KP.2.3+S:S31del(148 seqs, 21 countries, 5 with S:A475V)

[aviczhl2]

From sars-cov-2-variants/lineage-proposals#1459
KP.2.3+del21653_21655(S:S31del)

GISAID query: del21653_21655, C22000A,G25593T
No. of seqs: 62(Australia 2 Canada 4 Denmark 2 UK 4 Germany 1 India 5 Japan 2 New Zealand 1 Sweden 1 USA 39(2 from South Korea, 3 from UAE, 1 from Spain, 2 from Qatar, 3 from India, 1 from Kenya, 1 from Argentina, 2 from France, 1 from Turkey))

First: EPI_ISL_19053000, 2024-3-4, USA
Latest: EPI_ISL_19093642, 2024-4-24, USA from UAE

Query for S:A475V branch(by @HynnSpylor): C22986T,C28714T

usher

Most of the seqs have C28714T, but some has 28714C, suggesting the correct path shall be KP.2.3->S:31del->C28714T and C28714T is only a main branch.

[aviczhl2]

+39 from Singapore in 5/6 batch.

[FedeGueli]

the S:A475V branch spotted by @HynnSpylor is now 4 sequences ( 3 countries)

Query:C22986T,C28714T
Tree:

https://nextstrain.org/fetch/genome-test.gi.ucsc.edu/trash/ct/subtreeAuspice1_genome_test_65848_958500.json?label=id:node_6980650

[HynnSpylor]

Ah sorry I just saw the proposal! I'll close my proposal in sars-cov-2 forum

[FedeGueli]

Thx @HynnSpylor , @aviczhl2 add credits for the subbranch please

[FedeGueli]

114

[FedeGueli]

@aviczhl2 i bring to your attention this slighty misplaced sequence EPI_ISL_19107679 that has the S:S31del:

https://nextstrain.org/fetch/genome.ucsc.edu/trash/ct/subtreeAuspice1_genome_23942_9f1cc0.json?label=id:node_11435321

It has S:T573I so maybe worth keeping it in mind if more of this will pop up

[HynnSpylor]

5th S:A475V seq in Italy (detected in US International Airport)

[FedeGueli]

5th S:A475V seq in Italy (detected in US International Airport)

Thx!!

[aviczhl2]

148, Ireland, Portugal

[aviczhl2]

The A475V branch is designated KP.2.3.1. This one cannot be designated now.