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XBB.1.12 (S:Y453F) sublineage gained S:Q613H and S:E1202Q being able to spread in 7 countries / 4 continents /13 seqs #336

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FedeGueli opened this issue Jul 5, 2023 · 1 comment
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XBB.1.12 (S:Y453F) sublineage gained S:Q613H and S:E1202Q being able to spread in 7 countries / 4 continents /13 seqs #336

FedeGueli opened this issue Jul 5, 2023 · 1 comment
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designated S:453

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@FedeGueli
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While routinely checking S:Y453F carrying sequences i spotted this small but internationally spread sublineage of XBB.1.12 .

Defining mutations: XBB.1.12 > ORF1a:T614I (C2106T) > S:Q613H (G23401T) , S:E1202Q (G25166C)

Gisaid query: C2106T,23401T,G25166C

Samples: 10
USA/PA-CDC-QDX48587007/2023|OQ827085.1|2023-03-29
NewZealand/23XA2056/2023|EPI_ISL_17562288|2023-04-06
Chile/ML-30740/2023|EPI_ISL_17526061|2023-04-11
Chile/RM-ISP-33443/2023|EPI_ISL_17712113|2023-04-21
Spain/CT-HUB08274/2023|EPI_ISL_17722991|2023-05-16
CanaryIslands/HUGCDN-04202076/2023|EPI_ISL_17815385|2023-05-24
France/OCC-CHU-TLS-6003896438/2023|EPI_ISL_17812662|2023-05-28
hCoV-19/France/PAC-HCL-023094052101/2023|EPI_ISL_17831185|2023-06-05
France/PAC-HCL-023094052101/2023|EPI_ISL_17831185|2023-06-05
hCoV-19/Scotland/SCOT-31516/2023|EPI_ISL_17953453|2023-06-17
Scotland/SCOT-31516/2023|2023-06-17

Tree:
Schermata 2023-07-05 alle 23 45 31
https://nextstrain.org/fetch/genome.ucsc.edu/trash/ct/subtreeAuspice2_genome_1de9e_5e0b40.json?label=id:node_6598641
@FedeGueli FedeGueli added the S:453 label Jul 6, 2023
@FedeGueli FedeGueli changed the title XBB.1.12 (S:Y453F) sublineage gained S:Q613H and S:E1202Q being able to spread in 8 countries / 4 continents XBB.1.12 (S:Y453F) sublineage gained S:Q613H and S:E1202Q being able to spread in 8 countries / 4 continents /13 seqs Jul 13, 2023
@FedeGueli FedeGueli changed the title XBB.1.12 (S:Y453F) sublineage gained S:Q613H and S:E1202Q being able to spread in 8 countries / 4 continents /13 seqs XBB.1.12 (S:Y453F) sublineage gained S:Q613H and S:E1202Q being able to spread in 7 countries / 4 continents /13 seqs Jul 13, 2023
@FedeGueli
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3 samples from Argentina

FedeGueli referenced this issue in cov-lineages/pango-designation Jul 17, 2023
@corneliusroemer
Designate XBB.1.12.1 (S:Q613H, S:E1202Q, Argentina/Chile/Spain) with …
60c4dd9 
…15 seqs
FedeGueli added a commit to FedeGueli/pango-designation that referenced this issue Jul 17, 2023
@FedeGueli
Update lineage_notes.txt
47b2bc1 
Add issue sars-cov-2-variants/lineage-proposals#198 to XBB.1.42.1
Add issue sars-cov-2-variants/lineage-proposals#336 to XBB.1.12.1
@FedeGueli FedeGueli mentioned this issue Jul 17, 2023
Merged
corneliusroemer pushed a commit to cov-lineages/pango-designation that referenced this issue Jul 17, 2023
@FedeGueli
Update lineage_notes.txt (#2102)
568a2df 
Add issue sars-cov-2-variants/lineage-proposals#198 to XBB.1.42.1
Add issue sars-cov-2-variants/lineage-proposals#336 to XBB.1.12.1
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