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Repository for suggesting new lineages that should be added to the current scheme
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JN.1*+S:Q677H and sublineage with S:S680F (transferred from issue 1326) #2516

Closed krosa1910 closed 3 months ago

krosa1910 commented 3 months ago

JN.1*> A29086T > G23593T(S:Q677H) Query:G23593T, A29086T,T3565C Samples: 122( 7 Aus, 6 Japan, 3 Scotland, 1 Shanghai-China (likely imported), 1 SIngapore, 103 South Korea, 1 US) Earliest: EPI_ISL_18598041 South Korea 2023-11-10 Latest: EPI_ISL_18967096 South Korea 2024-02-27

A sublineage has further acquired S:S680F in the FCS Search: C23601T,T15756A,C18894T,G23593T, Mutations Added: A29086T (a relatively large branch of JN.1*, nor sure if it is mentioned or not)->G23593T(S:Q677H) ,C23601T (S:S680F) Samples: 29 First Sequence: EPI_ISL_18688878 Scotland 2023-11-30 Latest Sequence: EPI_ISL_18967096 South Korea 2024-02-27

Usher: https://nextstrain.org/fetch/genome.ucsc.edu/trash/ct/singleSubtreeAuspice_genome_1b79d_1536b0.json?f_userOrOld=uploaded%20sample&label=id:node_2333509

Screenshot 2024-03-13 at 3 21 32 PM

Many of the sequences are actually trash as they contain too many reversions ( I hate South Korea for its trash sequences), but showing up in three countries is good enough for me, and if it is not completely an artefect, it could resemble the trend @LongDesertTrain have observed that multiple close to FCS mutations are now rising among JN.1*

aviczhl2 commented 3 months ago

Designated JN.1.36