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Triple spike mutations S:K182E,S:V551I,S:E554K for a saltation XBB.1.16 sublineage emerging in MH, India (20 seqs , 4 countries - Prevalence 15% in MH,India after July 1)) update Sept 1 #2223
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1 more seq in Singapore (the 3rd detected country) |
One more very recent sample from Australia: 2 exportations (collection date) in the last ten days make me thinking this is quite growing or already prevalent in India). cc @HynnSpylor i modified the query to catch them all. Ping @corneliusroemer something under the radar in India. |
Another big jump for this one all sequences from MH India . 15% its prevalence there in August. ping @corneliusroemer |
Transferred from sars-cov-2-variants/lineage-proposals#672
Defining mutations:
XBB.1.16 >> > C29386T > A25410G > Orf1a:P748L (T2242C),Orf1a:E972K (C2508T), G3179A, S:K182E (A22106G), S:V551I (G23213A), S:E554K (G23222A)
Gisaid query: G3179A, C2508T (NEW)
Samples: 12 from India (11= 9,MH + 2 GJ)) , Pennsylvania.,Us (1)
First from MH collected on 2023-04-28 (There is a sample from 01/08 bit is for sure a date input error)
Last from MH collected on 2023-08-12
IDs:
EPI_ISL_17686342, EPI_ISL_17978171, EPI_ISL_18094379,
EPI_ISL_18094384-18094385, EPI_ISL_18120269, EPI_ISL_18120320,
EPI_ISL_18121354, EPI_ISL_18128324-18128325, EPI_ISL_18136389,
EPI_ISL_18136391
Tree:
https://nextstrain.org/fetch/genome-test.gi.ucsc.edu/trash/ct/subtreeAuspice1_genome_test_5cf3f_bdb180.json?label=id:node_6841457
Prevalence:
It represents 6 out of 46 samples collected in MH after July 1 so if this could represent a fair enough amount of infections in the real world.
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