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XCQ: Another XBB.2.3 and XBB.1.5 recombinant, with S:T732I (79 seqs, mainly in Guatemala, 8 countries) #2289
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Tracking updates: 09-23, 5 seqs from Canada and Guatemala 09-29, 19 seqs from Belgium, Canada, Italy and USAhttps://nextstrain.org/fetch/genome-test.gi.ucsc.edu/trash/ct/subtreeAuspice1_genome_test_98c_688710.json?f_userOrOld=uploaded%20sample&label=id:node_7323805
10-08, 11 seqs from Canada, Spain and USAhttps://nextstrain.org/fetch/genome.ucsc.edu/trash/ct/subtreeAuspice1_genome_9d4_2c7c20.json?f_userOrOld=uploaded%20sample&label=id:node_3874558
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I am putting XCQ here, to see if that would help with searching GItHub for it. And maybe the designated name could be put in the title as well? I think that will make searching for things a lot easier. |
Yes, it helps! Now I can find it with searching for 'XCQ', while before my comment, it wasn't found. |
Transferred from sars-cov-2-variants/lineage-proposals#711, it's a different recombinant to sars-cov-2-variants/lineage-proposals#604
Query:
A13187G, C22388T, C23757T
(if considering potentialORF1a:G2091S
dropout)Earliest seq: 2023-06-30 (
EPI_ISL_18080753
, California, USA)Latest seq: 2023-09-03 (
EPI_ISL_18258876
, Liège, Belgium)Sampled Countries: Guatemala (21), USA (12, Many with foreign travel history), Spain (3), Belgium (6), Mexico (1), UK (1: England)
Recombinant Profile:
XBB.2.3
> T27431C_reversion(ORF7a:V13A_reversion) > T29706G_reversion >A13187G(ORF1a:I4308V/nsp10_I55V), C22388T, C23757T(S:T732I)
>G6536A(ORF1a:G2091S)
>G27915T(ORF8:G8*)
nuc 23123/spike_521
tonuc 27431/ORF7a_13
ORF8:G8*
and withoutORF9:I5T
, most likely XBB.1.5, downsteram from breakpoint to 3' end.ORF1a:I4308V
,C22388T
,S:T732I
Genomes:
EPI_ISL_17954534, EPI_ISL_17954569, EPI_ISL_17982568, EPI_ISL_17982581, EPI_ISL_17982586, EPI_ISL_18011156, EPI_ISL_18023025, EPI_ISL_18037651, EPI_ISL_18080753, EPI_ISL_18081441, EPI_ISL_18090453, EPI_ISL_18094954, EPI_ISL_18099400, EPI_ISL_18099404, EPI_ISL_18099406, EPI_ISL_18099415, EPI_ISL_18099422, EPI_ISL_18099424, EPI_ISL_18099433, EPI_ISL_18104413, EPI_ISL_18118410, EPI_ISL_18136401, EPI_ISL_18137317, EPI_ISL_18138518, EPI_ISL_18139698, EPI_ISL_18139701, EPI_ISL_18139731, EPI_ISL_18139754, EPI_ISL_18139756, EPI_ISL_18144338, EPI_ISL_18163511, EPI_ISL_18163519, EPI_ISL_18163522, EPI_ISL_18163581, EPI_ISL_18168281-18168282, EPI_ISL_18227406, EPI_ISL_18234086, EPI_ISL_18243314, EPI_ISL_18252808, EPI_ISL_18258869, EPI_ISL_18258871, EPI_ISL_18258876, EPI_ISL_18260691
UShER:
https://nextstrain.org/fetch/genome.ucsc.edu/trash/ct/subtreeAuspice1_genome_9fd0_844560.json?label=id:node_7422389
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