Closed NkRMnZr closed 12 months ago
I spotted a EG.2 + S:K304N today: A22474T,C9430T, T18471C,A6355T
Tracking updates:
08-08: Branch 1, +3 (Japan and USA); Branch 3, +3 (Japan)
08-13: Branch 1, +4 (Japan, USA); Branch 2, +1 (USA); Branch 3, +7 (Japan)
I spotted a EG.2 + S:K304N today: A22474T,C9430T, T18471C,A6355T
I'm adding it to tasklist, it seems to be jumping fast this week
Thanks @NkRMnZr for noticing and adding :it represents 7 out of 212 samples from okinawa Japan in July
Thanks @NkRMnZr for noticing and adding :it represents 7 out of 212 samples from okinawa Japan in July
And there's N:G204R>P mutation on many of the sequences
08-08: Branch 1, +3 (Japan and USA); Branch 3, +3 (Japan)
Branch 1, 3 seqs from Japan and USA: EPI_ISL_18071590, EPI_ISL_18073723, EPI_ISL_18073893
Branch 3, 3 seqs from Japan: EPI_ISL_18075785, EPI_ISL_18075812, EPI_ISL_18077847
08-13: Branch 1, +4 (Japan, USA); Branch 2, +1 (USA); Branch 3, +7 (Japan)
Branch 1, 4 seqs from Japan and USA: EPI_ISL_18081404, EPI_ISL_18081957, EPI_ISL_18082731, EPI_ISL_18095875
Branch 2, 1 more from USA: EPI_ISL_18080211
Branch 3, 7 seqs from Japan: EPI_ISL_18081861, EPI_ISL_18082809, EPI_ISL_18082915, EPI_ISL_18082917, EPI_ISL_18082927, EPI_ISL_18082929, EPI_ISL_18082982
Please propose Branch 1 (see - uncertain) and Branch 3 : see, a bit clearer
08-18, Branch 2: +3 from China and USA
1 from New York: EPI_ISL_18104523
1 from Shanghai: EPI_ISL_18105848
1 from Jiangsu: EPI_ISL_18105951
08-25, Branch 2: +2 from China and Singapore EPI_ISL_18127506, EPI_ISL_18138323
Brnch 3 designated EG.2.2 from https://github.com/cov-lineages/pango-designation/commit/94fbed49ecbfc391c3fcc87d17766ee6b34bc9c5
Branch 1 designated XBB.1.16.23 via https://github.com/cov-lineages/pango-designation/commit/9f68787c3a28d8a26a6366c354408f0ed8517227
I think @NkRMnZr you should propose the last branch in the other repo so maybe Cornelius goes to designate it too.
Branch 2 transferred to cov-lineages/pango-designation#2244
Branch 2 transferred to cov-lineages/pango-designation#2244
Thank you
Branch 1
Transferred to Main Repo, Designated as XBB.1.16.23
Designated as XBB.1.16.23 via cov-lineages/pango-designation@9f68787 _Transferred to cov-lineages/pango-designation#2187_ **Defining Mutations:** `XBB.1.16` > `A22472C(S:K304Q)` **Query:** `A22101T, A22472C, C29386T, -T16209C` **Earliest seq:** 2023-04-06 (`EPI_ISL_17496355`, Singapore) **Latest seq:** 2023-07-15 (`EPI_ISL_18050922`, Fukushima, Japan) **Sampled Countries:** Japan (7), Singapore (6), South Korea (6), USA (5, California/2, Indiana, North Carolina, Virginia), Canada (2, BC), India (2, Karnataka)Genomes:
`EPI_ISL_17496355, EPI_ISL_17539792, EPI_ISL_17596417, EPI_ISL_17631385, EPI_ISL_17695054, EPI_ISL_17777161, EPI_ISL_17807332, EPI_ISL_17837583, EPI_ISL_17856816, EPI_ISL_17884028, EPI_ISL_17927867, EPI_ISL_17927876, EPI_ISL_17930453, EPI_ISL_17949711, EPI_ISL_17956589, EPI_ISL_17984091, EPI_ISL_17996307, EPI_ISL_18006528, EPI_ISL_18006550, EPI_ISL_18008936, EPI_ISL_18009151, EPI_ISL_18038978, EPI_ISL_18044135, EPI_ISL_18045251, EPI_ISL_18045294, EPI_ISL_18050922, EPI_ISL_18050961, EPI_ISL_18051952`Branch 2
Transferred to Main Repo
_Transferred to cov-lineages/pango-designation#2244_ **Defining Mutations:** `XBB.1.16` > `G18105T(ORF1b:Q1546H/nsp14_Q22H)` > `T16209C, C25513T(ORF3a:L41F)` > `A8245C(ORF1a:Q2660H/nsp3_Q1842H), C16608T` > `C18326T(ORF1b:A1620V/nsp14_A96V)` > `C14318T(ORF1b:T284I/nsp12_T293I)` > `A22472C(S:K304Q)` **Query:** `C14318T, C18326T, A22472C` **Earliest seq:** 2023-04-28 (`EPI_ISL_17625420`, Shanghai, China, travel history to: Singapore) **Latest seq:** 2023-07-13 (`EPI_ISL_18038504`, Vientiane, Laos) **Sampled Countries:** China (5, Heilongjiang/2, Hubei, Shanghai, Sichuan), Laos (1), South Korea (1), Switzerland (1), USA (1, New York)Genomes:
`EPI_ISL_17625420, EPI_ISL_17850378, EPI_ISL_17850453, EPI_ISL_17951213, EPI_ISL_17989079, EPI_ISL_18022610, EPI_ISL_18034134, EPI_ISL_18038504, EPI_ISL_18047554`Branch 3
Transferred to Main Repo, Designated as EG.2.2
Designated as EG.2.2 via cov-lineages/pango-designation@94fbed4 _Transferred to cov-lineages/pango-designation#2188_ **Defining Mutations:** `EG.2` > `A6355T` > `C9430T, T18471C` > `A22474T(S:K304N)` **Query:** `A6355T, T18471C, A22474T` **Earliest seq:** 2023-03-31 (EPI_ISL_17546450, Jakarta, Indonesia) **Latest seq:** 2023-07-24 (EPI_ISL_18051721, Yamaguchi, Japan) **Sampled Countries:** Japan (18), Indonesia (2), USA (1, Arizona)Genomes:
`EPI_ISL_17546450, EPI_ISL_17551534, EPI_ISL_17958643, EPI_ISL_18012733, EPI_ISL_18040498, EPI_ISL_18041432, EPI_ISL_18041478, EPI_ISL_18050913, EPI_ISL_18050968, EPI_ISL_18051721, EPI_ISL_18053832, EPI_ISL_18065217, EPI_ISL_18065997, EPI_ISL_18066036, EPI_ISL_18066169, EPI_ISL_18066186, EPI_ISL_18066189, EPI_ISL_18066243, EPI_ISL_18066260, EPI_ISL_18066370, EPI_ISL_18066401`