KP.3.2.3 with ORF1a:A1508V (nsp3_A690V), S:T286I and S:P793T (18 seqs, Canada, Us, Scotland)

[NkRMnZr]

Defining Mutations: KP.3.2.3 > C4788T(ORF1a:A1508V), C12973T, C12974T, C13965T, C22419T(S:T286I), C23939A(S:P793T)
Query: C4788T, C12974T, C22419T
Earliest seq: 24-05-30 (EPI_ISL_19192816, Alberta, Canada)
Latest seq: 24-06-21 (EPI_ISL_19238555, Alberta, Canada)
Sampled Countries: Canada (10: 9/AB; 1/ON)

Genomes:

for lineages.csv commit:

Canada/AB-ABPHL-118450/2024
Canada/AB-ABPHL-118602/2024
Canada/AB-ABPHL-118734/2024
Canada/AB-ABPHL-118735/2024
Canada/AB-ABPHL-119356/2024
Canada/AB-ABPHL-119561/2024
Canada/AB-ABPHL-119549/2024
Canada/AB-ABPHL-119562/2024
Canada/AB-ABPHL-119666/2024
Canada/ON-PHL-202409338/2024

epi_isl accessions:
EPI_ISL_19192816, EPI_ISL_19211030, EPI_ISL_19211133-19211134, EPI_ISL_19222336, EPI_ISL_19230919, EPI_ISL_19238476, EPI_ISL_19238480-19238481, EPI_ISL_19238555

UShER:
https://nextstrain.org/fetch/genome.ucsc.edu/trash/ct/subtreeAuspice1_genome_28020_983910.json?label=id:node_7005406

Trivia:

• There is another KP.2 proposed sublineage with S:P793S KP.2 with ORF1a:P1803L (nsp3_P985L = PLPro_P240L) and S:P793S (55 seqs, 14~18 countries) #1649, there are about 4.6k samples collected during the whole pandemic with substitution on that codon, and only about 600 samples that has changed to Threonine.
• There're also consecutive C>T SNPs somewhere at the end of nsp_9 happened to be synonymous.
  

[NkRMnZr]

no new seqs

[FedeGueli]

Thanks for proposing S:793 seems convergent although likely not adding much growth.

[FedeGueli]

This is now 18 using a new query ( i ve added to the proposal) : C4788T, C12974T, C22419T
Tree updated as of 8/28

https://nextstrain.org/fetch/genome-test.gi.ucsc.edu/trash/ct/subtreeAuspice1_genome_test_292df_e50ce0.json?label=id:node_7034810

[FedeGueli]

Hence i reopened it, even if it mainly made by clusters from Alberta

[xz-keg]

Dead