DV.7.1 / XBB.1.16 recombinant (19 seqs : Canada, California)

[corneliusroemer]

Breakpoint in RBD, 5' is DV.7.1, 3' is XBB.1.16

https://nextstrain.org/fetch/genome-test.gi.ucsc.edu/trash/ct/subtreeAuspice1_genome_test_2b165_307a70.json?s=USA/CA-HLX-STM-KT4WHJEUM/2023%7CEPI_ISL_18637220%7C

USA/CA-HLX-STM-KT4WHJEUM/2023|EPI_ISL_18637220|2023-11-08
Canada/ON-KHS-09109-v1/2023|EPI_ISL_18615089|2023-12-01
hCoV-19/Canada/ON-KHS-09290-v1/2023|EPI_ISL_18653743|2023-12-05
hCoV-19/Canada/ON-KHS-09425-v1/2023|EPI_ISL_18653838|2023-12-08

Query: A28447G, C2227T,T28297C,A19886G ,-A2280C, -C10645T(edited)

[krosa1910]

Does it really appear to break exactly between FLip and T478R? That would be a surprise for how well that happened.

[krosa1910]

Do you think those earlier seqs are part of it? Link: https://nextstrain.org/fetch/genome.ucsc.edu/trash/ct/singleSubtreeAuspice_genome_3a86c_3fa770.json?f_userOrOld=uploaded%20sample&gt=S.486P&label=id:node_1271561

[FedeGueli]

Interestingly the danish sample was proposed by @c19850727 back in August in https://github.com/sars-cov-2-variants/lineage-proposals/issues/718

[FedeGueli]

Added a query for this : A28447G, C2227T,T28297C,A19886G ,-A2280C, -C10645T

[xz-keg]

+1 Canada.

Shall be XBB.1.16.6 due to 23986?

[xz-keg]

9 seqs now

[FedeGueli]

+1 Canada first from 2024

[Sinickle]

+4 from Canada today. 14 total now.

[FedeGueli]

15

[FedeGueli]

long time since last sample closing it

[xz-keg]

19 seqs now

3 new ones come from 2024-3 spotted by @ryhisner

[FedeGueli]

Thx @aviczhl2

[DailyCovidCases]

No new seqs

[FedeGueli]

closing this