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BF.31.1/BQ.1.10* Recombinant (>55 seq, Apr 13) #1668
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First sequence of this recombinant from Europe was uploaded today from France. EPI_ISL_17383910 |
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Added new recombinant lineage XCB from #1668 with 46 new sequence designations, and 0 updated
Thanks for submitting. We've added recombinant lineage XCB with 46 newly designated sequences, and 0 updated. Defining mutations A11126G (ORF1a:M3621V), G12311A (ORF1a:A4016T), C14724T, G18651A, T22348A, C27600T, T28282C (following T22942A (S:N460K)). |
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Description
Earliest sequence: 2022-12-28, Chile, Nuble — EPI_ISL_16743083
Most recent sequence: 2023-2-2, Chile, Nuble — EPI_ISL_16942046, EPI_ISL_16942049, EPI_ISL_16942050
Countries circulating: Chile (all 21)
Number of Sequences: 12
GISAID Query: NSP8_A74T, Spike_S247N, Spike_Y248del, Spike_N460K, Spike_K444T
GISAID Nucleotide Query: G12311A, T22348A
CovSpectrum Query: [4-of: A11126G, G12311A, T22348A, C27600T, T28282C]
Substitutions on top of BF.31.1/BQ.1.10:
ORF1a: M3621V, A4016T
Nucleotide: A11126G, G12311A, T22348A, T28282C
Breakpoint: Between 22304 and 22893 (S:248 and S:444)
USHER Tree
https://nextstrain.org/fetch/raw.githubusercontent.com/ryhisner/jsons/main/BF.31.1%2CBQ.1_21seq_subtreeAuspice1_genome_43e16_1610.json
Evidence
![image](https://user-images.githubusercontent.com/33738461/219818818-6bc1a2d2-55da-4d17-925a-75d7f3af7686.png)
Pretty clear breakpoint somewhere in 22304-22893. In addition to ORF1a:M3621V and ORF1a:A4016T, 14/21 sequences have S:A262S. Peculiarly, two of the three nucleotides at S:262 are mutated, including the synonymous mutation T22348A, which has only appeared in 41 other sequences in the last six months.
The presence of C26700T, along with the relatively high prevalence of BQ.1.10 in Chile is what makes me think the 3' end of this recombinant comes from BQ.1.10.
Genomes
Genomes
EPI_ISL_16654149, EPI_ISL_16660713, EPI_ISL_16740976, EPI_ISL_16741051, EPI_ISL_16741053, EPI_ISL_16743083, EPI_ISL_16761006, EPI_ISL_16833908, EPI_ISL_16833909, EPI_ISL_16833913-16833914, EPI_ISL_16847302, EPI_ISL_16847304-16847306, EPI_ISL_16935366, EPI_ISL_16935367, EPI_ISL_16935369, EPI_ISL_16942046, EPI_ISL_16942049, EPI_ISL_16942050The text was updated successfully, but these errors were encountered: