From 15e25eae918581ce2b2543e91e0206f4d537cecc Mon Sep 17 00:00:00 2001 From: Cornelius Roemer Date: Sat, 10 Jun 2023 16:18:06 +0200 Subject: [PATCH] Designate GK.1 (CH.1.1.11.1, S:Q52H, ORF7a:T28I, Europe) with 130 seqs --- lineage_notes.txt | 1 + lineages.csv | 130 ++++++++++++++++++++++++++++--- pango_designation/alias_key.json | 1 + 3 files changed, 121 insertions(+), 11 deletions(-) diff --git a/lineage_notes.txt b/lineage_notes.txt index c63f7446..829267c5 100644 --- a/lineage_notes.txt +++ b/lineage_notes.txt @@ -882,6 +882,7 @@ CH.1.1.8 Alias of B.1.1.529.2.75.3.4.1.1.1.1.8, Ireland, defined by S:A846V CH.1.1.9 Alias of B.1.1.529.2.75.3.4.1.1.1.1.9, England, defined by S:I1232V CH.1.1.10 Alias of B.1.1.529.2.75.3.4.1.1.1.1.10, Ireland, ORF1a:G442S CH.1.1.11 Alias of B.1.1.529.2.75.3.4.1.1.1.1.11, ORF1a:A1176T +GK.1 Alias of B.1.1.529.2.75.3.4.1.1.1.1.11.1, S:Q52H, ORF7a:T28I, Europe CH.1.1.12 Alias of B.1.1.529.2.75.3.4.1.1.1.1.12, S:L858I on ORF1a:A486V branch, Denmark FS.1 Alias of B.1.1.529.2.75.3.4.1.1.1.1.12.1, found mainly in Denmark, from pango-designation issue #1816 CH.1.1.13 Alias of B.1.1.529.2.75.3.4.1.1.1.1.13, ORF3a:S171L diff --git a/lineages.csv b/lineages.csv index 7d940759..6e738f64 100644 --- a/lineages.csv +++ b/lineages.csv @@ -2211681,18 +2211681,7 @@ Indonesia/JK-NIHRD-W00616/2023,CH.1.1.11 Indonesia/JK-NIHRD-23-00188/2023,CH.1.1.11 Indonesia/JK-NIHRD-WGS-22-38123/2022,CH.1.1.11 Indonesia/JK-NIHRD-WGS-23-00025/2023,CH.1.1.11 -Ireland/D-NVRL-S23IRL00000913/2023,CH.1.1.11 Australia/ACT10094/2022,CH.1.1.11 -Australia/NSW-SAVID-16097/2023,CH.1.1.11 -Australia/NSW-ICPMR-41150/2023,CH.1.1.11 -Ireland/CN-NVRL-S23IRL00004318/2023,CH.1.1.11 -Ireland/CN-NVRL-S22IRL00484387/2022,CH.1.1.11 -England/PLYM-326C4F84/2023,CH.1.1.11 -England/PLYM-326C4F57/2023,CH.1.1.11 -England/PLYM-326C4F75/2023,CH.1.1.11 -Singapore/R10MR103/2023,CH.1.1.11 -England/PLYM-326C523F/2023,CH.1.1.11 -England/PLYM-326C5211/2023,CH.1.1.11 Japan/TKYhug14742/2022,CH.1.1.11 Singapore/R4MR52/2023,CH.1.1.11 SouthKorea/KDCA189302/2022,CH.1.1.11 @@ -2417600,3 +2417589,122 @@ Austria/AGES-1133121/2023,DV.6.1 Austria/AGES-1133097/2023,DV.6.1 Austria/AGES-1133155/2023,DV.6.1 Austria/AGES-1133154/2023,DV.6.1 +Netherlands/NB-EMC-5346/2023,GK.1 +Slovenia/23-006530-MB/2023,GK.1 +Slovenia/17-001825-CE/2023,GK.1 +Netherlands/NB-RIVM-127966/2023,GK.1 +Australia/VIC82166/2023,GK.1 +England/BRBR-326E4012/2023,GK.1 +Ireland/D-NVRL-S23IRL00000913/2023,GK.1 +Australia/NSW-SAVID-16097/2023,GK.1 +Australia/NSW-ICPMR-41150/2023,GK.1 +Netherlands/ZH-LUMC-4505/2023,GK.1 +Netherlands/ZH-EMC-7931/2023,GK.1 +Slovenia/23-013157-MB/2023,GK.1 +Slovenia/23-010262-MB/2023,GK.1 +England/PHEC-YYE3BU7/2023,GK.1 +Netherlands/LI-MUMC-7079/2023,GK.1 +Australia/WA13704/2023,GK.1 +Australia/VIC83393/2023,GK.1 +Slovenia/08-001337-MB/2023,GK.1 +Slovenia/08-001018-MB/2023,GK.1 +Slovenia/23-008154-MB/2023,GK.1 +England/PHEC-YYEOEPI/2023,GK.1 +England/PHEC-YYETZDA/2023,GK.1 +Wales/PHWC-PKPAWB/2023,GK.1 +Wales/PHWC-PKQKOI/2023,GK.1 +Wales/PHWC-PKPU61/2023,GK.1 +Wales/PHWC-PKQPFJ/2023,GK.1 +Italy/LIG-356529014/2023,GK.1 +Denmark/DCGC-643317/2023,GK.1 +Denmark/DCGC-643223/2023,GK.1 +Netherlands/NH-AUMC-000824/2023,GK.1 +Netherlands/NB-PAMM-C30-0018/2023,GK.1 +Netherlands/UT-RIVM-128686/2023,GK.1 +Slovakia/BA_23_00002709/2023,GK.1 +Slovakia/BA_23_00002708/2023,GK.1 +Australia/WA13746/2023,GK.1 +Australia/WA13718/2023,GK.1 +Australia/NSW-ICPMR-43517/2023,GK.1 +Australia/SA525046/2023,GK.1 +Netherlands/NB-EMC-5358/2023,GK.1 +Netherlands/NB-EMC-5357/2023,GK.1 +Sweden/03_SE600_000200525777N2/2023,GK.1 +Sweden/1700159763/2023,GK.1 +England/PHEC-YYEMIPU/2023,GK.1 +England/PHEC-YYEP7ET/2023,GK.1 +England/PHEC-YYEP3MX/2023,GK.1 +England/PHEC-YYEP3QJ/2023,GK.1 +England/PHEP-YYGIYM3/2023,GK.1 +England/PHEC-YYEKAHU/2023,GK.1 +Ireland/CN-NVRL-SIRL00008831/2023,GK.1 +Ireland/WH-NVRL-SIRL00011868/2023,GK.1 +Ireland/WH-NVRL-SIRL00011916/2023,GK.1 +Ireland/CN-NVRL-SIRL00008823/2023,GK.1 +Ireland/D-CHI-L23IRL03350/2023,GK.1 +Ireland/CN-NVRL-SIRL00013042/2023,GK.1 +Ireland/CN-NVRL-S23IRL00004318/2023,GK.1 +Ireland/CN-NVRL-S22IRL00484387/2022,GK.1 +Ireland/D-SVUH-FAW74325-14/2023,GK.1 +Ireland/D-SVUH-FAW74325-12/2023,GK.1 +Ireland/D-SVUH-FAW74325-13/2023,GK.1 +Ireland/D-SVUH-FAW74325-15/2023,GK.1 +Ireland/MO-NVRL-SIRL00014182/2023,GK.1 +Ireland/WW-NVRL-SIRL00014522/2023,GK.1 +Ireland/LS-NVRL-SIRL00015076/2023,GK.1 +Italy/LOM-ASST_37204029PAP/2023,GK.1 +Austria/AGES-1138081/2023,GK.1 +Italy/EMR_AUSLRomagna_C031-23-01/2023,GK.1 +England/PHEC-YYEAKPD/2023,GK.1 +Italy/LOM_Unimi-1797/2023,GK.1 +Italy/VEN-IZSVe-23RS8109-5_RO/2023,GK.1 +Italy/CAM-TIGEM-IZSM-COLLI-46070/2023,GK.1 +Italy/VEN-IZSVe-23RS8081-1_VI/2023,GK.1 +Italy/VEN-IZSVe-23RS8063-1_RO/2023,GK.1 +Italy/FVG-PN-65345281/2023,GK.1 +France/ARA-HCL723000499601/2023,GK.1 +Italy/VEN-AOUIVR-2810131355_VR/2023,GK.1 +USA/NY-GBW-H20-317-9871/2023,GK.1 +Italy/EMR_AUSLRomagna_C030-23-32/2023,GK.1 +Italy/MAR_UNIVPM_38533-WG/2023,GK.1 +Italy/PUG_UNIBA_APU-Ba1072/2023,GK.1 +France/OCC-HCL723000505101/2023,GK.1 +England/PHEP-YYGTUGA/2023,GK.1 +Sweden/14_SE300_DC23-004808/2023,GK.1 +Netherlands/GE-RIVM-129138/2023,GK.1 +Italy/VEN-IZSVe-23RS8121-10_VI/2023,GK.1 +Italy/ABR-IZSGC-9563/2023,GK.1 +Austria/AGES-1134909/2023,GK.1 +Austria/AGES-1135112/2023,GK.1 +Italy/LOM_IZSLER_88958_7/2023,GK.1 +PuertoRico/PR-PRPHL-MB0312/2023,GK.1 +Italy/FVG-TS-39364935/2023,GK.1 +Austria/AGES-1137009/2023,GK.1 +Spain/AN-PMC-35117/2023,GK.1 +Italy/VEN-IZSVe-23RS8109-1_RO/2023,GK.1 +England/PLYM-326C4F84/2023,GK.1 +England/PLYM-326C4F57/2023,GK.1 +England/PLYM-326C4F75/2023,GK.1 +Singapore/R10MR103/2023,GK.1 +Wales/PHWC-PKO5JQ/2023,GK.1 +England/PLYM-326C523F/2023,GK.1 +England/PLYM-326C5211/2023,GK.1 +England/QEUH-327014D6/2023,GK.1 +England/PHEC-YYEJ45I/2023,GK.1 +England/QEUH-326DFE2F/2023,GK.1 +England/PLYM-326D61C5/2023,GK.1 +England/QEUH-326E610E/2023,GK.1 +Belgium/UZB_548202305161/2023,GK.1 +England/PHEC-YYEPF6H/2023,GK.1 +England/QEUH-326E03D1/2023,GK.1 +England/BRBR-32716438/2023,GK.1 +England/BRBR-327163C2/2023,GK.1 +England/BRBR-32716517/2023,GK.1 +England/PHEC-YYEUPYR/2023,GK.1 +England/PHEC-YYE3P8K/2023,GK.1 +England/BRBR-3270393F/2023,GK.1 +England/PHEC-YYETF1M/2023,GK.1 +England/BRBR-327167A8/2023,GK.1 +England/BRBR-32716C03/2023,GK.1 +Scotland/SCOT-28887/2023,GK.1 +Scotland/SCOT-29156/2023,GK.1 diff --git a/pango_designation/alias_key.json b/pango_designation/alias_key.json index 1e9663d5..83766063 100644 --- a/pango_designation/alias_key.json +++ b/pango_designation/alias_key.json @@ -167,6 +167,7 @@ "GL": "XAY.1.1.1", "GM": "XBB.2.3.6", "GN": "XBB.1.5.73", + "GP": "CH.1.1.11", "XA": ["B.1.1.7","B.1.177"], "XB": ["B.1.634","B.1.631"], "XC": ["AY.29","B.1.1.7"],