KP.4.2.4(S:S256L,S:S31del)+S:R190S(73 seqs,>10 places)

[xz-keg]

From branch 21 of sars-cov-2-variants/lineage-proposals#1502
and branch 4 of sars-cov-2-variants/lineage-proposals#1771

This used to be a UK cluster but further seqs show it clearly circulating in undersampled regions of eastern Europe and middle east.

KP.4.2+A1989G(Orf1a:Q575R)+C22329T(S:S256L)+C6040T, C28744T,del21653_21655(S:S31-)

GISAID query: del21653,A1989G,C6070T
No. of seqs: 19(Sweden 1 France 1 Moldova 1 USA 3(2 from UAE) UK 13)

First: EPI_ISL_19265289, UK, 2024-6-26
Latest: EPI_ISL_19369879, USA from UAE, 2024-8-21

GISAID query for S:R190S branch:A1989G,C6070T, G22132T(16 seqs)

Everything on the C6070T,C28744T branch have S:S31-, while the UK cluster has further S:R190S.

usher

[xz-keg]

22, Netherlands, Norway

[xz-keg]

24, Croatia

[FedeGueli]

5/25 are very recent (end of August start of September) it should be stay open

[xz-keg]

29, Greece, Canada

[DailyCovidCases]

Tree now:
usher
Covspectrum: KP.4.2* & A1989G & C6070T & 21653-

@corneliusroemer Is this branch worth a designation?

[FedeGueli]

Slowing down a lot

[xz-keg]

38, Also from Bahrain and Czech Republic

[xz-keg]

a lot of submissions from Russia, making it 49-41

[xz-keg]

The S256L+31del branch is designated KP.4.2.3

[FedeGueli]

The S256L+31del branch is designated KP.4.2.3

via e945668

[NkRMnZr]

it's KP.4.2.4 from lineage_notes.txt and lineages.csv, I think the title of the commit e945668 is mislabeled

[xz-keg]

45, Italy, New Zealand

[xz-keg]

some seqs have problem recognizing the 31del(they also don't register all nearby mutations like S:24-26del or S:ins16), edit query, real toll shall be 57.

[FedeGueli]

A1989G,C6070T, G22132T

there are only 4 sequences of KP.4.2.4 without 190S , i suggest to close this and if @corneliusroemer can to add it to defining of KP.4.2.4

[FedeGueli]

60 now with last samples coming from Russia, Italy, Australia,

Interestingly also the earliest sequence of KP.4.2.4 has been uploaded : Iran, April

[FedeGueli]

63 Romania

[xz-keg]

66,Luxembourg

[FedeGueli]

Luxembourg

cc @xz-keg
i think you queried with the KP.4.2.4 general query not the 190S one that gives 63.

[xz-keg]

Luxembourg

cc @xz-keg i think you queried with the KP.4.2.4 general query not the 190S one that gives 63.

oh, my bad.

[FedeGueli]

73 Colorado , recent