Evidence
This is surprisingly geographically widespread perhaps indicating that it originates in a region with no sequencing. Like Germany, for example.
There is one sequence from England and one sequence from the US on the Usher tree but not yet on GISAID.
FedeGueli
commented
6 months ago
Transferred from https://github.com/sars-cov-2-variants/lineage-proposals/issues/1342 Description Sub-lineage of: JN.1 Earliest sequence: 2023-12-8, England — EPI_ISL_18652267 Most recent sequence: 2024-1-14, England — EPI_ISL_18809846 Continents circulating: Europe (12), North America (12) Countries circulating: USA (12), England (9), Italy (2), Mexico (1), Netherlands (1), Scotland (1), Spain (1) Number of Sequences: 24 GISAID Nucleotide Query: A28992T, T28297C, C28958A CovSpectrum Query: Nextcladepangolineage:JN.1* & T28297C & [3-of: G1820A, C8299T, G8578A, A13063G, C26499G, A28992T] Substitutions on top of JN.1: N: Q240L ORF9b: I5T ORF1a: G519S Nucleotide: G1820A, C8299T, G8578A, A13063G, C26499G, T28297C, A28992T
Phylogenetic Order of Mutations: G8578A → C26499G → A28992T (N:Q240L) → G1820A (ORF1a:G519S) → C8299T, A13063G → T28297C (ORF9b:I5T)
USHER Tree https://nextstrain.org/fetch/raw.githubusercontent.com/ryhisner/jsons2/main/JN.1_N.Q240L_ORF9b.I5T.json?c=gt-nuc_28297&gmax=29297&gmin=27297&label=id:node_6854307
Evidence This is surprisingly geographically widespread perhaps indicating that it originates in a region with no sequencing. Like Germany, for example.
There is one sequence from England and one sequence from the US on the Usher tree but not yet on GISAID.
Genomes
Genomes
EPI_ISL_18652267, EPI_ISL_18668187, EPI_ISL_18668195, EPI_ISL_18688910, EPI_ISL_18699137, EPI_ISL_18701770, EPI_ISL_18721176, EPI_ISL_18721203, EPI_ISL_18722984, EPI_ISL_18723009, EPI_ISL_18731528, EPI_ISL_18763944, EPI_ISL_18763949, EPI_ISL_18763951, EPI_ISL_18771708, EPI_ISL_18774842, EPI_ISL_18775066, EPI_ISL_18793807, EPI_ISL_18799435, EPI_ISL_18809175, EPI_ISL_18809846, EPI_ISL_18809849, EPI_ISL_18822360-18822361