October 2010 Sequences from Thailand Increase Genetic Diversity with 232H

The Mahidol University in Bangkok deposited a group of 6 pH1N1 HA sequences at GenBank on 2010-11-22. The samples were all taken last month, October 2010, and produced partial sequences.

ThaiSN_0116_2010_10 deploys a rare polymorphism at aa163 that may be related to our discussion of change at that position in April of this year.  Only New Zealand reports another instance of 163T.  Each 163T-bearing sequence is recent indicating potential emergent behaviour at this key amino acid position.  A second Thai sequence, ThaiSN_0112_2010_10, corroborates another novel amino acid revision (found only in Cuba).  232H, just downstream of the recent critical RBD revisions to 230I, increases the genetic diversity of the ΣPF11 reservoir.  The post-pandemic H1N1 virus appears to be as unstable as during the early pandemic.

Previously, we have detailed this genetic diversity and Vaccine Escape tendencies within this viral reservoir.  100% of the Hemagglutinin positions between 186 and 248, including antigenic areas of the Receptor Binding Domain (RBD/RBS), are on record as polymorphic.  No position in that range is stable.  Many positions rate multiple changes.   Protein revision is documented at 58 of the 63 positions (92%), engaging a wide potential for antibody resistance (natural Immune Escape and Vaccine Escape).

The related 232H-bearing Cuban sequence is from 2010 and mirrors directly and via domaining the emerging post-pandemic sub-clade recently profiled.

. . . . ThaiSN_0116_2010_10 (
. . . . . . . . HA truncated before aa119,
. . . . . . . . 163T [NZChristchurch16_2010_07_12],
. . . . . . . . syn177L,
. . . . . . . . 188T,
. . . . . . . . 200T,
. . . . . . . . HA truncated after aa237)

. . . . ThaiSN_0112_2010_10 (
. . . . . . . . HA truncated before aa103,
. . . . . . . . 137T,
. . . . . . . . 186P,
. . . . . . . . 232H [CubaHabana7374_2010_01],
. . . . . . . . HA truncated after aa239)

Supporting Sequences

. . . . NZChristchurch16_2010_07_12 (
. . . . . . . . #4H,
. . . . . . . . syn44L,
. . . . . . . . 97N,
. . . . . . . . syn106E,
. . . . . . . . 128D,
. . . . . . . . 163T,
. . . . . . . . 225N,
. . . . . . . . 253A,
. . . . . . . . syn362S,
. . . . . . . . 377K)

. . . . CubaHabana7374_2010_01 (
. . . . . . . . HA truncated before aa05,
. . . . . . . . 28P,
. . . . . . . . syn32S,
. . . . . . . . 33G,
. . . . . . . . 165N,
. . . . . . . . 232H,
. . . . . . . . 275I,
. . . . . . . . syn287G,
. . . . . . . . syn305K,
. . . . . . . . syn346G,
. . . . . . . . 421M,
. . . . . . . . 432W,
. . . . . . . . 444Y,
. . . . . . . . HA truncated after aa535)

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