . HA Truncated after aa329)

. . . . SpainAragon14276_M_50F_2013_12_26 (
. . . . . . . . A/Aragon/14276/2013
. . . . . . . . GISAID HA EPI501460
. . . . . . . . GISAID Isolate EPI_ISL_154276
. . . . . . . . 12 Polymorphisms (6 Amino and 6 Silent)
. . . . . . . . HA Truncated before aa#2,
. . . . . . . . 41D [pH1N1 with NA 247N TamiFlu Resistance],
. . . . . . . . . . . [pH1N1 with HA 230I],
. . . . . . . . syn77S (AGt),
. . . . . . . . 100N,
. . . . . . . . syn141H (CAc),
. . . . . . . . 166Q,
. . . . . . . . syn179L (CTg),
. . . . . . . . 188T,
. . . . . . . . 259T,
. . . . . . . . 286E,
. . . . . . . . syn308K (AAg),
. . . . . . . . syn333F (TTc),
. . . . . . . . syn338G (GGc),
. . . . . . . . HA Truncated after aa346)

. . . . SpainMadridSO11395_6mF_2013_12_21_s (
. . . . . . . . A/Madrid/SO11395/2013
. . . . . . . . Hospitalised
. . . . . . . . Infant Female 6 Months
. . . . . . . . GISAID HA EPI501438
. . . . . . . . GISAID Isolate EPI_ISL_154254
. . . . . . . . 15 Polymorphisms (6 Amino and 9 Silent)
. . . . . . . . HA Truncated before aa#9,
. . . . . . . . syn#4Y (TAc),
. . . . . . . . 2T [H7N7]
. . . . . . . . . . [zH3N2],
. . . . . . . . syn77S (AGt),
. . . . . . . . 100N,
. . . . . . . . syn116R (AGa),
. . . . . . . . syn141H (CAc),
. . . . . . . . 166Q,
. . . . . . . . syn179L (CTg),
. . . . . . . . 188T,
. . . . . . . . 259T,
. . . . . . . . 286E,
. . . . . . . . syn308K (AAg),
. . . . . . . . syn325P (CCa),
. . . . . . . . syn333F (TTc),
. . . . . . . . syn338G (GGc),
. . . . . . . . HA Truncated after aa346)

. . . . SpainMadridSO11352_3mF_2013_12_16_s (
. . . . . . . . A/Madrid/SO11352/2013
. . . . . . . . Hospitalised
. . . . . . . . Infant Female 3 Months
. . . . . . . . GISAID HA EPI501439
. . . . . . . . GISAID Isolate EPI_ISL_154255
. . . . . . . . 13 Polymorphisms (5 Amino and 8 Silent)
. . . . . . . . HA Truncated before aa6,
. . . . . . . . syn77S (AGt),
. . . . . . . . 100N,
. . . . . . . . syn116R (AGa),
. . . . . . . . syn141H (CAc),
. . . . . . . . 166Q,
. . . . . . . . syn179L (CTg),
. . . . . . . . 188T,
. . . . . . . . 259T,
. . . . . . . . 286E,
. . . . . . . . syn308K (AAg),
. . . . . . . . syn325P (CCa),
. . . . . . . . syn333F (TTc),
. . . . . . . . syn338G (GGc),
. . . . . . . . HA Truncated after aa346)

. . . . SpainMadridSO11366_3mF_2013_12_15_s (
. . . . . . . . A/Madrid/SO11366/2013
. . . . . . . . Hospitalised
. . . . . . . . Infant Female 3 Months
. . . . . . . . GISAID HA EPI501437
. . . . . . . . GISAID Isolate EPI_ISL_154253
. . . . . . . . 11 Polymorphisms (6 Amino and 5 Silent)
. . . . . . . . HA Truncated before aa#2,
. . . . . . . . 2T [H7N7]
. . . . . . . . . . [zH3N2],
. . . . . . . . syn77S (AGt),
. . . . . . . . 100N,
. . . . . . . . syn116R (AGa),
. . . . . . . . syn141H (CAc),
. . . . . . . . 166Q,
. . . . . . . . syn179L (CTg),
. . . . . . . . 188T,
. . . . . . . . 259T,
. . . . . . . . 286E,
. . . . . . . . syn308K (AAg),
. . . . . . . . HA Truncated after aa315)

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pH1N1 Influenza Hemagglutinin Segments elucidated at 2014-01-30-01_40_10_368200 by GeneWurx see.PolyDetector v0, Copyright 2007-2014.

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