BA.5.2.24 with S:N460K (T22942A) and Orf7a:T39I - 100 sequences (Austria, Greece, England, Singapore,Germany,Australia,Spain, Usa, Switzerland , Canada)

[FedeGueli]

From #1089 here i want to propose the second of apparent sublineages of BA.5.2.24 which have acquired S:N460K

This potential sublineage has been already sampled in three different countries: Austria (EPI_ISL_15109578), England (PHEC-YYG56SA/2022) Greece (EPI_ISL_15110912)

it is defined by an Orf7a:T39I mutation that comes just before the S:N460K ( interestingly this AA substitution comes from T22942A as BQ.1*)
covspectrum query : BA.5.2* (Nextclade) + T22942A + S:K444N, ORF7a:T39I
catches zero sequences being all very recent ones
https://cov-spectrum.org/explore/World/AllSamples/Past6M/variants?aaMutations=S%3A444N%2COrf7a%3AT39I&nucMutations=T22942A&nextcladePangoLineage=BA.5.2*&aaMutations1=S%3A153I%2CS%3A1258Q%2CN%3A151L&

Edited

Gisaid query -NSP2_Q376K,NS7a_T39I,Spike_N460K,Spike_K444N finds all the three sequences

Here the tree as requested by @corneliusroemer :

https://nextstrain.org/fetch/genome.ucsc.edu/trash/ct/subtreeAuspice1_genome_14417_1ac6e0.json?branchLabel=aa%20mutations&c=pango_lineage_usher&label=nuc%20mutations:C27509T

Note that it is very close to the other BA.5.2.24 + S:460K that there is instead T22942G

[corneliusroemer]

Do you have an Usher link for this one?

Is BA.5.2.24 defined as having S:K444N already?

[FedeGueli]

yes BA.5.2.24 has S:444N as defining.

the tree is ready @corneliusroemer :edited in the main post.

[FedeGueli]

one more sample of this one, a local case in Singapore.EPI_ISL_15209081

[FedeGueli]

6 sequences as today one more from England and one from Germany
(query : -NSP2_Q376K,NS7a_T39I,Spike_N460K,Spike_K444N)

[corneliusroemer]

Bit slow growth, wouldn't designate at this point