KP.3.1.1 + S:D88E (32 Seqs , 4 places including US-11 States))

FedeGueli commented 4 weeks ago

S:D88E has been sampled less than 1K in the course of the pandemic mainly during the VOCs era. Now it popped up on Kp.3.1.1 backbone, as usual KP.3.1.1 sublineages don't show any advantage over parental baseline.

Still interesting to keep it tracked for a while. S:P85X has been under selective pressure since S:S31del is widespread.

KP.3.1.1 > Orf1a:K141R (A687G) > A24820G (= S:K1086K silent) > S:D88E (T21826A) Query: A687G,T21826A Samples: 17 First collected on 2024-06-23 (UK) Places : 3 Uk, Us, Can

Tree: Interestingly the main two branches are defined by two Orf3a mutations: the upper branch by Orf3a:S60F. (convergent with JN.1.48.3) and the bottom branch by Orf3a:K16N 8 convergent with #2068

https://nextstrain.org/fetch/genome-test.gi.ucsc.edu/trash/ct/subtreeAuspice1_genome_test_5d138_fc5250.json?c=userOrOld&label=id:node_7028939

FedeGueli commented 2 weeks ago

19 now from 11 American States and the most recent 4 September samples from three different states.

FedeGueli commented 1 week ago

24 Denmark

Over-There-Is commented 1 week ago

31

sars-cov-2-variants / lineage-proposals

KP.3.1.1 + S:D88E (32 Seqs , 4 places including US-11 States)) #2076