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2013 Grant Co Indiana H3N2v Matches 2012 Cases & Swine
Recombinomics Commentary 22:15
June 28, 2013

The CDC has release complete or nearly complete sequences for all 8 gene segments from one of the H3N2v infected attendees of the Indiana Grant County Fair, A/Indiana/04/2013 (see map).  The CDC is to be commended for the rapid release of these sequences. As suggested by the 99% similarity sated in the week 25 FluView, all 8 gene segments matched the lineages dominant in the 2012 H3N2v cases, including an N2 matching the sequences from the 2011 cases linked to a West Virginia day care center.

Earlier this week the USDA released a series of 2013 H3N2 Indiana swine sequences which included collections on April 30 (A/swine/Indiana/A01260252/2013, A/swine/Indiana/A01260254/2013, A/swine/Indiana/A01260261/2013, A/swine/Indiana/A01260276/2013, A/swine/Indiana/A01260280/2013, A/swine/Indiana/A01260284/2013) that matched the lineages that dominated human H3N2 cases in 2012.  In addition, the USDA has recently released a series of 2013 sequences from Ohio swine (A/swine/Ohio/A01349615/2013, A/swine/Ohio/A01349495/2013, A/swine/Ohio/A01349485/2013, A/swine/Ohio/A01349302/2013, A/swine/Ohio/A01349305/2013) which also matched the human 2012 lineages.

However, the segments from A/Indiana/04/2013 were most closely related to human and swine sequences from 2012.  This discordance between the human sequences a year ago, and the H3N2v swine sequences released by the USDA from collections prior to the human infections.  In 2012 the swine sequences from the first six months of 2012 were dominated by sequences with an N2 that matched the early 2011 human sequences (which had an N2 matching H1N2 swine).  Swine sequences with an N2 matching the West Virginia day care center (A/West Virginia/06/2011), which was an N2 matching H3N2 swine, were rare, yet virtually all human cases in 2012 had this N2 (with the exception of 3 cases in Michigan, which had an unusual constellation).

This discordance suggests the H3N2v at fairs is largely due to humans infecting swine leading to significant inter-species transmission.

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