JN.1 + S:K679R emerged in Singapore (97 samples,11 countries) with a sublineage with S:S704L in S.Korea (4)

[FedeGueli]

I just spotted another sub lineage with a mutation in the hypermutable JN.1 FCS

Defining mutations:
JN.1 >> C19011T > C9836T > S:N>K679R (A23598G)
Query: A23598G,C9836T,C19011T
Samples: 21 (Singapore, Scotland, Malaysia)
First collected on 2023-12-21
IDs:
EPI_ISL_18726082, EPI_ISL_18726163, EPI_ISL_18726219,
EPI_ISL_18734231, EPI_ISL_18770790, EPI_ISL_18770891,
EPI_ISL_18770901, EPI_ISL_18771027, EPI_ISL_18771057,
EPI_ISL_18806594, EPI_ISL_18806600, EPI_ISL_18806603,
EPI_ISL_18806743, EPI_ISL_18806761, EPI_ISL_18806769,
EPI_ISL_18806923, EPI_ISL_18825081, EPI_ISL_18825087,
EPI_ISL_18831092, EPI_ISL_18831096, EPI_ISL_18831155,

Tree updated on March 27:


https://nextstrain.org/fetch/genome-test.gi.ucsc.edu/trash/ct/subtreeAuspice1_genome_test_40b14_4753e0.json?label=id:node_6967559

Now there is a mini saltation sublineage of it with S:S704L emerging in South Korea with 679R-681R-704L trio that seems interesting
Query: G7994T,C19011T,C23673T
Defining mutations:
#1350> Orf1a:V2577L (G7994T), Orf1a:S2797F (C8655T), T19728C, N:R40L / ORF9b:V37F (G28392T) > S:S704L (C23673T)
Samples: 4
Countries : South Korea

[FedeGueli]

28 California, Malaysia, Australia it seems spreading well.

[FedeGueli]

35 , 3 new countries

[FedeGueli]

54, 1 seq from March

[FedeGueli]

61 now with two more countries detected in Airports worlwide.
Interestingly a sublineage of it looks like a mini saltation accumulating two more Orf1a mutations one N/Orf9b mutation each and S:S704L in South Korea with an unoprecedented 679R 681R 704L trio.

cc @corneliusroemer

[FedeGueli]

I m proposing it , still circulating in eastern Asia in South Korea got 456L cc @aviczhl2 8 i m checking if it is one of the branches of #1253 > it doesnt seem to be there

[FedeGueli]

proposed in cov-lineages/pango-designation#2571

[FedeGueli]

Designated JN.1.68.1 via cov-lineages/pango-designation@0c66521#diff-ead4244ff49c81bc758e9f068f5ef42156bd985b9c86de8fa4d6fcd7f2829090R1600