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XBB.1.16.2 sublineage with S:N450K (17 seqs in 4 countries, mainly in Laos and Japan) #345

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HynnSpylor opened this issue Jul 6, 2023 · 3 comments

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@HynnSpylor
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Defining mutations: XBB.1.16.2> T22912G (S:N450K), C29095T
GISAID query: G25429C, T22912G, C29095T
Earliest seq: 2023-05-13 (Laos, EPI_ISL_17785487)
Most recent seq: 2023-06-27 (Laos, EPI_ISL_17964615)
Countries detected: Laos (6), Japan (1), Singapore (1)

Usher Tree:
QQ截图20230707015043
https://nextstrain.org/fetch/genome.ucsc.edu/trash/ct/subtreeAuspice1_genome_27774_6f70e0.json

Another choice for S:N450 (as S:N450D in BA.2.3.20* and S:N450I in FL.4.1).
The fitness calculation shows the fitness :N450D>N450K>N450N (wild type)>N450I (Bloom and Neher, 2023)

Genomes:
EPI_ISL_17720755, EPI_ISL_17785487, EPI_ISL_17790173, EPI_ISL_17883545, EPI_ISL_17964614-17964615, EPI_ISL_17964620,
EPI_ISL_17964625

@FedeGueli FedeGueli added the S:450 label Jul 6, 2023
@FedeGueli
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Curious to.know how it goes, i have tracked some songlet in the past that didnt do so much. Thx for spotting.

@HynnSpylor
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one more seq from Yunnan Province, China (Notice that Yunnan Province is bordered with Laos)

@HynnSpylor HynnSpylor changed the title XBB.1.16.2 sublineage with S:N450K (8 seqs in 3 countries, mainly in Laos) XBB.1.16.2 sublineage with S:N450K (9 seqs in 4 countries, mainly in Laos) Jul 9, 2023
@HynnSpylor
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4 more seqs updated from Japan

@HynnSpylor HynnSpylor changed the title XBB.1.16.2 sublineage with S:N450K (9 seqs in 4 countries, mainly in Laos) XBB.1.16.2 sublineage with S:N450K (13 seqs in 4 countries, mainly in Laos and Japan) Jul 19, 2023
@FedeGueli FedeGueli added this to the GY.4 milestone Jul 19, 2023
@FedeGueli FedeGueli changed the title XBB.1.16.2 sublineage with S:N450K (13 seqs in 4 countries, mainly in Laos and Japan) XBB.1.16.2 sublineage with S:N450K (17 seqs in 4 countries, mainly in Laos and Japan) Aug 5, 2023
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