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BQ.1.1.35 sublineage with S:K182N(A22108T) mainly in UK (186 seqs) #1732

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HynnSpylor opened this issue Mar 6, 2023 · 1 comment
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@HynnSpylor
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HynnSpylor commented Mar 6, 2023

Defining mutations: BQ.1.1.35>T9619C>A22108T (S:K182N)
GISAID query: Spike_R346T, Spike_K444T, Spike_F486V, Spike_K147E, Spike_K182N
Cov-spectrum query: BQ.1.1.35 + S:K182N
Earliest seq: 2022-11-23 (Netherland, EPI_ISL_16202528)
Most recent seq: 2023-02-21 (Austria, EPI_ISL_17082550)
Countries Detected: UK (130), Austria (19), Belgium (14), Netherland (9), Germany (8), France (4), Finland (1), Sweden (1)

Usher Tree:
QQ截图20230306204319

https://nextstrain.org/fetch/genome.ucsc.edu/trash/ct/subtreeAuspice1_genome_3f370_5d3600.json
When I proposed the CH.1.1 sublineage with S:K182N (#1726), I noted lots of Pangolin "unassigned" sequences with S:K444T, S:L452R and S:K182N. Some of them were of CH.1.1+S: K182N sublineage, but others were BA.5-like Spike. Now Usher tree confirms that most of them belong to sublineage of BQ.1.1.35 (BQ.1.1+S:K147E).
(S: K182N mutation is based on nuc: A22108T in this BQ.1.1.35 sublineage, while A22108C in CH.1.1+S: K182N sublineage).

Cov-spectrum relative growth rate shows slight advantage to parent lineage (BQ.1.1.35)
https://cov-spectrum.org/explore/World/AllSamples/Past3M/variants?nextcladePangoLineage=BQ.1.1.35*&aaMutations1=S%3AK182N&nextcladePangoLineage1=BQ.1.1.35*&analysisMode=CompareToBaseline&

QQ截图20230306211620

Genomes:
Genomes.txt

@InfrPopGen InfrPopGen self-assigned this Mar 16, 2023
InfrPopGen added a commit that referenced this issue Mar 16, 2023
Added new lineage ET.1 from #1732 with 152 new sequence designations, and 32 updated from BQ.1.1.35
@InfrPopGen InfrPopGen added this to the ET.1 milestone Mar 16, 2023
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Thanks for submitting. We've added lineage ET.1 with 152 newly designated sequences, and 32 updated. Defining mutation A22108T (S:K182N) (following T9619C).

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