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cov-lineages / pango-designation

Repository for suggesting new lineages that should be added to the current scheme
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JN.1.1.6 (456L) got S:346T (FLiRT spotted first by @Krosa1910, 10 Sequences ) and then S:T572I (TRIO) in South Australia (5) #2548

Closed FedeGueli closed 3 months ago

FedeGueli commented 3 months ago

Formerly known as Branch 56 of https://github.com/sars-cov-2-variants/lineage-proposals/issues/1089 sublineage of JN.1.1.6 this was first spotted by @Krosa1910 Defining mutations JN.1.1.6 (C11747T > S:F456L=T22928C) > Orf1b:V1092F (G16741T) > S:R346T (G22599C) Query : G16741T,G22599C, C11747T ,T22928C Samples: 10 UK US Australia IDs:EPI_ISL_18913301, EPI_ISL_18941884, EPI_ISL_18965272, EPI_ISL_18965335, EPI_ISL_18969267 Then emerged a S:T572I sublineage JN.1.1.6 (C11747T > S:F456L=T22928C) > Orf1b:V1092F (G16741T) > S:R346T (G22599C)>Orf1a:L1546I (C4901A),S:T572I (C23277T) Query: G16741T,C4901A,C23277T Samples: 5 South Australia EPI_ISL_19028189, EPI_ISL_19028240, EPI_ISL_19028247, EPI_ISL_19028277, EPI_ISL_19028287

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Screenshot 2024-04-03 alle 12 09 15 Screenshot 2024-04-03 alle 12 09 34

https://nextstrain.org/fetch/genome-test.gi.ucsc.edu/trash/ct/subtreeAuspice3_genome_test_3acf3_d18660.json?c=gt-S_346,572&gmax=25384&gmin=21563&label=id:node_11377197

aviczhl2 commented 3 months ago

Designated KZ.1.1 and KZ.1.1.1

FedeGueli commented 3 months ago

KZ.1.1 and KZ.1.1.1 via https://github.com/cov-lineages/pango-designation/commit/13431047d046233f6e1558a876a7f1d1ed58b1fd

FedeGueli commented 1 month ago

KZ.1.1.1 Trio got now also S:S680P

Screenshot 2024-05-07 alle 14 48 35

https://nextstrain.org/fetch/genome.ucsc.edu/trash/ct/subtreeAuspice3_genome_34e78_a0dca0.json?label=id:node_11435275