Vaccine Escape in Sao Paulo, Brazil on July 2013 pH1N1 Case

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 : 2013-10-04
Last Update : 2014-01-09

Geographic Distribution

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1 Sequence

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On 2013-10-03, the Instituto Adolfo Lutz of Brazil released one pH1N1 Hemagglutinin sequence at GISAID sampled from a 53 year old female in early July.  The Neuraminidase segment was not released.  The patient is documented as having been vaccinated in 2013.

Vaccine Escape Diversity
Type	Observation	Count
PhenoTypic	Vaccinated 2013	01

This Vaccine Escape case from Sao Paulo, Brazil [map] is on a genetic background in wide circulation around the world.  That background is expected to be prominent in form during the Northern Hemisphere 2013 season.

Cladistics
CladeName	Count
Clade2:188T	01

HA Polymorphisms

. . . . BrazilSaoPaulo55023_53F_2013_07_10_VxX_s (
. . . . . . . . A/Sao Paulo/55023/2013

. . . . . . . . Vaccinated 2013

. . . . . . . . GISAID HA EPI475776

. . . . . . . . GISAID Isolate EPI_ISL_148145

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

. . . . . . . . syn42G (GGt),

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

. . . . . . . . 100N,

. . . . . . . . syn141H (CAc),

. . . . . . . . syn165S (AGt),

. . . . . . . . 166Q,

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

. . . . . . . . 188T,

. . . . . . . . 259T,

. . . . . . . . 286E,

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

. . . . . . . . syn318A (GCa),

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

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

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

. . . . . . . . 377K,

. . . . . . . . syn383N (AAc),

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

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

. . . . . . . . 454N,

. . . . . . . . 482I,

. . . . . . . . 502K,

. . . . . . . . syn537S (AGc))

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pH1N1 Influenza Hemagglutinin Segment elucidated at 2013-10-04-09_29_00_087350  by GeneWurx see.PolyDetector v0, Copyright 2007-2013.

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