KP.3.1.4 plus S:Q52R ( 99 , 10% in Israel after August 1 )

[FedeGueli]

Just spotted a KP.3 sublineage that has got S:Q52R defining mutation of JE.1.1.1 and much earlier of B.1.525 [see https://github.com/cov-lineages/pango-designation/issues/4 (!!) ]

Defining mutations: KP.3.1.4 >C14889T > Orf1a:S984C (A3215T), S:Q52R (A21717G), Orf7a:T28I (C27476T)
Query: A3215T,A21717G Samples: 4 (Israel 3 , GBW-Netherlands 1) IDs:EPI_ISL_19184477, EPI_ISL_19213232, EPI_ISL_19213289, EPI_ISL_19229829

Tree:

https://nextstrain.org/fetch/genome-test.gi.ucsc.edu/trash/ct/subtreeAuspice1_genome_test_1c48e_6d8440.json?c=userOrOld&label=id:node_11513231

As it is easy to spot in the tree 37$ samples got S:R681H and one of them got further S:V11I, S:A899S

[HynnSpylor]

+14 seqs in Israel (~4%)

[FedeGueli]

+6 Israel it is around 5% there after June 20, growing

[FedeGueli]

39 now 18/229 samples collected in Israel after July 1

[FedeGueli]

59 now, i roughly estimated its prevalence in Israel : close to 8% first week of July close to 9% second week of July close to 30% (8/23) third week of July.

@shay671 i suggest to check this one, if you have additional information about it that you can share, if it is involved in hospital clusters or random sampling in population, ER access or everything else. Its growth seems sustained although very small numbers and one country only.

cc @corneliusroemer @thomasppeacock @angiehinrichs

[FedeGueli]

Another batch from Israel it is around 20% after July 15

[FedeGueli]

it seems that finally direct competition with Kp.3.1.1 brought its growth down a lot, with KP.3.1.1 climbing to 20% and this dropping at 5%

[FedeGueli]

only 4 in the last batch from Israel

[FedeGueli]

89 representing 8/82 samples collected in Israel in August

[FedeGueli]

99 still hanging at 10% in Israel no exportation, but one sample in Netherlands.

[xz-keg]

Dead

[Over-There-Is]

109

[FedeGueli]

only local