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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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XBB.1.16.2 with S:F456L (22, as 03/08 mainly Japan) #2148

Closed FedeGueli closed 1 year ago

FedeGueli commented 1 year ago

Transferred from https://github.com/sars-cov-2-variants/lineage-proposals/issues/460

After XBB.1.16.6 and XBB.1.16.9 this is the third sublineage of XBB.1.16 to acquire S:F456L and spreading.

This time is XBB.1.16.2 and it emerged in Japan with two exportations to Italy and US.

Defining mutations: XBB.1.16.2 >>C25452T > S:F456L (T22928C)

Gisaid query: C25452T ,T22928C,G25429C

Samples : 19 First: hCoV-19/Japan/PG-544027/2023 | Original | EPI_ISL_17984697 | 2023-05-19 Last: hCoV-19/Japan/TKYnat14415/2023 | Original | EPI_ISL_18044137 | 2023-07-07

Ids: EPI_ISL_17803904, EPI_ISL_17882864, EPI_ISL_17941060, EPI_ISL_17949176, EPI_ISL_17984697, EPI_ISL_17996944, EPI_ISL_17996951, EPI_ISL_17996957, EPI_ISL_17996981-17996982, EPI_ISL_17996992, EPI_ISL_17997008, EPI_ISL_17997032, EPI_ISL_17997057, EPI_ISL_17999325, EPI_ISL_18039747, EPI_ISL_18040472, EPI_ISL_18044123, EPI_ISL_18044137,

Countries: Japan (17), Italy (1), US (1)

Tree: Schermata 2023-07-27 alle 17 37 27 https://nextstrain.org/fetch/genome.ucsc.edu/trash/ct/subtreeAuspice2_genome_4a85_d31510.json?c=gt-S_456&label=id:node_6659765

FedeGueli commented 1 year ago

2 more seqs from Japan

FedeGueli commented 1 year ago

Designated GY.8 via https://github.com/cov-lineages/pango-designation/commit/e200aa8c2983a2cfa5910bccf2fa71dd8f75e21e

Milestone added from the other repo.