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MG.3/KP.2.2 recombinant(5 seqs, 3 countries) #2134

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xz-keg opened this issue Oct 8, 2024 · 5 comments
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MG.3/KP.2.2 recombinant(5 seqs, 3 countries) #2134

xz-keg opened this issue Oct 8, 2024 · 5 comments
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Apparently slow It means that a lineage is accumulating sequences slowly not that it is intrinsically slow. DeFLiRT S:S31/F32-+S:R346T+S:F456L FLiRT FLiRT is an Acronym for S:R346T + S:F456L KP.1.1.1 KP.2.2 recombinant Reversions S:22 S:30 S:31 S:32 s:182 S:478 s:1266

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@xz-keg
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xz-keg commented Oct 8, 2024 •
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#2120--KP.2.2

breakpoint between 22996 and 24818 (S:479 and S:1085)

additional mutations:C6500T, G7042T, C24130T, C27654T,C28717G, T29410G

Orf1a:P2079S,M2259I

T29410G from a KP.2.2 sub-branch.
C6500T, G7042T, C24130T, C27654T,C28717G are private mutations.

This recomb keeps the DeFLiRT combo and the S:T22N, K478T combo and S:K182N, and exchanges the S:K1086R of KP.1 for S:K1266R from KP.2.2.

GISAID query: T29410G, A25359G, A6124G
No. of seqs: 4( USA 2(GBW from UK) UK 1 China 1(Hong Kong))

First:EPI_ISL_19447621, England, 2024-9-10
Latest: EPI_ISL_19461123, USA from UK, 2024-9-26

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@xz-keg xz-keg mentioned this issue Oct 8, 2024
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@FedeGueli
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Very interesting one. I saw on nextclade it but i thought it was the other KP.1.1.1 recombinant well done to get it!

@FedeGueli
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FedeGueli commented Oct 8, 2024 •
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ping @corneliusroemer we are many spike muts from vanilla JN.1

@xz-keg
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xz-keg commented Oct 21, 2024

+1 Scotland(previously in England)

@xz-keg xz-keg changed the title #2120(KP.1.1.1+S:T22N,K478T,N30-,S31-,F32I)/KP.2.2 recombinant(4 seqs, 3 countries) #2120(KP.1.1.1+S:T22N,K478T,N30-,S31-,F32I)/KP.2.2 recombinant(5 seqs, 3 countries) Oct 21, 2024
@FedeGueli
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Slow likely

@FedeGueli FedeGueli added the Apparently slow It means that a lineage is accumulating sequences slowly not that it is intrinsically slow. label Nov 4, 2024
@xz-keg
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xz-keg commented Nov 10, 2024

no more seqs

@xz-keg xz-keg closed this as not planned Won't fix, can't repro, duplicate, stale Nov 10, 2024
@xz-keg xz-keg changed the title #2120(KP.1.1.1+S:T22N,K478T,N30-,S31-,F32I)/KP.2.2 recombinant(5 seqs, 3 countries) MG.3/KP.2.2 recombinant(5 seqs, 3 countries) Nov 13, 2024
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Apparently slow It means that a lineage is accumulating sequences slowly not that it is intrinsically slow. DeFLiRT S:S31/F32-+S:R346T+S:F456L FLiRT FLiRT is an Acronym for S:R346T + S:F456L KP.1.1.1 KP.2.2 recombinant Reversions S:22 S:30 S:31 S:32 s:182 S:478 s:1266
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