LF.3.1 sub-branch with S:D745A (69 Seqs, 12 countries, 4 of them in South America)

[FedeGueli]

This is the sibling lineage of LF.3.1.1 previously described as Branch 2 in https://github.com/sars-cov-2-variants/lineage-proposals/issues/1558. It is still a small lineage but having been sampled in or from three South American countries this could be quite widespread LF.3.1 [Jn.1.16.1> C5581A, C7594T, Orf1a:A4285V (C13119T) > S:V>H445P ( T>A22896C)] > S:D745A (A23796C) Query: T22896C,A23796C,T3565C Samples: 20 Countries : 6 (including : Peru', Colombia, Ecuador) IDs: EPI_ISL_19101707, EPI_ISL_19135408, EPI_ISL_19136576, EPI_ISL_19148755, EPI_ISL_19195661, EPI_ISL_19195708, EPI_ISL_19195728, EPI_ISL_19210403, EPI_ISL_19221376, EPI_ISL_19253469, EPI_ISL_19259535, EPI_ISL_19260233, EPI_ISL_19262880, EPI_ISL_19262909, EPI_ISL_19269271, EPI_ISL_19271577, EPI_ISL_19273633, EPI_ISL_19273850, EPI_ISL_19279807, EPI_ISL_19280173

Tree:

https://nextstrain.org/fetch/genome-test.gi.ucsc.edu/trash/ct/subtreeAuspice18_genome_test_abdd_fdb2d0.json?label=id:node_7206124

[ryhisner]

There were four sequences from New Zealand uploaded yesterday with S:D745E, and of course there's MK.1 (KP.3.1.6.1) that has S:D745G. This is looking like it could be a new site for convergent mutations.

[FedeGueli]

still around now at 26

[aviczhl2]

58 seqs now. It seems prevalent in Peru in Apr and May (seqs recently uploaded)

[FedeGueli]

Thx!

[aviczhl2]

67 After adding another Peru/Chile batch

[FedeGueli]

69 now with samples coming from Chile, new country the 4th in South America. To be noticed thast one GBW sample is from India.