GITHUB uutiset: Jatkoselvittelyä XBB.1.11.1 linjan alalinjalle , jonka tapaisia on diversiteettinä ehkä runsaasti Indonesiassa

 https://github.com/cov-lineages/pango-designation/issues/2021

 9 h ago

XBB.1.11.1 (S:S486P) Sublineage with S:K478R (87 seq, May 20)—first proposed by @FedeGueli #2021

transferred from pre-Proposal page Issue 66 sars-cov-2-variants/lineage-proposals#66

Note: A sub-branch of this lineage was previously proposed by @FedeGueli, but after a subsequent rearrangement of the Usher tree, I made the following proposal, not realizing it contained within it the branch proposed earlier.

Description
Sub-lineage of: XBB.1.11.1
Earliest sequence: 2023-2-2, Indonesia — EPI_ISL_17012209
Most recent sequence: 2023-5-2, Indonesia — EPI_ISL_17655098
Countries circulating: Indonesia (29), Malaysia (7), England (3) South Korea (1), Australia (1), Spain (1), Japan (1)
Number of Sequences: 43
GISAID Nucleotide Query: C13968A, G16377A, C22995G, T23018C
CovSpectrum Query: Nextcladepangolineage:XBB.1.11.1* & S:K478R
Substitutions on top of XBB.1.11.1:
Spike: K478R
Nucleotide: A22995G

USHER Tree (The tree below excludes several sequences with multiple artifactual reversions, so all the longer branches below consist of real mutations.) (Figure)

 Evidence
This lineages seems to be most in Indonesia, a country of about 275 million people from which we don't get very many sequences. It is also prominent in Malaysia. The base lineage can't be growing particularly fast or it would be more widespread internationally by now, but there's a great deal of diversity here, including a sizable branch with S:F186S and four additional AA mutations. This branch includes the most recently collected sequence (May 2) and first appeared on March 10 in Indonesia.

@ryhisner i think now that thing has been resolved with the saltation sublineage being moved to another tree:
(see my pango proposal:
#2012)

(Figure)

In the same tree your one is the one in the middle coloured for F/R