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XBB.2.3.18 (S:F456L ) with S:N450D (21) #738

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FedeGueli opened this issue Sep 3, 2023 · 0 comments
Closed

XBB.2.3.18 (S:F456L ) with S:N450D (21) #738

FedeGueli opened this issue Sep 3, 2023 · 0 comments
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designated Emerged in an undersampled area Actual infection toll may be much larger than number of sequences suggest partially designated S:450 S:456
Milestone
XBB.2.3.18

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@FedeGueli
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FedeGueli commented Sep 3, 2023 •
edited

XBB.2.3.18 (T10852C, C27450T > S:F456L (T22930A), Orf7b:H42Y (C27879T)) >
S:N450D (A22910G), S:T1231A (A25253G) , C29296T
Query: T10852C, C27450T,T22930A
Tree:
Usher

Schermata 2023-11-02 alle 11 51 34

Samples: 21
EPI_ISL_17651146, EPI_ISL_17682404, EPI_ISL_18120259,
EPI_ISL_18292241, EPI_ISL_18333748, EPI_ISL_18361990,
EPI_ISL_18367568, EPI_ISL_18370254, EPI_ISL_18379951,
EPI_ISL_18381754, EPI_ISL_18389773, EPI_ISL_18394499,
EPI_ISL_18399635, EPI_ISL_18431008, EPI_ISL_18431026,
EPI_ISL_18431029, EPI_ISL_18431048, EPI_ISL_18451659,
EPI_ISL_18451661, EPI_ISL_18451664, EPI_ISL_18451672,

Original proposal designated XBB.2.3.18

I think it is very important to monitor closely the situation in India, where cases and consequently sequencing went down close to zero, so i would like to highlight this lineage of just three: although two are quite old one is recent and shows further spike mutations.

XBB.2.3.18 (T10852C, C27450T > S:F456L (T22930A), Orf7b:H42Y (C27879T))
Gisaid query: T10852C, C27450T,T22930A

Samples: EPI_ISL_17651146, EPI_ISL_17682404, EPI_ISL_18120259 (with further S:N450D, S:T1231A)
Country Us, India (Kasturba)

Tree:
Schermata 2023-09-03 alle 10 08 19
https://nextstrain.org/fetch/genome.ucsc.edu/trash/ct/subtreeAuspice1_genome_29f5e_43c9b0.json?c=userOrOld&label=id:node_7392094
@FedeGueli FedeGueli added the Emerged in an undersampled area Actual infection toll may be much larger than number of sequences suggest label Sep 15, 2023
Over-There-Is referenced this issue in cov-lineages/pango-designation Oct 15, 2023
@corneliusroemer
Designate XBB.2.3.18 (S:F456L (T22930A), S:N450D, S:1231A, India) wit…
987a9be 
…h 8 seqs
@FedeGueli FedeGueli added this to the XBB.2.3.18 milestone Oct 15, 2023
@FedeGueli FedeGueli changed the title XBB.2.3 plus S:F456L (3) that further gained S:N450D (1) XBB.2.3 plus S:F456L (13) that further gained S:N450D (11) Oct 20, 2023
@FedeGueli FedeGueli changed the title XBB.2.3 plus S:F456L (13) that further gained S:N450D (11) XBB.2.3.18 (S:F456L ) with S:N450D (21) Nov 2, 2023
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designated Emerged in an undersampled area Actual infection toll may be much larger than number of sequences suggest partially designated S:450 S:456
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