2 XEC.2.2 subbranches with S:T572I on T9508C branch (XEC.2.2.1 / 60, 6 countries, mainly in US)

[Walde1nsamkeit]

From sars-cov-2-variants/lineage-proposals#2088 branches 60 and 88

XEC.2.2> T9508C> G29628T(Orf10:R24L)> C23277T(S:T572I)

Query: T9508C, C23277T, G29628T

Earliest sequence: 12-18 British Columbia, Canada EPI_ISL_19670669
Latest sequence: 03-01 Nebraska, United States EPI_ISL_19766997
Regions detected: US 20, Ireland 2, Canada 1, France 1

https://nextstrain.org/fetch/genome-test.gi.ucsc.edu/trash/hgPhyloPlace/subtreeAuspice1_genome_test_2417e5_c8b640.json?c=country&label=id:node_7373563

Sequences:
EPI_ISL_19670669, EPI_ISL_19689522, EPI_ISL_19704679,
EPI_ISL_19705576, EPI_ISL_19716491, EPI_ISL_19716593,
EPI_ISL_19717119, EPI_ISL_19721567, EPI_ISL_19721703,
EPI_ISL_19721758, EPI_ISL_19721852, EPI_ISL_19726128,
EPI_ISL_19739485, EPI_ISL_19739588, EPI_ISL_19744613,
EPI_ISL_19746924, EPI_ISL_19749723, EPI_ISL_19754488,
EPI_ISL_19758328, EPI_ISL_19758526, EPI_ISL_19761418,
EPI_ISL_19761959, EPI_ISL_19766997, EPI_ISL_19767017,

XEC.2.2> T9508C> C23277T(S:T572I) Designated as XEC.2.2.1

Query: A4364, T9508C, C23277T, -11332, -29628

Earliest sequence: 10-15 England, United Kingdom OZ199383.1
Latest sequence: 02-21 Western Australia, Australia EPI_ISL_19768604
Regions detected: UK 12(3 not on GISAID, 1 not on both GISAID and GenBank), US 8, Australia 5, Ireland 3, Denmark 1, Finland 1, NZ 1

A branch gets further C1104Trev(Orf1a:T280Irev).

https://nextstrain.org/fetch/genome-test.gi.ucsc.edu/trash/hgPhyloPlace/subtreeAuspice1_genome_test_2417e5_c8b640.json?c=country&label=id:node_7373737

Sequences:
EPI_ISL_19535223, EPI_ISL_19624199, EPI_ISL_19624205,
EPI_ISL_19631022, EPI_ISL_19631040-19631041, EPI_ISL_19631483,
EPI_ISL_19639682-19639683, EPI_ISL_19667158, EPI_ISL_19671718,
EPI_ISL_19695662, EPI_ISL_19701231, EPI_ISL_19701238-19701239,
EPI_ISL_19704649, EPI_ISL_19717875, EPI_ISL_19725336-19725337,
EPI_ISL_19727277, EPI_ISL_19727433, EPI_ISL_19746619,
EPI_ISL_19746626, EPI_ISL_19750550, EPI_ISL_19753448,
EPI_ISL_19758571, EPI_ISL_19768596, EPI_ISL_19768604,
OZ199383.1, OZ216948.1, CLIMB-CM7YE6D3

[FedeGueli]

BR.2 >>
29

[FedeGueli]

The Orf10:R24L is quite recent and quite fast apparently, probably boosted by the fact it is well represented in Welsh and Scottish cluster outbreaks.
Interestingly another branch of it got S:K182E and S:R346T
Query: T9508C,G29628T,A22106G
https://nextstrain.org/fetch/genome.ucsc.edu/trash/hgPhyloPlace/subtreeAuspice2_genome_1fd5f8_14bed0.json?label=id:node_7303813

[FedeGueli]

The Orf10:R24L is quite recent and quite fast apparently, probably boosted by the fact it is well represented in Welsh and Scottish cluster outbreaks. Interestingly another branch of it got S:K182E and S:R346T Query: T9508C,G29628T,A22106G

this 182E+346T now reached 18

[Walde1nsamkeit]

Branch 2 Germany, UK

[FedeGueli]

.....interestingly another branch of it got S:K182E and S:R346T Query: T9508C,G29628T,A22106G

this 182E+346T now reached 18

25 for this

28 for this (April 7)

[FedeGueli]

53/44

[FedeGueli]

Very weird double mutation in a sample belonging to Branch 1 with S:P9T,S:L10P
https://nextstrain.org/fetch/genome.ucsc.edu/trash/hgPhyloPlace/subtreeAuspice2_genome_1615f4_78a870.json?label=id:node_7308709

A6184G, A19387G, C21587A,
Query:A6184G, A19387G, C21587A,
Samples:1 NY

[xz-keg]

designated XEC.2.2.1 for branch 1

[FedeGueli]

designated XEC.2.2.1 for branch 1

via 864eea0

[FedeGueli]

The Orf10:R24L is quite recent and quite fast apparently, probably boosted by the fact it is well represented in Welsh and Scottish cluster outbreaks. Interestingly another branch of it got S:K182E and S:R346T Query: T9508C,G29628T,A22106G

this unrelated branch now has been proposed in sars-cov-2-variants/lineage-proposals#2549