cov-lineages / pango-designation

Repository for suggesting new lineages that should be added to the current scheme
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JN.1.4 with N:A35T, S:K150R and S:T572I growing in England (64 as of May 21) #2540

Closed FedeGueli closed 6 months ago

FedeGueli commented 7 months ago

I was monitoring since a while this lineage in Branch 45 of https://github.com/sars-cov-2-variants/lineage-proposals/issues/1097 I was dubious that it could really have an advantage but instead since i m tracking it isgrowing faster than any other S:T572I lineage hence i propose it here even if it has been sampled only in UK Defining mutations: JN.1.4>> T18453C > N:A35T( G28376A) > C23929T > C6781T, S:K150R (A22011G), S:T572I (C23277T) Query: C23929T, C6781T,A22011G or C6781T,A22011G Samples:37 Country: England IDs: EPI_ISL_18932525, EPI_ISL_18932537, EPI_ISL_18936366, EPI_ISL_18936422, EPI_ISL_18950960, EPI_ISL_18950967, EPI_ISL_18951034-18951037, EPI_ISL_18969249, EPI_ISL_18969497, EPI_ISL_18969522, EPI_ISL_18969529, EPI_ISL_18969536-18969537, EPI_ISL_18983476, EPI_ISL_18983479, EPI_ISL_18987621-18987622, EPI_ISL_18987627, EPI_ISL_18987632-18987633, EPI_ISL_18987640, EPI_ISL_18987645, EPI_ISL_18993567, EPI_ISL_18993571, EPI_ISL_19006549, EPI_ISL_19006551-19006553, EPI_ISL_19006559, EPI_ISL_19006562, EPI_ISL_19006567, EPI_ISL_19006652-19006653, EPI_ISL_19006667

Tree:

Screenshot 2024-03-28 alle 12 29 14

https://nextstrain.org/fetch/genome-test.gi.ucsc.edu/trash/ct/subtreeAuspice1_genome_test_22975_554610.json?label=id:node_7028751

Growth advantage in England:

Screenshot 2024-03-28 alle 12 27 45
FedeGueli commented 7 months ago
Screenshot 2024-04-17 alle 14 34 21

likely just clusters but still not slow in England

FedeGueli commented 6 months ago

64 dying off