XBB.1.5.18 with spike muts Q675K and F456L (44 seqs, UK and Portugal)

[BorisUitham]

GISAID query: spike_q675k, spike_f456l
First sequence: 27-02-2023
Most recent sequence: 27-03-2023

USHER tree: (first zoomed in on subbranch of xbb.1.5.18, second is from root of xbb.1.5.18)


https://nextstrain.org/fetch/genome.ucsc.edu/trash/ct/subtreeAuspice1_genome_2423f_fdef30.json?c=gt-S_456
675K has had some mild success in other xbb.1.5 lineages, nothing too crazy though. The mutation site has however been designated before with 675H in EL.1.
F456L is present in the designated XBB.1.5.10. The mutations have not yet been together before. In that issue, the decreased ace2 affinity has been discussed, it still managed to reach 339 sequences. #1614
F456L is also trending upwards in general over the last half year, reaching 1% globally and as high as 30-40% in brazil (where there is another xbb.1.5.18 with F456L, but without the Q675K and maybe unrelated to this one) https://cov-spectrum.org/explore/World/AllSamples/AllTimes/variants?aaMutations=s%3A456l&
Currently all sequences come from the UK, but from different labs and spanning across one month. Perhaps monitor for a while for spread.

Covspectrum (xbb.1.5.18 + Q675K): https://cov-spectrum.org/explore/World/AllSamples/Past6M/variants?aaMutations=s%3A675k&nextcladePangoLineage=xbb.1.5.18*&aaMutations1=S%3Af456L%2Cs%3A675k&nextcladePangoLineage1=xbb.1.5.18*&
Covspectrum (xbb.1.5.18 + Q675K + F456L): https://cov-spectrum.org/explore/World/AllSamples/Past6M/variants?aaMutations=s%3A675k%2Cs%3A456l&nextcladePangoLineage=xbb.1.5.18*&aaMutations1=S%3Af456L%2Cs%3A675k&nextcladePangoLineage1=xbb.1.5.18*&

EPI:
EPI_ISL_17178847, EPI_ISL_17179037, EPI_ISL_17179130,
EPI_ISL_17210195, EPI_ISL_17267562, EPI_ISL_17284241,
EPI_ISL_17284584, EPI_ISL_17298483, EPI_ISL_17359825-17359826,
EPI_ISL_17359906, EPI_ISL_17359982, EPI_ISL_17359988,
EPI_ISL_17360033, EPI_ISL_17372899, EPI_ISL_17372927,
EPI_ISL_17372947, EPI_ISL_17373052, EPI_ISL_17373054,
EPI_ISL_17381791, EPI_ISL_17382468, EPI_ISL_17400433,
EPI_ISL_17400495, EPI_ISL_17400528

[BorisUitham]

44 sequences now. Still mostly england. I'll monitor it for a week more and then i'll close the issue if theres not significant spread.

[BorisUitham]

I'm moving this over to the other lineage repo. Uploads are very inconsistent and jumpy. I will reopen this issue if anything happens
sars-cov-2-variants/lineage-proposals#29