JN.11 (BA.2.86.1+S:V1104L)with S:L455S (25 sequences 8 countries)

[aviczhl2]

It seems that there's another BA.2.86+S:V1104L branch likely emerged in SE Asia, with S:L455S it effectively reproduces the current fastest spike of JN.1.11.

BA.2.86.1+G24872T(S:V1104L)

GISAID query:A6183G,G24872T,-27810,-7528,-8456,-A405G No. of seqs: 72(Australia 9 Canada 1 UK 1 France 6 Indonesia 3 Japan 6 Malaysia 1 Singapore 21(1 from Malaysia), South Korea 6 Sweden 1 USA 15(1 from UAE) China 1 Vietnam 1)

First: EPI_ISL_18499092, USA, 2023-10-3 Latest: EPI_ISL_18757342, USA, 2023-1-8

GISAID query for S:L455S branch: A6183G,G24872T,-27810,-7528,-8456,-A405G, ,-T3565C,T22926C (4 seqs, Singapore, Japan, USA)

usher Note that some are on other artefact branches.

[FedeGueli]

+1 Thailand. great catch btw! it appears that S:V1104L is beneficial in BA.2.86 and it is predicted to be good by Bloom/Neher,

While Dadonaite/Bloom predicts it to affect ace2 binding.

[aviczhl2]

+1 USA airport seq on S:L455S branch , origin country unknown.

[aviczhl2]

Let's reopen this to track the S:L455S sub-branch

[aviczhl2]

+1 India for S:L455S branch

[aviczhl2]

There seems to be some JN.1/JN.11 recombinant(with JN.1-5' and JN.11-3'), alter query to exclude them.

Seqs belonging to this branch shall be 8, with countries USA,Japan,Singapore, Vietnam

[FedeGueli]

the 455S branch seems slow

[FedeGueli]

+2 Japan and South Korea

[aviczhl2]

+3 Thailand

[aviczhl2]

+1 China

[FedeGueli]

17 now

[FedeGueli]

Slowed down lets keep this open due to Fujan sample from March for a bit more.

[aviczhl2]

20, GBW from Qatar

[aviczhl2]

Designated JN.11.1 VIA https://github.com/cov-lineages/pango-designation/commit/79d6afbd598fcab0b8955188d4246301c0f721c0