XBB.2.7 + S:T478Q and S:Y453F after Orf1a:E250D. 11 sequences India, England, Denmark, Singapore and Scotland

[FedeGueli]

I was routinely checking S:Y453F when i found this little sublineage of XBB.2 with some further AA substitutions.

Defining mutations:
XBB.2 > > orf1a:R3662H (G11250A )> Orf1a:E250D (A1015C), C20316T > C12400T, S:Y453F (A22920T), S:T478Q (A22994C) >

Usher tree:

https://nextstrain.org/fetch/genome.ucsc.edu/trash/ct/subtreeAuspice3_genome_29bcb_36bf80.json?c=gt-S_453,478&label=id:node_7740829

CovSpectrum &Gisaid Query: Spike_T478Q,Spike_Y453F

Sequences: 7 ( First ones from India Kerala and Karnataka, last from Denmark)
EPI_ISL_16737817, EPI_ISL_16847536, EPI_ISL_16847543,
EPI_ISL_16888187, EPI_ISL_17017523, EPI_ISL_17048560,
EPI_ISL_17048580

Composite fitness predicted by Nextclade is very high, as expected for increased binding by S:Y453F

[FedeGueli]

2 new sequences from Scotland uploaded today.

[ryhisner]

And both with the T-cell-escape mutation S:P272L.

[FedeGueli]

Thx @ryhisner didnt give a deep look at them, but luckily there are you!

[FedeGueli]

Sorry it was mistakenly closed by me

[corneliusroemer]

Yep, I've also noticed this one. Thanks for tracking. I think the best is to designate the parent polytomy for now while it's so slow. That helps tracking.

[FedeGueli]

11 sequences as today. it doesnt seem to compete with 486P stuff.

[corneliusroemer]

Designated the parent branch as XBB.2.7