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cov-lineages / pango-designation

Repository for suggesting new lineages that should be added to the current scheme
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XBB.1.16 gained S:P521S and S:K147N (37 seqs - 8 countries as 12/07) #2092

Closed FedeGueli closed 1 year ago

FedeGueli commented 1 year ago

Transferred from https://github.com/sars-cov-2-variants/lineage-proposals/issues/374

Thanks to olias120676 double mutations tracker tool that tracks double S mutation in Uk i found this lineage that has two mutations in the spike known to be beneficial.

Defining mutations: XBB.1.16 > C27513T > S:P521S (C23123T), T10756C, T14067C, S:K147N (A22003T)

Gisaid query: C23123T, T10756C, T14067C

Samples:34 First: hCoV-19/Portugal/PT48089/2023 | Original | EPI_ISL_17720216 | 2023-05-15 Last: hCoV-19/USA/NY-GBW-H20-310-6255/2023 | Original | EPI_ISL_17960219 | 2023-06-23 (traveller from Sweden)

DS EPI_ISL_17720216, EPI_ISL_17780601, EPI_ISL_17787041, EPI_ISL_17791824, EPI_ISL_17791888, EPI_ISL_17808963, EPI_ISL_17816718, EPI_ISL_17826679, EPI_ISL_17856646, EPI_ISL_17880986, EPI_ISL_17885012, EPI_ISL_17960180, EPI_ISL_17960219, EPI_ISL_17960274, EPI_ISL_17960308, EPI_ISL_17960318, EPI_ISL_17970759

Countries: 8 (Wales, England, Us, Ireland, Portugal, Netherlands, Austria SOuth Korea

Tree: Schermata 2023-07-12 alle 16 50 51 https://nextstrain.org/fetch/genome.ucsc.edu/trash/ct/subtreeAuspice1_genome_285b7_ebd190.json?label=id:node_10536614

ryhisner commented 1 year ago

In addition to the 16 sequences uploaded today from Wales, there are now three sequences from Ireland. Collection dates June 25, 27, 29. EPI_ISL_17980963, EPI_ISL_17980964, EPI_ISL_17980967

FedeGueli commented 1 year ago

Thx @ryhisner it seems fast

corneliusroemer commented 1 year ago

C27513T was also on that BA.5.2 branch

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