CH.1.1.1 sublineage with S:L858I (208 seqs, 11 countries)

[NkRMnZr]

Transferred from sars-cov-2-variants/lineage-proposals#130
Here's the main proposal, including a 75 seqs C15026T(ORF1b:A520V) > G25606A(ORF3a:A72T) sub-branch within this one, a 35 nuc saltation singlet, see original issue for details.

Defining mutations: (On top of CH.1.1.1's C25721T(ORF3a:A110V) > T4402A, that is, sibling to DV.1/2/3/5/6) > C10908T(ORF1a:A3548V) > C24134A(S:L858I) >
Query: C25721T, T4402A, C10908T, C24134A
Earliest seq: 2023/1/19 (EPI_ISL_16812642, Germany)
Latest seq: 2023-05-22 (EPI_ISL_17762415, Spain)
Countries: UK (155, England/150, Wales/3, Scotland/2), Germany (20), USA (9, Minnesota, Iowa, Tennessee, North Carolina, Hawaii, Massachusetts, New Jersey, New York, California), France (5), Australia (4, All SA), Spain (4), Portugal (2), Netherlands (1), Italy (1), Canada (1, Quebec), Finland (1)

Genomes:

EPI_ISL_16812642, EPI_ISL_16812860, EPI_ISL_16879358, EPI_ISL_16879359, EPI_ISL_16879366, EPI_ISL_16879382, EPI_ISL_16879413, EPI_ISL_16879424, EPI_ISL_16879488, EPI_ISL_16879496, EPI_ISL_16879517, EPI_ISL_16911716, EPI_ISL_16911849, EPI_ISL_16911869, EPI_ISL_16924619, EPI_ISL_16924695, EPI_ISL_16978857, EPI_ISL_16985870, EPI_ISL_17005111, EPI_ISL_17006309, EPI_ISL_17006458, EPI_ISL_17007332, EPI_ISL_17007827, EPI_ISL_17016847, EPI_ISL_17032222, EPI_ISL_17071230, EPI_ISL_17095132, EPI_ISL_17098110, EPI_ISL_17098122, EPI_ISL_17098152, EPI_ISL_17098168, EPI_ISL_17098236, EPI_ISL_17098239, EPI_ISL_17098389, EPI_ISL_17153388, EPI_ISL_17153397, EPI_ISL_17153447, EPI_ISL_17153515, EPI_ISL_17153530, EPI_ISL_17153589, EPI_ISL_17153681, EPI_ISL_17153906, EPI_ISL_17164896, EPI_ISL_17164960, EPI_ISL_17175404, EPI_ISL_17178096, EPI_ISL_17184404, EPI_ISL_17184440, EPI_ISL_17188128, EPI_ISL_17209872, EPI_ISL_17210134, EPI_ISL_17210169, EPI_ISL_17218851, EPI_ISL_17231442, EPI_ISL_17232517, EPI_ISL_17232626, EPI_ISL_17232679, EPI_ISL_17245402, EPI_ISL_17245457, EPI_ISL_17245886, EPI_ISL_17254450, EPI_ISL_17255538, EPI_ISL_17255547, EPI_ISL_17255862, EPI_ISL_17263234, EPI_ISL_17267206, EPI_ISL_17267252, EPI_ISL_17267272, EPI_ISL_17267288, EPI_ISL_17267322, EPI_ISL_17273926, EPI_ISL_17273949, EPI_ISL_17296374, EPI_ISL_17298882, EPI_ISL_17317110, EPI_ISL_17317206, EPI_ISL_17317254, EPI_ISL_17317308, EPI_ISL_17317316, EPI_ISL_17348275, EPI_ISL_17349096, EPI_ISL_17350760, EPI_ISL_17372926, EPI_ISL_17381502, EPI_ISL_17381686, EPI_ISL_17381954, EPI_ISL_17398424, EPI_ISL_17400589, EPI_ISL_17406860, EPI_ISL_17407849, EPI_ISL_17409545, EPI_ISL_17416805, EPI_ISL_17426979, EPI_ISL_17464260, EPI_ISL_17469827, EPI_ISL_17484800, EPI_ISL_17502280, EPI_ISL_17506823, EPI_ISL_17541789, EPI_ISL_17541854, EPI_ISL_17542173, EPI_ISL_17548038, EPI_ISL_17548813, EPI_ISL_17598847, EPI_ISL_17598889, EPI_ISL_17606372, EPI_ISL_17606576, EPI_ISL_17606643, EPI_ISL_17622521, EPI_ISL_17622662, EPI_ISL_17623124, EPI_ISL_17640241, EPI_ISL_17666230, EPI_ISL_17666261, EPI_ISL_17666461, EPI_ISL_17685527, EPI_ISL_17692299, EPI_ISL_17692520, EPI_ISL_17692649, EPI_ISL_17692821, EPI_ISL_17693048, EPI_ISL_17710132, EPI_ISL_17721674, EPI_ISL_17721690, EPI_ISL_17721803, EPI_ISL_17762571

