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EG.2 with S:K304N (45 seqs, mainly in Japan, 3 countries) #2188

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NkRMnZr opened this issue Aug 14, 2023 · 3 comments
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EG.2 with S:K304N (45 seqs, mainly in Japan, 3 countries) #2188

NkRMnZr opened this issue Aug 14, 2023 · 3 comments

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@NkRMnZr
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NkRMnZr commented Aug 14, 2023

Taken from Branch 3 of multitask sars-cov-2-variants/lineage-proposals#517

Defining Mutations: EG.2 > A6355T > C9430T, T18471C > A22474T(S:K304N)
Query: A6355T, T18471C, A22474T
Earliest seq: 2023-03-31 (EPI_ISL_17546450, Jakarta, Indonesia)
Latest seq: 2023-07-29 (EPI_ISL_18082809, Fukui, Japan)
Sampled Countries: Japan (29), Indonesia (2), USA (1, Arizona)

Genomes:

EPI_ISL_17546450, EPI_ISL_17551534, EPI_ISL_17958643, EPI_ISL_18012733, EPI_ISL_18040498, EPI_ISL_18041432, EPI_ISL_18041478, EPI_ISL_18050913, EPI_ISL_18050968, EPI_ISL_18051721, EPI_ISL_18053832, EPI_ISL_18065217, EPI_ISL_18065997, EPI_ISL_18066036, EPI_ISL_18066169, EPI_ISL_18066186, EPI_ISL_18066189, EPI_ISL_18066243, EPI_ISL_18066260, EPI_ISL_18066370, EPI_ISL_18066401, EPI_ISL_18075785, EPI_ISL_18075812, EPI_ISL_18077847, EPI_ISL_18081861, EPI_ISL_18082809, EPI_ISL_18082915, EPI_ISL_18082917, EPI_ISL_18082927, EPI_ISL_18082929, EPI_ISL_18082982, EPI_ISL_18097533

UShER:
https://nextstrain.org/fetch/genome.ucsc.edu/trash/ct/subtreeAuspice1_genome_41516_a69130.json?f_userOrOld=uploaded%20sample
Branch3

Trivia:

  • Most of this lineage has a B.1.1 defining mutation altered, N:G204P (G>R>P) (G28884C over existing G28883C)
    N_204
  • spotted by @FedeGueli
@NkRMnZr
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NkRMnZr commented Aug 18, 2023

08-18, 3 seqs from China and Japan

1 from Shanghai, China: EPI_ISL_18105648, travel history to South Korea
2 from Japan: EPI_ISL_18106169, EPI_ISL_18106200

08-22, 5 seqs from Japan

EPI_ISL_18116154, EPI_ISL_18122724, EPI_ISL_18122726, EPI_ISL_18122732, EPI_ISL_18122750

08-30, 5 seqs from Japan

EPI_ISL_18127295, EPI_ISL_18134256, EPI_ISL_18140842, EPI_ISL_18140935, EPI_ISL_18141055

@NkRMnZr NkRMnZr changed the title EG.2 with S:K304N (32 seqs, mainly in Japan, 3 countries) EG.2 with S:K304N (35 seqs, mainly in Japan, 3 countries) Aug 18, 2023
@NkRMnZr NkRMnZr changed the title EG.2 with S:K304N (35 seqs, mainly in Japan, 3 countries) EG.2 with S:K304N (40 seqs, mainly in Japan, 3 countries) Aug 22, 2023
@NkRMnZr NkRMnZr changed the title EG.2 with S:K304N (40 seqs, mainly in Japan, 3 countries) EG.2 with S:K304N (45 seqs, mainly in Japan, 3 countries) Aug 30, 2023
@FedeGueli
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Designated EG.2.2 from 94fbed4

@FedeGueli
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Milestone in the original issue to save Cornelius time.

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