UK Homology on Cameroon Pair Carrying 230I Permissive SNPs

The UK National Institute for Medical Research published a group of sequences on 2010-12-30 at GISAID.  One group originated from the Centre Pasteur du Cameroun.

Two young boys, ages 10 and 7, are part of a transmission chain extended over 13 days. Cameroon10v_00812_7M_2010_03_23 is an exact HA match with Cameroon10v_00751_10M_2010_03_10.

These two sequences carry genetics common to the most recent October and November 2010 UK sequences while combining polymorphisms associated with RBD changes including 230I.  Using domaining produces a clear relationship between Cameroon and the 230I carrier and 230I permissive sequences.  Simple scrolling of the provided spreadsheet demonstrates the relationships.

GeneWurx has prepared an Excel spreadsheet investigating potential genetic acquisition in the currently uncharted severe Pandemic H1N1 wave in the UK.  In Version 3 of this spreadsheet, this Cameroon representative sequence, Cameroon10v_00812_7M_2010_03_23, takes Column U and provides homology with UK sequences of recent interest.

GeneWurx_UK_December_Emerging_Genetics_v3.xls

. . . . Cameroon10v_00812_7M_2010_03_23 (
. . . . . . . . 100N [UKWhiteChapel4780352_2010_10_26
. . . . . . . . . . . . . . . . with 128D, syn131S, syn210S, 377K],
. . . . . . . . syn137A [UKCambridge118_2010_11_19
. . . . . . . . . . . . . . . . . . . . with syn363G, syn455Q, syn474C,
. . . . . . . . . . . . . . . . NorthCarolina56_2009_12_07
. . . . . . . . . . . . . . . . . . . . with 100N, 377K],
. . . . . . . . 218V [Minnesota04_18M_2010_03_22
. . . . . . . . . . . . . . . . with 165N, 230I, syn346G,
. . . . . . . . . . . . . Pennsylvania14_20M_2009_06_07
. . . . . . . . . . . . . . . . with 158E, 523I],
. . . . . . . . syn270I,
. . . . . . . . syn343G,
. . . . . . . . syn350G [H7N3, H7N7],
. . . . . . . . . . . [IranShiraz1_2010_02
. . . . . . . . . . . . . . . with 218A, 228R,
. . . . . . . . . . . swThaiCURA4_2009_11
. . . . . . . . . . . . . . . with 226R, syn484N],
. . . . . . . . 377K,
. . . . . . . . 457R [H2N3, H3N8, H4, H5N1, H7N3],
. . . . . . . . . . [swJapanOkinawa2_2005
. . . . . . . . . . . . . . . . with 225G],
. . . . . . . . syn461K [H2N3, H5N1 Human, Civet & Avian, H6N1, H11],
. . . . . . . . . . . . [Iran16273_2009_11_22
. . . . . . . . . . . . . . . . with syn55L, 226R],
. . . . . . . . syn466G [H2N3, H3N8, H4N8, H6N1, H7N3, H9N2, H10N7],
. . . . . . . . . . . . [cheetahCA30954_2009_11_17
. . . . . . . . . . . . . . . . with syn169I, 200S])

. . . . Cameroon10v_00751_10M_2010_03_10 (
. . . . . . . . 100N,
. . . . . . . . syn137A,
. . . . . . . . 218V,
. . . . . . . . syn270I,
. . . . . . . . syn343G,
. . . . . . . . syn350G,
. . . . . . . . 377K,
. . . . . . . . 457R,
. . . . . . . . syn461K,
. . . . . . . . syn466G)

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