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XBB.1.34.2 sublineage with S:F456L (T22928C)(14 seqs, including a small saltation branch with S:K478R and S:E554Q) #217

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HynnSpylor opened this issue Jun 19, 2023 · 4 comments
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XBB.1.34.2 sublineage with S:F456L (T22928C)(14 seqs, including a small saltation branch with S:K478R and S:E554Q) #217

HynnSpylor opened this issue Jun 19, 2023 · 4 comments
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Convergent evolution Lineages with convergent mutations designated To be proposed Green light for proposal
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HB.1

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@HynnSpylor
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HynnSpylor commented Jun 19, 2023 •
edited by FedeGueli

Defining mutations: XBB.1.34.2>C21998A(S:Q146K)>T22928C(S:F456L)

GISAID query: Spike_P681R, Spike_K182I, Spike_F456L, Spike_F486P
Nuc Query: T22928C, G3230T , A22107T (EDITED)
Earliest seq: 2023-04-25 (USA, EPI_ISL_17705477)
Most recent seq: 2023-06-06 (Austria, EPI_ISL_17810634)
Countries detected: USA (3), Austria (2), Israel (2), China (1)
A small saltation in Israel (2 seqs) with: G3056A (ORF1a:E931K), C3828T(ORF1a:S1188L), C19029T, A22995G (S:K478R), G23222C (S:E554Q), C29095T
Usher Tree: Notice that one sample is on another branch.

QQ截图20230619174615
https://nextstrain.org/fetch/genome.ucsc.edu/trash/ct/subtreeAuspice1_genome_386b_22170.json?c=gt-S_456

Recently S:F456L is one of the most popular Spike mutations. The sublineage deserves further tracking despite it is small now.

Genomes:
EPI_ISL_17664620, EPI_ISL_17705477, EPI_ISL_17707041, EPI_ISL_17788904, EPI_ISL_17803559, EPI_ISL_17803730, EPI_ISL_17810624, EPI_ISL_17810631
@FedeGueli FedeGueli added the Convergent evolution Lineages with convergent mutations label Jun 19, 2023
@HynnSpylor
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2 seqs from Canada

@HynnSpylor HynnSpylor changed the title XBB.1.34.2 sublineage with S:F456L (8 seqs, including a small saltation branch with S:K478R and S:E554Q) XBB.1.34.2 sublineage with S:F456L (10 seqs, including a small saltation branch with S:K478R and S:E554Q) Jun 19, 2023
@FedeGueli FedeGueli changed the title XBB.1.34.2 sublineage with S:F456L (10 seqs, including a small saltation branch with S:K478R and S:E554Q) XBB.1.34.2 sublineage with S:F456L (T22928C)(10 seqs, including a small saltation branch with S:K478R and S:E554Q) Jun 19, 2023
@FedeGueli
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Great catch also the one from Sichuan has S:T478R

@NkRMnZr NkRMnZr mentioned this issue Jun 26, 2023
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@HynnSpylor
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2 more seqs from Austria and US

@HynnSpylor HynnSpylor changed the title XBB.1.34.2 sublineage with S:F456L (T22928C)(10 seqs, including a small saltation branch with S:K478R and S:E554Q) XBB.1.34.2 sublineage with S:F456L (T22928C)(12 seqs, including a small saltation branch with S:K478R and S:E554Q) Jun 27, 2023
@FedeGueli FedeGueli changed the title XBB.1.34.2 sublineage with S:F456L (T22928C)(12 seqs, including a small saltation branch with S:K478R and S:E554Q) XBB.1.34.2 sublineage with S:F456L (T22928C)(14 seqs, including a small saltation branch with S:K478R and S:E554Q) Jun 27, 2023
@FedeGueli
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3 more sequence from California and Arizona.

I would not wait further and i would like you to propose this one.

@FedeGueli FedeGueli added the To be proposed Green light for proposal label Jun 27, 2023
@Over-There-Is Over-There-Is mentioned this issue Jun 30, 2023
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@aviczhl2 aviczhl2 added this to the HB.1 milestone Dec 17, 2023
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