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Designate JN.1.54 (A9085G), JN.1.54.1 (S:F456L, S:V407I, Spain)
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@corneliusroemer
corneliusroemer committed May 28, 2024
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232 changes: 229 additions & 3 deletions lineages.csv
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3 comments on commit d4897da

@FedeGueli
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@FedeGueli FedeGueli commented on d4897da May 28, 2024 •
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from #2584

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PRed to add the issue

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@corneliusroemer @Sinickle
i just noticed that there is an entire branch of JN.1.54 with s:F456L and without S:V407I misplaced by Usher (cc @AngieHinrichs ) to a flip flop 455L big branch of JN.1 .
It is quite interesting cause it is first time we (at least me) see Orf8 being splitted in two ( same as happened in Sars1??) equally long parts due a S:C61Stop S:V62M double nuc mutation (C28076A, G28077A):
Screenshot 2024-06-03 alle 13 14 24
https://nextstrain.org/fetch/genome-test.gi.ucsc.edu/trash/ct/subtreeAuspice29_genome_test_af16_d9e850.json?label=id:node_6955337
Screenshot 2024-06-03 alle 13 15 45
Query for it: A9085G,T22928C,T3565C , C8917T
finds 41 sequences
EPI_ISL_19055427, EPI_ISL_19126142, EPI_ISL_19126554,
EPI_ISL_19141038, EPI_ISL_19141042, EPI_ISL_19146196,
EPI_ISL_19146198, EPI_ISL_19146200, EPI_ISL_19146209,
EPI_ISL_19146217, EPI_ISL_19146290, EPI_ISL_19146292-19146293,
EPI_ISL_19146295-19146298, EPI_ISL_19146300, EPI_ISL_19146302-19146305,
EPI_ISL_19146343, EPI_ISL_19146356, EPI_ISL_19146358,
EPI_ISL_19147058, EPI_ISL_19151426, EPI_ISL_19151430,
EPI_ISL_19163931, EPI_ISL_19164648, EPI_ISL_19165395,
EPI_ISL_19167760, EPI_ISL_19175169-19175170, EPI_ISL_19175173,
EPI_ISL_19175176, EPI_ISL_19175179, EPI_ISL_19175181,
EPI_ISL_19175184, EPI_ISL_19175190, EPI_ISL_19175517,
Samples are from 3 countries mostly Spain from different areas spanning from Canary Is. to Andalusia and different labs.

Maybe @corneliusroemer it could be designated JN.1.54.X having both this interesting splitted Orf8 and 456L???

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