From cba648fc3935708f8c8c6eefa329dd9ee301375b Mon Sep 17 00:00:00 2001 From: Cornelius Roemer Date: Tue, 4 Jun 2024 15:09:44 +0200 Subject: [PATCH] Designate LQ.1 (JN.1.18.1.1), LQ.1.1, LQ.2, LQ.3 --- lineage_notes.txt | 4 + lineages.csv | 131 +++++++++++++++++++++++++++---- pango_designation/alias_key.json | 1 + 3 files changed, 119 insertions(+), 17 deletions(-) diff --git a/lineage_notes.txt b/lineage_notes.txt index 0349c8a5..a44ce50f 100644 --- a/lineage_notes.txt +++ b/lineage_notes.txt @@ -1189,6 +1189,10 @@ LA.2 Alias of B.1.1.529.2.86.1.1.16.2.2, S:R346I JN.1.17 Alias of B.1.1.529.2.86.1.1.17, S:A222V, USA JN.1.18 Alias of B.1.1.529.2.86.1.1.18, S:R346T, directly on JN.1 polytomy, from sars-cov-2-variants/lineage-proposals#1089 JN.1.18.1 Alias of B.1.1.529.2.86.1.1.18.1, S:T250N, from sars-cov-2-variants/lineage-proposals#1414 +LQ.1 Alias of B.1.1.529.2.86.1.1.18.1.1, S:F456L (22928C) +LQ.1.1 Alias of B.1.1.529.2.86.1.1.18.1.1.1, S:P272H +LQ.2 Alias of B.1.1.529.2.86.1.1.18.1.2, S:N556K, China +LQ.3 Alias of B.1.1.529.2.86.1.1.18.1.3, ORF1a:T1761I, Russia JN.1.18.2 Alias of B.1.1.529.2.86.1.1.18.2, S:F59S, after C4331T, T22321C, from sars-cov-2-variants/lineage-proposals#1441 JN.1.18.3 Alias of B.1.1.529.2.86.1.1.18.3, S:F456V JN.1.18.4 Alias of B.1.1.529.2.86.1.1.18.4, S:F456L (T22930G), ORF6:I60T, T23036C, Ghana diff --git a/lineages.csv b/lineages.csv index 4bd13a4a..a4f2bc8d 100644 --- a/lineages.csv +++ b/lineages.csv @@ -2523082,29 +2523082,12 @@ Russia/SPE-RII-MH166801S/2024,JN.1.18.1 USA/CA-HLX-STM-6C62NMPTA/2024,JN.1.18.1 Luxembourg/LNS1547961/2024,JN.1.18.1 Netherlands/ZH-RIVM-137323/2024,JN.1.18.1 -Russia/SPE-RII-MH168035S/2024,JN.1.18.1 -Pakistan/NIH-B168-S6/2024,JN.1.18.1 Anhui/CZCDC-CX24004/2024,JN.1.18.1 -CHN/CZCDC-2024-CX24004/2024,JN.1.18.1 -Russia/SPE-RII-MH167354S/2024,JN.1.18.1 -Russia/SPE-RII-MH167393S/2024,JN.1.18.1 USA/HI-H2327738/2024,JN.1.18.1 USA/HI-H2327728/2024,JN.1.18.1 USA/HI-H2327689/2024,JN.1.18.1 USA/HI-H2327690/2024,JN.1.18.1 -CHN/SH-dsyy-2024013001/2024,JN.1.18.1 -Shanghai/SCDC-dsyy-013001/2024,JN.1.18.1 -CHN/HB-Xiangyang-3902/2024,JN.1.18.1 -Shanghai/SCDC-HP02-24/2024,JN.1.18.1 -CHN/SH-HP202402-24/2024,JN.1.18.1 -Hubei/HCDC-XY3902/2024,JN.1.18.1 Shanghai/SCDC-NCOV-34/2024,JN.1.18.1 -CHN/SH-NCOV24-34/2024,JN.1.18.1 -CHN/SH-NCOV24-045/2024,JN.1.18.1 -Shanghai/SCDC-N-045/2024,JN.1.18.1 -CHN/SH-FX20240205-017/2024,JN.1.18.1 -Shanghai/SCDC-FX0205-017/2024,JN.1.18.1 -Singapore/R14MQ46/2024,JN.1.18.1 England/WSI-3317BBE4/2023,JN.1.30 Belgium/UGent-1990/2023,JN.1.30 France/IDF-IPP00154/2024,JN.1.30 @@ -2554656,3 +2554639,117 @@ Sweden/S-1260950467R4/2024,XDY Spain/CT-HUVH-E50075/2024,XDY Spain/CT-HUVH-E48397/2024,XDY Spain/CT-HUVH-E46508/2024,XDY +USA/VA-CDC-LC1101758/2024,LQ.1 +India/MH_BJCOG_INSACOG_6640/2024,LQ.1 +USA/CO-CDPHE-41872411/2024,LQ.1 +Australia/QLD0x01437C/2024,LQ.1 +USA/CA-KP002434/2024,LQ.1 +Russia/ME-RII-MH188420S/2024,LQ.1 +Japan/FR021-0297/2024,LQ.1.1 +SouthKorea/KDCA292731/2024,LQ.1.1 +Taiwan/CDC-F92623/2024,LQ.1.1 +Canada/AB-ABPHL-117560/2024,LQ.1.1 +England/CLIMB-CM7YMFAF/2024,LQ.1.1 +England/CLIMB-CM7YJZQ9/2024,LQ.1.1 +England/CLIMB-CM7YR1EA/2024,LQ.1.1 +USA/UT-UPHL-240529224754/2024,LQ.1.1 +Taiwan/CDC-F92129/2024,LQ.1.1 +Ireland/D-CS0163/2024,LQ.1.1 +England/CLIMB-CM7YJZAO/2024,LQ.1.1 +England/CLIMB-CM7YM8QB/2024,LQ.1.1 +USA/CA-HLX-STM-37Z64VKP8/2024,LQ.1.1 +SouthKorea/KDCA290477/2024,LQ.1.1 +England/CLIMB-CM7YMRPX/2024,LQ.1.1 +Ireland/WX-SVUH-FAY39985-046/2024,LQ.1.1 +Ireland/WX-SVUH-FAY39985-047/2024,LQ.1.1 +Japan/FR012-0109/2024,LQ.1.1 +Taiwan/CDC-W37611/2024,LQ.1.1 +USA/CA-GBW-GKPLAAAA27272/2024,LQ.1.1 +Canada/BC-BCCDC-711831/2024,LQ.1.1 +Canada/BC-BCCDC-711842/2024,LQ.1.1 +Canada/BC-BCCDC-711653/2024,LQ.1.1 +Canada/BC-BCCDC-711233/2024,LQ.1.1 +CHN/SH-dsyy-2024013001/2024,LQ.2 +Shanghai/SCDC-dsyy-013001/2024,LQ.2 +CHN/HB-Xiangyang-3902/2024,LQ.2 +Shanghai/SCDC-HP02-24/2024,LQ.2 +CHN/SH-HP202402-24/2024,LQ.2 +CHN/ZMDCDC-040/2024,LQ.2 +Hubei/HCDC-XY3902/2024,LQ.2 +NewZealand/24YA3081/2024,LQ.2 +Shanghai/SCDC-N-34/2024,LQ.2 +CHN/SH-NCOV24-34/2024,LQ.2 +CHN/SH-NCOV24-045/2024,LQ.2 +Shanghai/SCDC-N-045/2024,LQ.2 +CHN/SH-NCOV24-95/2024,LQ.2 +Shanghai/SCDC-N-95/2024,LQ.2 +CHN/SH-MHXG24022614/2024,LQ.2 +Shanghai/SCDC-MHXG022614/2024,LQ.2 +Shanghai/SCDC-MHXG030405/2024,LQ.2 +CHN/SH-MHXG24030405/2024,LQ.2 +Shanghai/SCDC-FX0205-017/2024,LQ.2 +CHN/SH-FX20240205-017/2024,LQ.2 +CHN/SQCDC-0150/2024,LQ.2 +Japan/FR004-0028/2024,LQ.2 +Singapore/R14MQ46/2024,LQ.2 +Shanghai/SCDC-YP01-080/2024,LQ.2 +CHN/SH-YP202401-080/2024,LQ.2 +SouthKorea/KDCA287441/2024,LQ.3 +Russia/SPE-RII-MH168353S/2024,LQ.3 +Russia/MAG-RII-MH176521S/2024,LQ.3 +Russia/SPE-RII-MH168636S/2024,LQ.3 +USA/WA-GBW-H20-350-6998/2024,LQ.3 +Russia/RYA-RII-MH181382S/2024,LQ.3 +Russia/AD-RII-MH181565S/2024,LQ.3 +Russia/AST-RII-MH183087S/2024,LQ.3 +Crimea/RII-MH182689S/2024,LQ.3 +Russia/SPE-RII-MH168035S/2024,LQ.3 +Russia/TYU-RII-MH184095S/2024,LQ.3 +Japan/FR301-0340/2024,LQ.3 +Russia/KGD-RII-MH187752S/2024,LQ.3 +Russia/SPE-RII-MH178199S/2024,LQ.3 +Russia/SPE-RII-MH178200S/2024,LQ.3 +Russia/SPE-RII-MH168633S/2024,LQ.3 +Russia/MAG-RII-MH184362S/2024,LQ.3 +Russia/KEM-RII-MH184867S/2024,LQ.3 +Russia/KHA-RII-MH186151S/2024,LQ.3 +Pakistan/NIH-B168-S6/2024,LQ.3 +Russia/KGD-RII-MH187777S/2024,LQ.3 +Russia/MAG-RII-MH184402S/2024,LQ.3 +Russia/KDA-RII-MH180973S/2024,LQ.3 +Shanghai/SCDC-HG0306-648/2024,LQ.3 +CHN/SH-HG20240306-648/2024,LQ.3 +Russia/RYA-RII-MH181403S/2024,LQ.3 +Russia/RYA-RII-MH181422S/2024,LQ.3 +Russia/PRI-RII-MH175839S/2024,LQ.3 +Russia/KHA-RII-MH186188S/2024,LQ.3 +Russia/SPE-RII-MH177571S/2024,LQ.3 +Russia/KDA-RII-MH181145S/2024,LQ.3 +Russia/AST-RII-MH183085S/2024,LQ.3 +Russia/MAG-RII-MH184266S/2024,LQ.3 +Russia/MO-RII-MH184557S/2024,LQ.3 +Russia/MO-RII-MH184570S/2024,LQ.3 +Russia/MO-RII-MH184571S/2024,LQ.3 +Russia/SPE-RII-MH178165S/2024,LQ.3 +Russia/SPE-RII-MH178164S/2024,LQ.3 +HongKong/HK-HKPU-PU24MB310108/2024,LQ.3 +HongKong/HK-HKPU-PU24MB831086/2024,LQ.3 +HongKong/HK-HKPU-PU24MB310918/2024,LQ.3 +Russia/SPE-RII-MH167354S/2024,LQ.3 +Russia/SPE-RII-MH167393S/2024,LQ.3 +Russia/SPE-RII-MH178104S/2024,LQ.3 +Russia/SPE-RII-MH178204S/2024,LQ.3 +Russia/SPE-RII-MH178173S/2024,LQ.3 +CHN/SH-AT240182/2024,LQ.3 +Shanghai/SCDC-AT0182/2024,LQ.3 +Anhui/HBCDC-C010/2024,LQ.3 +CHN/CZCDC-2024-CX24086/2024,LQ.3 +CHN/CZCDC-2024-CX24004/2024,LQ.3 +Russia/KHA-RII-MH186137S/2024,LQ.3 +Hubei/HCDC-JZ4125/2024,LQ.3 +CHN/HB-Jingzhou-4125/2024,LQ.3 +CHN/YBCDC-2024XGCX077/2024,LQ.3 +Sichuan/YBCDC-XGCX077/2024,LQ.3 +Russia/MO-RII-MH184547S/2024,LQ.3 +Russia/MO-RII-MH184569S/2024,LQ.3 +Russia/MO-RII-MH184575S/2024,LQ.3 diff --git a/pango_designation/alias_key.json b/pango_designation/alias_key.json index 58cf8ad6..848f016d 100644 --- a/pango_designation/alias_key.json +++ b/pango_designation/alias_key.json @@ -260,6 +260,7 @@ "LM": "B.1.1.529.2.86.1.1.25.1", "LN": "B.1.1.529.2.86.1.1.53.1", "LP": "B.1.1.529.2.86.1.1.11.1.1.1.3", + "LQ": "B.1.1.529.2.86.1.1.18.1", "XA": ["B.1.1.7","B.1.177"], "XB": ["B.1.634","B.1.631"], "XC": ["AY.29","B.1.1.7"],