EPI_ISL_17246478, EPI_ISL_17284226, EPI_ISL_17284442, EPI_ISL_17293454, EPI_ISL_17299371, EPI_ISL_17350701, EPI_ISL_17350729, EPI_ISL_17381280, EPI_ISL_17381494, EPI_ISL_17381790, EPI_ISL_17382127, EPI_ISL_17382583, EPI_ISL_17400449, EPI_ISL_17400456, EPI_ISL_17400522, EPI_ISL_17400548, EPI_ISL_17400579, EPI_ISL_17400720, EPI_ISL_17400897, EPI_ISL_17400937, EPI_ISL_17400975, EPI_ISL_17417072, EPI_ISL_17426715, EPI_ISL_17426936, EPI_ISL_17426984, EPI_ISL_17434242, EPI_ISL_17464270, EPI_ISL_17464339, EPI_ISL_17464381, EPI_ISL_17465603, EPI_ISL_17470438, EPI_ISL_17484534, EPI_ISL_17484559, EPI_ISL_17484566, EPI_ISL_17484588, EPI_ISL_17484785, EPI_ISL_17513801, EPI_ISL_17534559, EPI_ISL_17541980, EPI_ISL_17542291, EPI_ISL_17542424, EPI_ISL_17549184, EPI_ISL_17549262, EPI_ISL_17549277, EPI_ISL_17587456, EPI_ISL_17598855, EPI_ISL_17598875, EPI_ISL_17598887, EPI_ISL_17598964, EPI_ISL_17606927, EPI_ISL_17608712, EPI_ISL_17614114, EPI_ISL_17614327, EPI_ISL_17617451, EPI_ISL_17626604, EPI_ISL_17666331, EPI_ISL_17666414, EPI_ISL_17666472, EPI_ISL_17666744, EPI_ISL_17666971, EPI_ISL_17677194, EPI_ISL_17692657, EPI_ISL_17692697, EPI_ISL_17692712, EPI_ISL_17700357, EPI_ISL_17704723, EPI_ISL_17705027, EPI_ISL_17715855, EPI_ISL_17716346, EPI_ISL_17720128, EPI_ISL_17720165, EPI_ISL_17721623, EPI_ISL_17726537, EPI_ISL_17732072, EPI_ISL_17736987, EPI_ISL_17762415, EPI_ISL_17763228

UShER:
https://nextstrain.org/fetch/genome.ucsc.edu/trash/ct/subtreeAuspice1_genome_2efa_d5d3c0.json

Overview

Detail

Trivia:

• S:L858I (C24134A) is one of the definition mutations found in BA.2.39, CH.1.1.12, BQ.1.25.1, FZ.1.1 (XBB.1.5.47.1.1)
• ORF1b:A520V (C15026T, nsp3:A72V) is one one of the definition mutations found in XBC, BA.5.1.7
• ORF3a:A72T (G25606A) was once driven by some BQ.1.12, actually about a quarter of BQ.1.12 sequences has this mutation, quite a bit share of recent FD.1.1 seqs from Canada also has it.