Potential FL.1.5.1 x BQ.1.2.2 Recombinant, Nigeria, Canada and US (9 seqs as of 2023-08-30)

[c19850727]

As preproposed here: sars-cov-2-variants/lineage-proposals#630

Query: T2128C, T18096C, C28163A
Earliest sequence: EPI_ISL_18110467, 2023-07-20, Nigeria
Most recent sequence: EPI_ISL_18126488, 2023-08-08, US-NJ

https://nextstrain.org/fetch/genome.ucsc.edu/trash/ct/subtreeAuspice1_genome_37ef4_94ca10.json?c=gt-nuc_2128&label=id:node_10765449

Breakpoint is likely somewhere between nuc 23665 (spike 701) and 25415 (ORF3a 8). Everything upstream is from a FL.1.5.1 donor, and everything from 25416 to 3' is from BQ.1.2.2 donor.

Unique AA changes donated by BQ.1.2.2: ORF3:255/258del, ORF8:C90stop

Sequences: EPI_ISL_18098706, EPI_ISL_18110467, EPI_ISL_18110470, EPI_ISL_18111443 (low quality), EPI_ISL_18119590, EPI_ISL_18119920, EPI_ISL_18126488

[FedeGueli]

One more sample: EPI_ISL_18138544 collected at NYc JFK airport surveillance on 13/08. No country mentioned in the metadata

[FedeGueli]

https://nextstrain.org/fetch/genome.ucsc.edu/trash/ct/subtreeAuspice1_genome_8406_b92c90.json?c=userOrOld&label=id:node_7111801

@c19850727 this is the last sample: do it belong to the proposed lineage?

[c19850727]

Yes Fede I believe so and thanks!

[c19850727]

One more from Canada-NS, EPI_ISL_18160866

[FedeGueli]

T2128C, T18096C, C28163A

i was just coming here to update! thank you for finding a best query : T2128C, T18096C, C28163A

[JosetteSchoenma]

XCK