From 7fc443358631aba14b0fa1042dbf5a9d40968cc1 Mon Sep 17 00:00:00 2001 From: InfrPopGen Date: Thu, 16 Mar 2023 11:17:48 +0000 Subject: [PATCH] Added new lineage ET.1 from #1732 with 152 new sequence designations, and 32 updated from BQ.1.1.35 --- lineage_notes.txt | 1 + lineages.csv | 218 ++++++++++++++++++++++++++----- pango_designation/alias_key.json | 1 + 3 files changed, 186 insertions(+), 34 deletions(-) diff --git a/lineage_notes.txt b/lineage_notes.txt index 24cb7027..b46136ef 100644 --- a/lineage_notes.txt +++ b/lineage_notes.txt @@ -1328,6 +1328,7 @@ DT.2 Alias of B.1.1.529.5.3.1.1.1.1.1.1.32.2 found mainly in USA, from pango-des DT.3 Alias of B.1.1.529.5.3.1.1.1.1.1.1.32.3 USA, S:L176F BQ.1.1.34 Alias of B.1.1.529.5.3.1.1.1.1.1.1.34, England, S:144-, S:494P, from issue #1483 BQ.1.1.35 Alias of B.1.1.529.5.3.1.1.1.1.1.1.35, Canada, S:K147E, ORF1a:A1812T +ET.1 Alias of B.1.1.529.5.3.1.1.1.1.1.1.35.1 found mainly in UK and Belgium, from pango-designation issue #1732 BQ.1.1.36 Alias of B.1.1.529.5.3.1.1.1.1.1.1.36, Brazil, S:T883I BQ.1.1.37 Alias of B.1.1.529.5.3.1.1.1.1.1.1.37 Italy, ins_S:247:SAE, S:Y248D, from #1571 BQ.1.1.38 Alias of B.1.1.529.5.3.1.1.1.1.1.1.38 found mainly in South Africa and USA, from pango-designation issue #1419 diff --git a/lineages.csv b/lineages.csv index cf039fc6..7f887fbe 100644 --- a/lineages.csv +++ b/lineages.csv @@ -2133645,40 +2133645,38 @@ England/QEUH-326850F5/2022,BQ.1.1.35 Luxembourg/LNS5004530/2022,BQ.1.1.35 England/PHEP-YYGREWB/2022,BQ.1.1.35 Switzerland/ZH-UZH-IMV-3ba67df5/2022,BQ.1.1.35 -Belgium/UGent-7730/2022,BQ.1.1.35 -Netherlands/ZH-RIVM-122743/2022,BQ.1.1.35 -Netherlands/NB-RIVM-120945/2022,BQ.1.1.35 -Sweden/38587343XXP/2022,BQ.1.1.35 -England/LSPA-3267129C/2022,BQ.1.1.35 -England/LSPA-32668632/2022,BQ.1.1.35 -Belgium/UZA-UA-BB351A4ME9/2022,BQ.1.1.35 -Belgium/UGent-7731/2022,BQ.1.1.35 -England/QEUH-32644F5F/2022,BQ.1.1.35 -England/PHEC-YY8I3P5/2022,BQ.1.1.35 -Belgium/Jessa_11-2251-006845/2022,BQ.1.1.35 -Belgium/rega-46514/2022,BQ.1.1.35 -France/HDF-cerba-22S0653811/2022,BQ.1.1.35 -France/HDF-IPP60304/2022,BQ.1.1.35 -England/LSPA-3263E7BA/2022,BQ.1.1.35 -England/QEUH-3266CF33/2022,BQ.1.1.35 -England/LSPA-3262BCC0/2022,BQ.1.1.35 -England/QEUH-3265312A/2022,BQ.1.1.35 -England/LSPA-32666519/2022,BQ.1.1.35 -England/LSPA-3267FE4F/2023,BQ.1.1.35 -England/PHEC-YY8WCI3/2022,BQ.1.1.35 -England/PHEC-YY84PH6/2023,BQ.1.1.35 -England/PHEC-YY8A7QX/2023,BQ.1.1.35 -Wales/PHWC-PKKE5J/2023,BQ.1.1.35 -England/PHEC-YY8I4CH/2022,BQ.1.1.35 -England/QEUH-326565FE/2022,BQ.1.1.35 -England/PHEC-YY8I41X/2022,BQ.1.1.35 -England/PHEC-YY8W5DX/2022,BQ.1.1.35 -England/PHEC-YY8W459/2022,BQ.1.1.35 -England/PHEC-YY8IB6O/2022,BQ.1.1.35 -England/PHEC-YY8W475/2022,BQ.1.1.35 -England/PHEC-YY8W4AF/2022,BQ.1.1.35 -England/PHEC-YY8W3JF/2022,BQ.1.1.35 -England/PHEC-YY8AJXB/2022,BQ.1.1.35 +Belgium/UGent-7730/2022,ET.1 +Netherlands/ZH-RIVM-122743/2022,ET.1 +Netherlands/NB-RIVM-120945/2022,ET.1 +Sweden/38587343XXP/2022,ET.1 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France/ARA-HCL022206560301/2022,BQ.1.1.35 @@ -2233264,3 +2233262,155 @@ USA/CA-CDC-LC0966062/2022,BQ.1.32 Mexico/GUA_IBT_IMSS_10678/2023,BQ.1.32 Mexico/GUA_IBT_IMSS_10693/2023,BQ.1.32 Mexico/GUA-LANGEBIO_IMSS_14330/2023,BQ.1.32 +England/LSPA-3268E01A/2023,ET.1 +Austria/AGES-1110789/2023,ET.1 +Netherlands/GE-RIVM-126253/2023,ET.1 +England/BRBR-326AF6C6/2023,ET.1 +Netherlands/FR-RIVM-123239/2022,ET.1 +England/BRBR-326A4588/2023,ET.1 +England/BRBR-326AFF70/2023,ET.1 +England/LSPA-32698A79/2023,ET.1 +France/OCC-HCL723000049701/2023,ET.1 +Luxembourg/LNS5325591/2023,ET.1 +England/PHEC-YYEYGWJ/2023,ET.1 +England/BRBR-326AEE92/2023,ET.1 +Wales/PHWC-PKCYSZ/2023,ET.1 +England/PHEC-YYERQAT/2023,ET.1 +England/BRBR-326AF7C3/2023,ET.1 +England/BRBR-326AF56F/2023,ET.1 +Wales/PHWC-PKM1P4/2023,ET.1 +Netherlands/GE-RIVM-124910/2023,ET.1 +England/LSPA-3268DF96/2023,ET.1 +England/BRBR-326B003D/2023,ET.1 +England/PLYM-326D6A7F/2023,ET.1 +Netherlands/GE-RIVM-124901/2023,ET.1 +England/BRBR-326C285E/2023,ET.1 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+England/PHEC-YY87G77/2023,ET.1 +England/PHEP-YYGPYD4/2023,ET.1 +England/QEUH-326C3F58/2023,ET.1 +England/BRBR-326ABF65/2023,ET.1 +France/HDF-IPP03802/2023,ET.1 +England/BRBR-326BBFBD/2023,ET.1 +England/PLYM-326E35D8/2023,ET.1 +England/BRBR-326AEF17/2023,ET.1 +Wales/PHWC-PKMZIR/2023,ET.1 +Wales/PHWC-PKM5KZ/2023,ET.1 diff --git a/pango_designation/alias_key.json b/pango_designation/alias_key.json index 2b3ae268..f81ca274 100644 --- a/pango_designation/alias_key.json +++ b/pango_designation/alias_key.json @@ -125,6 +125,7 @@ "EQ": "B.1.1.529.5.1.33", "ER": "B.1.1.529.5.3.1.1.1.1.1.1.22", "ES": "B.1.1.529.5.3.1.1.1.1.1.1.65", + "ET": "B.1.1.529.5.3.1.1.1.1.1.1.35", "XA": ["B.1.1.7","B.1.177"], "XB": ["B.1.634","B.1.631"], "XC": ["AY.29","B.1.1.7"],