Closed NkRMnZr closed 1 year ago
Ping @corneliusroemer i suggest a close monitor of this one: 1) The tree roots could suggest it emerged in Indonesia ( we have only 4 travellers sample for Indonesia = 200M for september) 2) the mutational profile combines FLip to 478R and with 182 residue mutated to Q that is N in XBB.2.3.3 and it is associated usually to fit lineages. 3) 5 samples 4 countries considering that French sample in a young woman the danish is recent two from Singapore with two different age and the one intercepted in Us airports is in a traveller coming from Japan.
Tracking updates
09-29, 1 from NSW: EPI_ISL_18324922
10-02, 1 from Basque EPI_ISL_18331861
10-06, 1 from Vienna EPI_ISL_18354495
10-11, 1 from Hyogo EPI_ISL_18376275
7 Spain (new country) 7 seqs 6 countries 4 continents
8 Austria new country
Worth noting that the A27388C in this branch spoils the ORF7a/ORF7b TRS. There's probably almost no ORF7a or ORF7b expression in this lineage.
i would add Or7ab expression ablated in the headline
This is now a sublineage of JR.1 (EG.5.1.11.1)
Sorry already designated JR.1.1 via https://github.com/cov-lineages/pango-designation/commit/bd9a2f7e2cc8baf43ae8317b9105c62673cacd63
Taken from Branch 44 of multitask sars-cov-2-variants/lineage-proposals#537
Defining Mutations:
EG.5.1
>A22106C(S:K182Q)
>C22995G(S:T478R), A25664G(ORF3a:Y91C)
>C1613T(ORF1a:L450F), G20995T(ORF1b:G2510C), G22927C(S:L455F), A27388C
Query:A22106C, G22927C, C22995G
Earliest seq: 2023-08-14 (EPI_ISL_18160020
, Denmark, OREPI_ISL_18278998
, Singapore) Latest seq: 2023-09-13 (EPI_ISL_18295307
,SFO
airport, California, USA with travel history to: Japan) Sampled Countries: Denmark (2), France (1), Singapore (1), USA (1, ex. Japan)Genomes:
`EPI_ISL_18160020, EPI_ISL_18243476, EPI_ISL_18278998, EPI_ISL_18295307, EPI_ISL_18314088`UShER: https://nextstrain.org/fetch/genome.ucsc.edu/trash/ct/subtreeAuspice2_genome_ec32_42b9b0.json?label=id:node_6951991
Trivia:
S:L455F
viaG22927C
, branching from a seemingly hiatusS:T478R
sublineage from Indonesia, where doesn't have much sequences available since June.A27388C
is ORF7a TRS related.