XDV.1.5+8-nuc,6-aa including S:F59S(37 seqs, >10 places, 7% Hubei, 22 with S:T22N)

[xz-keg]

From https://github.com/sars-cov-2-variants/lineage-proposals/issues/1840

XDV.1.5+C4683T,T15573C(Orf1a:A1473V)+C3686T, G25793A(Orf1a:H1141Y,Orf3a:R134H)+A8390G, C12854T, T21738C, C25671T(Orf1a:I2709V, P4197S,S:F59S)+C21627A(S:T22N)

GISAID query:C12473T, T21738C, C25671T GISAID query for S:T22N sub-branch: C12473T, T21738C, C25671T,C21627A No. of seqs:11(Canada 1 Singapore 2 China 5(Hubei-Shiyan,Jingzhou, Hong Kong, 1 from Thailand) USA 3(GBW from China and Netherlands))

First: EPI_ISL_19297920, Canada, 2024-7-17 Latest: EPI_ISL_19437425, Hong Kong, 2024-9-13

usher

[FedeGueli]

@aviczhl2 could you add please the query for S:T22N or do you think it is present in all the sequences and just dropped out in the three without it?

[xz-keg]

@aviczhl2 could you add please the query for S:T22N or do you think it is present in all the sequences and just dropped out in the three without it?

Added. Sorry I forgot it.

[FedeGueli]

@aviczhl2 could you add please the query for S:T22N or do you think it is present in all the sequences and just dropped out in the three without it?

Added. Sorry I forgot it.

Thx!

[xz-keg]

Also in Shanxi

[FedeGueli]

15! 3 from Hubei (2 recent ones and one from August) One got S:N1187H (convergent with KP.3.1.1 sublineage) one got S:D936H one a reversion at s:505 likely not real

[xz-keg]

2 from Jingzhou and 1 from Ezhou(new place)

[FedeGueli]

17 Japan Netherlands one with T22N so it is 17/10

[FedeGueli]

ping @corneliusroemer this could be seriously fast.

[NkRMnZr]

just copypasta what I wrote for duplicated issue sars-cov-2-variants/lineage-proposals#2073

T29672C would have extended hypothetical ORF10 with a few AA: *`QQSLISV`**

[FedeGueli]

20, 12 with T22N , 3 new GBW samples the 2 not pooled from China

[xz-keg]

+1 Hong Kong

[xz-keg]

+1 GBW from China, it has 12854 dropout, edit query to include this.

[FedeGueli]

+1 GBW from China, it has 12854 dropout, edit query to include this.

Thanks a lot

[xz-keg]

+1 Singapore with additional S:P85L and S:P1263L

[FedeGueli]

@corneliusroemer

[xz-keg]

+1 South Korea

[xz-keg]

+3 Heilongjiang

[FedeGueli]

Impressive the proportion of recent samples 15/17 for 22N+59S and 21/27 for 59S , for sure it is fast and expanding and could be at least continentally a thing this winter.

[xz-keg]

+8 from Hubei 8/113 in Hubei seqs after 9/15.

[FedeGueli]

+8 from Hubei 8/113 in Hubei seqs after 9/15.

As expected and discussed among us it is going up quite fast!

[DailyCovidCases]

@corneliusroemer This branch is growing rapidly now:

[xz-keg]

+2 South Korea