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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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Another JN.1.11.1 lineage with FLiRT (456L 346T) 44 seqs , 6 countries with a branch with S:W258R (6) #2521

Closed FedeGueli closed 2 months ago

FedeGueli commented 3 months ago

This was previously tracked as Branch 53 of https://github.com/sars-cov-2-variants/lineage-proposals/issues/1089

JN.1.11.1 > C6070T > C19884T > S:R346T (G22599C) Query: C6070T,G22599C,C7113T,G24872T, C19884T Samples: 7 Countries: Australia , Canada, US (Texas), India (GBW) IDs:EPI_ISL_18912216, EPI_ISL_18937582, EPI_ISL_18937584, EPI_ISL_18960842, EPI_ISL_18965320, EPI_ISL_18972869, EPI_ISL_18980922

Tree as of April 8:

Screenshot 2024-04-08 alle 14 36 23 Screenshot 2024-04-08 alle 14 36 40

https://nextstrain.org/fetch/genome-test.gi.ucsc.edu/trash/ct/subtreeAuspice1_genome_test_139f2_3e3b50.json?label=id:node_6962173

There is further branch with S:W258R (T22334A) spotted by @aviczhl2 Query: T22334A,G24872T,T3565C Samples: 4

Screenshot 2024-04-08 alle 14 37 05
aviczhl2 commented 3 months ago

Why not proposing the K187R branch

FedeGueli commented 3 months ago

Why not proposing the K187R branch

i m waiting one more sequence

FedeGueli commented 3 months ago

+1 India (GBW)

FedeGueli commented 3 months ago

11 sequences now

FedeGueli commented 3 months ago

15 seqs new country Vietnam

FedeGueli commented 3 months ago

26 now @corneliusroemer it is growing fast, as expected being a KP.2 homologous. i suggest to designate

FedeGueli commented 3 months ago

34

aviczhl2 commented 3 months ago

There is a S:W258R sub-branc of this.

FedeGueli commented 3 months ago

There is a S:W258R sub-branc of this.

thx added it to the proposal

FedeGueli commented 2 months ago

44 now and 6 with 258R

FedeGueli commented 2 months ago

Designated KP.4.1. via https://github.com/cov-lineages/pango-designation/commit/8fbd0bccca8b93f0293ab4139818fbd28d41cf74

FedeGueli commented 1 month ago

One interesting singlet in KP.4.1 with S:K182Q and S:A475V: KP.4.1 >C5144T, 9328G, T11773A, C18687T, S:K182Q (A22106C), S:A475V (C22986T) Query:A22106C,C22986T,A9328G Samples: 1 UK

FedeGueli commented 3 weeks ago

the sub branch with S:W258R designated KP.4.1.1 via https://github.com/cov-lineages/pango-designation/commit/df86946c8a512ec73b93a228adec286b6610bb78