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sars-cov-2-variants / lineage-proposals

Repository to propose and discuss lineages
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KP.3.1.1 with S:T430I (30 seqs, Canada) #2020

Closed NkRMnZr closed 1 month ago

NkRMnZr commented 2 months ago

Defining Mutations: KP.3.1.1 > T10561C, C22851T(S:T430I) Query: T10561C, C22851T Earliest seq: 24-07-31 (EPI_ISL_19346148, British Columbia, Canada) Latest seq: 24-09-03 (EPI_ISL_19393560, Ontario, Canada) Sampled Countries: Canada (14: ON/10, BC/3; AB)

Genomes: for `lineages.csv` commit: ``` Canada/AB-ABPHL-122026/2024 Canada/BC-BCCDC-726197/2024 Canada/BC-BCCDC-727138/2024 Canada/BC-BCCDC-728229/2024 Canada/ON-KHS-04112-v1/2024 Canada/ON-KHS-04194-v2/2024 Canada/ON-KHS-04201-v2/2024 Canada/ON-PHL-202412824/2024 Canada/ON-PHL-202412825/2024 Canada/ON-PHL-202412826/2024 Canada/ON-PHL-202412839/2024 Canada/ON-PHL-202412976/2024 Canada/ON-PHL-202413006/2024 Canada/ON-PHL-202413007/2024 ``` epi_isl accessions: `EPI_ISL_19346148, EPI_ISL_19364840, EPI_ISL_19365006, EPI_ISL_19375133, EPI_ISL_19380407, EPI_ISL_19389524-19389526, EPI_ISL_19389539, EPI_ISL_19389667, EPI_ISL_19389696-19389697, EPI_ISL_19393553, EPI_ISL_19393560`

UShER: https://nextstrain.org/fetch/genome.ucsc.edu/trash/ct/subtreeAuspice1_genome_210d2_287d40.json?label=id:node_7128639 image

FedeGueli commented 2 months ago

A RBD mutation seems an event as of today so worth checking it will not exit from its clkuster only dimension

FedeGueli commented 1 month ago

21 still Canada only

FedeGueli commented 1 month ago

30 it entered a second cluster in British Columbia

NkRMnZr commented 1 month ago

now it has at least 2 clusters in Canada: ON, BC; 1 seq from AB, Canada; 1 seq from IL, USA without T10561C is also pulled together

FedeGueli commented 1 month ago

no recent samples closing it