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Designate HZ.1 (XBB.1.5.68.1, S:K478R, USA, 150 seqs), HZ.2 (ORF1a:H3…
…580Y), HZ.3 (ORF1a:I3693T)
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From sars-cov-2-variants/lineage-proposals#514
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CC @corneliusroemer @AngieHinrichs the bottom branch of HZ.2 seems to come from a recombination with a sublineage of BA.5.3.1: there were 13K sequence of BA.5.3.1* with G28681T, T28693C
here is the tree:
The recombination BP is likely after Orf8:G8* from XBB.1.5.68 and before A28108T - ORF8:Q72L (common to both HZ.1 and HZ.2 but absent in the HZ.2 putative recombinant)
Should i propose it ? Do you think it is worth to get an X name ? althought quite big it is now decreasing and not expanding
Gisaid query : G28681T, T28693C, C11003T, T10721C
146 samples on Gisaid
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Ah, great observation @FedeGueli! Yes, the loss of A28108T (ORF8:Q72L) on that branch is very confusing for UShER, and it was confusing me as well. 😄 At the moment UShER/matOptimize is placing HZ.1 as a child of HZ.2 with a reversion on 11003 (ORF1ab:3580), instead of as a sibling -- but it would be better if the tree had A28018T before the HZ.1/HZ.2 split and then C11003T only on HZ.2, with a reversion on 28018 for HZ.2's recombinant branch!
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Thank you Angie , (also my usher tree was unrelated sorry) that would be wonderful to get ( sincerely i didnt notice the HZ.1 reversion!).
cc @corneliusroemer should i open an issue or you or Angie will manage it directly if worth?