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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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LB.1 + S:K478T (rev) + S:E96V emerged in Nepal (11) #2769

Closed FedeGueli closed 2 months ago

FedeGueli commented 2 months ago

Transferred from https://github.com/sars-cov-2-variants/lineage-proposals/issues/1953

There is another LB.1 sublineage different from LB.1.9 that got the uptrending S:K478T reversion. In addition it has S:E96V that has been sampled 1500 times in the course of the pandemic mostly in a sublineage of AY.98 that accounts for 80% of the total S:E96V and in Uk it was faster than basic AY.98

The interesrting thing of this LB.1 is that it comes from Nepal with 3/10 samples being from there

Defining mutations: LB.1> S:K478T (rev A22995C) > G29254A > S:E96V (A21849T) Query: A21849T,G29254A Samples: 10 (Nepal 3 ) US (5 , Ohio,NY), India (2 , 1 patient via GBW)

Tree:

Screenshot 2024-09-08 alle 17 55 34

https://nextstrain.org/fetch/genome-test.gi.ucsc.edu/trash/ct/subtreeAuspice1_genome_test_293d3_dc0a10.json?label=id:node_7031318

IDs:EPI_ISL_19324461-19324462, EPI_ISL_19332154, EPI_ISL_19333095, EPI_ISL_19333117, EPI_ISL_19358508, EPI_ISL_19362795, EPI_ISL_19375189, EPI_ISL_19375210, EPI_ISL_19381970,

FedeGueli commented 2 months ago

11

DailyCovidCases commented 2 months ago

This branch has slowed down a lot. You can close this @FedeGueli