diff --git a/lineage_notes.txt b/lineage_notes.txt index f1b8b2d3..15c4052d 100644 --- a/lineage_notes.txt +++ b/lineage_notes.txt @@ -1241,6 +1241,8 @@ BQ.1.1.49 Alias of B.1.1.529.5.3.1.1.1.1.1.1.49 S:H1083D BQ.1.1.50 Alias of B.1.1.529.5.3.1.1.1.1.1.1.50 found mainly in Peru, from pango-designation issue #1577 BQ.1.1.51 Alias of B.1.1.529.5.3.1.1.1.1.1.1.51 USA, ORF3a:L101F BQ.1.1.52 Alias of B.1.1.529.5.3.1.1.1.1.1.1.52 USA/Mexico +EA.1 Alias of B.1.1.529.5.3.1.1.1.1.1.1.52.1 ORF8:C102F/ins_S:247:SKWL +EA.2 Alias of B.1.1.529.5.3.1.1.1.1.1.1.52.2 S:T470I BQ.1.2 Alias of B.1.1.529.5.3.1.1.1.1.1.2, found globally, defined by S:I666V, from issue #1082 BQ.1.2.1 Alias of B.1.1.529.5.3.1.1.1.1.1.2.1 found mainly in Japan, SouthKorea and Mongolia, from pango-designation issue #1392 BQ.1.3 Alias of B.1.1.529.5.3.1.1.1.1.1.3, found globally, defined by S:E619Q, from issue #1082 diff --git a/lineages.csv b/lineages.csv index 41a8d78d..a6d25992 100644 --- a/lineages.csv +++ b/lineages.csv @@ -2150215,7 +2150215,6 @@ Canada/ON-PHL-23-07338/2023,BQ.1.15.1 Canada/ON-PHL-23-07520/2023,BQ.1.15.1 Canada/ON-PHL-23-07340/2023,BQ.1.15.1 Canada/ON-PHL-23-04472/2023,BQ.1.15.1 -strain,BQ.1.1.52 USA/NC-CORVASEQ-1085-7928/2022,BQ.1.1.52 USA/NY-CDC-QDX43164712/2022,BQ.1.1.52 USA/TX-ASC-210996353/2023,BQ.1.1.52 @@ -2150546,33 +2150545,6 @@ USA/SC-CDC-LC1001635/2023,BQ.1.1.52 USA/NC-MCPH-CLT-013767/2023,BQ.1.1.52 USA/NC-MCPH-CLT-013565/2022,BQ.1.1.52 USA/NC-CDC-LC0964867/2022,BQ.1.1.52 -Germany/BY-RKI-I-1067662/2022,BQ.1.1.52 -USA/NC-CDC-LC0928835/2022,BQ.1.1.52 -USA/UT-UPHL-221219206422/2022,BQ.1.1.52 -USA/NC-CDC-QDX43583382/2022,BQ.1.1.52 -USA/NC-CDC-QDX43292300/2022,BQ.1.1.52 -USA/NC-CDC-QDX43292301/2022,BQ.1.1.52 -USA/NC-CDC-LC0950359/2022,BQ.1.1.52 -USA/NC-CDC-LC0979014/2022,BQ.1.1.52 -Germany/SH-RKI-I-1092587/2023,BQ.1.1.52 -Germany/BW-RKI-I-1091361/2023,BQ.1.1.52 -Germany/BB-RKI-I-1092388/2023,BQ.1.1.52 -Germany/BB-RKI-I-1095401/2023,BQ.1.1.52 -USA/NC-WakeMed-CORVASEQ-WM06690/2022,BQ.1.1.52 -USA/NC-CDC-LC0931255/2022,BQ.1.1.52 -USA/NC-ECU-CORVASEQ-116760605/2023,BQ.1.1.52 -USA/NC-ECU-CORVASEQ-116792544/2023,BQ.1.1.52 -USA/NC-CDC-QDX45341533/2023,BQ.1.1.52 -USA/NC-CORVASEQ-UNC-8759/2022,BQ.1.1.52 -USA/JW8759/2022,BQ.1.1.52 -USA/NC-CDC-LC0955029/2022,BQ.1.1.52 -USA/NC-CDC-LC0941056/2022,BQ.1.1.52 -USA/NC-CDC-QDX43631362/2022,BQ.1.1.52 -Germany/BB-RKI-I-1093621/2023,BQ.1.1.52 -USA/NC-CORVASEQ-1085-8806/2023,BQ.1.1.52 -USA/NC-CDC-LC0946662/2022,BQ.1.1.52 -USA/NC-MCPH-CLT-013437/2022,BQ.1.1.52 -USA/NC-MCPH-CLT-013479/2022,BQ.1.1.52 USA/NY-PRL-221130_02M22/2022,BQ.1.1.52 USA/NY-CDC-QDX44772393/2022,BQ.1.1.52 England/BRBR-3268A9D7/2023,BQ.1.1.52 @@ -2150728,125 +2150700,6 @@ Germany/BB-RKI-I-1095628/2023,BQ.1.1.52 Germany/NW-RKI-I-1071622/2022,BQ.1.1.52 Germany/NW-RKI-I-1084290/2022,BQ.1.1.52 Germany/NW-RKI-I-1076514/2022,BQ.1.1.52 -Turkey/KSS-PFOADH4889715450/2022,BQ.1.1.52 -Germany/BW-RKI-I-1059900/2022,BQ.1.1.52 -Romania/B-541957/2022,BQ.1.1.52 -USA/MI-CDC-LC0974780/2022,BQ.1.1.52 -Turkey/KSS-PCTSH4930665908/2022,BQ.1.1.52 -USA/CA-GBW-H20-289-7379/2022,BQ.1.1.52 -Germany/NW-RKI-I-1077088/2022,BQ.1.1.52 -USA/KS-CDC-LC0983905/2022,BQ.1.1.52 -Belgium/AZDelta-2252-00415/2023,BQ.1.1.52 -Belgium/LHUB-ULB_81692062/2023,BQ.1.1.52 -USA/NJ-CDC-QDX45739809/2023,BQ.1.1.52 -Malaysia/IMR_OS7631/2022,BQ.1.1.52 -Spain/IB-HUSE-07418/2022,BQ.1.1.52 -Spain/IB-HUSE-07505/2022,BQ.1.1.52 -Turkey/KSS-MSYSH4856054360/2022,BQ.1.1.52 -Netherlands/UT-RIVM-124203/2023,BQ.1.1.52 -Netherlands/NH-AUMC-000222/2023,BQ.1.1.52 -Netherlands/NH-AUMC-000223/2023,BQ.1.1.52 -Turkey/KSS-UEAH4915744006/2022,BQ.1.1.52 -Germany/BW-RKI-I-1094828/2023,BQ.1.1.52 -Netherlands/NH-RIVM-124255/2023,BQ.1.1.52 -Belgium/UGent-7686/2022,BQ.1.1.52 -Belgium/UGent-7677/2022,BQ.1.1.52 -England/BRBR-32657E5C/2022,BQ.1.1.52 -OX404101.1,BQ.1.1.52 -OX404878.1,BQ.1.1.52 -England/BRBR-326583E3/2022,BQ.1.1.52 -France/ARA-HCL022207039001/2022,BQ.1.1.52 -Germany/SH-RKI-I-1092787/2023,BQ.1.1.52 -Germany/NI-RKI-I-1084986/2023,BQ.1.1.52 -Germany/SN-RKI-I-1096639/2023,BQ.1.1.52 -Denmark/DCGC-640070/2023,BQ.1.1.52 -Germany/NW-RKI-I-1093570/2023,BQ.1.1.52 -Austria/AGES-1108086/2023,BQ.1.1.52 -Austria/LB-R00123-S350/2023,BQ.1.1.52 -USA/NY-CDC-QDX45961638/2023,BQ.1.1.52 -Singapore/R6MR30/2023,BQ.1.1.52 -Austria/LB-R00123-S081/2023,BQ.1.1.52 -Austria/LB-R00123-S043/2023,BQ.1.1.52 -Austria/Medilab_1583/2023,BQ.1.1.52 -Germany/BW-RKI-I-1095368/2023,BQ.1.1.52 -Croatia/HZJZ_2429/2023,BQ.1.1.52 -England/PHEC-YY89EY1/2023,BQ.1.1.52 -Israel/ICH-741195044/2022,BQ.1.1.52 -USA/CA-CDC-STM-84TJJ6ZYX/2022,BQ.1.1.52 -USA/CA-CDC-STM-ZDU45TWPV/2022,BQ.1.1.52 -Turkey/KSS-UEAH4865338076/2022,BQ.1.1.52 -France/GES-IPP02275/2023,BQ.1.1.52 -France/IDF-IPP01532/2023,BQ.1.1.52 -Germany/HH-hpi-p18737/2022,BQ.1.1.52 -Germany/NI-RKI-I-1039646/2022,BQ.1.1.52 -Germany/SN-RKI-I-1086883/2022,BQ.1.1.52 -Germany/SN-RKI-I-1065637/2022,BQ.1.1.52 -Germany/HH-hpi-p19102/2022,BQ.1.1.52 -Germany/SN-RKI-I-1072967/2022,BQ.1.1.52 -Israel/ICH-741193483/2022,BQ.1.1.52 -Israel/ICH-741193685/2022,BQ.1.1.52 -Slovenia/08-000102-MB/2023,BQ.1.1.52 -Austria/AGES-1106776/2023,BQ.1.1.52 -Austria/AGES-1108693/2023,BQ.1.1.52 -Germany/BY-RKI-I-1067414/2022,BQ.1.1.52 -France/GES-IPP01709/2023,BQ.1.1.52 -Germany/BW-RKI-I-1090917/2023,BQ.1.1.52 -Germany/BW-RKI-I-1069627/2022,BQ.1.1.52 -Austria/AGES-1106566/2023,BQ.1.1.52 -Austria/AGES-1106666/2023,BQ.1.1.52 -Austria/AGES-1106767/2023,BQ.1.1.52 -Austria/AGES-1106779/2023,BQ.1.1.52 -USA/MA-ASC-210964458/2023,BQ.1.1.52 -Wales/PHWC-PKMGFS/2023,BQ.1.1.52 -England/PHEP-YYGJSAB/2023,BQ.1.1.52 -England/QEUH-326AEF62/2023,BQ.1.1.52 -England/QEUH-326AFCF1/2023,BQ.1.1.52 -Turkey/KSS-PFOADH4935794303/2022,BQ.1.1.52 -Turkey/KSS-PFOADH4935794252/2022,BQ.1.1.52 -Turkey/KSS-KEAH4910693525/2022,BQ.1.1.52 -Turkey/KSS-KSS4936029091/2022,BQ.1.1.52 -Turkey/KSS-BDSKEAH4935597477/2022,BQ.1.1.52 -Turkey/KSS-KSS4936029190/2022,BQ.1.1.52 -Turkey/KSS-UEAH4888697713/2022,BQ.1.1.52 -Turkey/KSS-UEAH4889335713/2022,BQ.1.1.52 -Turkey/KSS-PFOADH4882283109/2022,BQ.1.1.52 -Netherlands/UT-RIVM-123764/2022,BQ.1.1.52 -Turkey/KSS-SBU4935144419/2022,BQ.1.1.52 -Turkey/KSS-KEAH4930117761/2022,BQ.1.1.52 -Turkey/KSS-PCTSH4930663797/2022,BQ.1.1.52 -Turkey/KSS-PCTSH4930665896/2022,BQ.1.1.52 -Turkey/KSS-SBU4926001074/2022,BQ.1.1.52 -Turkey/KSS-PFOADH4889715411/2022,BQ.1.1.52 -Turkey/KSS-UEAH4879597520/2022,BQ.1.1.52 -Turkey/KSS-HEEAH4882620372/2022,BQ.1.1.52 -Turkey/KSS-PFOADH4930861592/2022,BQ.1.1.52 -Turkey/KSS-MUPEAH4919107096/2022,BQ.1.1.52 -Germany/NW-RKI-I-1072394/2022,BQ.1.1.52 -Germany/HH-RKI-I-1072708/2022,BQ.1.1.52 -Germany/NW-RKI-I-1067974/2022,BQ.1.1.52 -Germany/NW-RKI-I-1076891/2022,BQ.1.1.52 -Germany/NW-RKI-I-1081221/2022,BQ.1.1.52 -Germany/SH-RKI-I-1092632/2023,BQ.1.1.52 -Netherlands/LI-RIVM-124942/2023,BQ.1.1.52 -Germany/NW-RKI-I-1068103/2022,BQ.1.1.52 -Germany/NW-RKI-I-1093888/2023,BQ.1.1.52 -Germany/NW-RKI-I-1085041/2022,BQ.1.1.52 -Germany/BY-RKI-I-1085790/2023,BQ.1.1.52 -Germany/NW-RKI-I-1090045/2023,BQ.1.1.52 -Germany/NW-RKI-I-1090383/2022,BQ.1.1.52 -Germany/NW-RKI-I-1072417/2022,BQ.1.1.52 -Germany/NW-RKI-I-1067956/2022,BQ.1.1.52 -Germany/NW-RKI-I-1067685/2022,BQ.1.1.52 -Germany/NW-RKI-I-1068178/2022,BQ.1.1.52 -Germany/RP-RKI-I-1068655/2022,BQ.1.1.52 -Germany/NW-RKI-I-1090637/2022,BQ.1.1.52 -Germany/NW-RKI-I-1086479/2023,BQ.1.1.52 -Germany/SH-RKI-I-1092645/2023,BQ.1.1.52 -Germany/NW-RKI-I-1088009/2023,BQ.1.1.52 -Germany/BW-RKI-I-1080849/2022,BQ.1.1.52 -Germany/NW-RKI-I-1092916/2023,BQ.1.1.52 -Austria/MUIV-1261/2023,BQ.1.1.52 -Germany/BY-RKI-I-1091148/2023,BQ.1.1.52 Canada/ON-PHL-23-08533/2023,BQ.1.1.52 Canada/ON-PHL-23-08535/2023,BQ.1.1.52 Canada/ON-PHL-23-08537/2023,BQ.1.1.52 @@ -2151314,4 +2151167,151 @@ USA/FL-CDC-QDX43679221/2022,BQ.1.1.52 USA/FL-CDC-QDX43679222/2022,BQ.1.1.52 USA/NY-CDC-LC0958305/2022,BQ.1.1.52 USA/NJ-CDC-LC0950378/2022,BQ.1.1.52 +strain,EA.1 +Turkey/KSS-PFOADH4889715450/2022,EA.1 +Germany/BW-RKI-I-1059900/2022,EA.1 +Romania/B-541957/2022,EA.1 +USA/MI-CDC-LC0974780/2022,EA.1 +Turkey/KSS-PCTSH4930665908/2022,EA.1 +USA/CA-GBW-H20-289-7379/2022,EA.1 +Germany/NW-RKI-I-1077088/2022,EA.1 +USA/KS-CDC-LC0983905/2022,EA.1 +Belgium/AZDelta-2252-00415/2023,EA.1 +Belgium/LHUB-ULB_81692062/2023,EA.1 +USA/NJ-CDC-QDX45739809/2023,EA.1 +Malaysia/IMR_OS7631/2022,EA.1 +Spain/IB-HUSE-07418/2022,EA.1 +Spain/IB-HUSE-07505/2022,EA.1 +Turkey/KSS-MSYSH4856054360/2022,EA.1 +Netherlands/UT-RIVM-124203/2023,EA.1 +Netherlands/NH-AUMC-000222/2023,EA.1 +Netherlands/NH-AUMC-000223/2023,EA.1 +Turkey/KSS-UEAH4915744006/2022,EA.1 +Germany/BW-RKI-I-1094828/2023,EA.1 +Netherlands/NH-RIVM-124255/2023,EA.1 +Belgium/UGent-7686/2022,EA.1 +Belgium/UGent-7677/2022,EA.1 +England/BRBR-32657E5C/2022,EA.1 +OX404101.1,EA.1 +OX404878.1,EA.1 +England/BRBR-326583E3/2022,EA.1 +France/ARA-HCL022207039001/2022,EA.1 +Germany/SH-RKI-I-1092787/2023,EA.1 +Germany/NI-RKI-I-1084986/2023,EA.1 +Germany/SN-RKI-I-1096639/2023,EA.1 +Denmark/DCGC-640070/2023,EA.1 +Germany/NW-RKI-I-1093570/2023,EA.1 +Austria/AGES-1108086/2023,EA.1 +Austria/LB-R00123-S350/2023,EA.1 +USA/NY-CDC-QDX45961638/2023,EA.1 +Singapore/R6MR30/2023,EA.1 +Austria/LB-R00123-S081/2023,EA.1 +Austria/LB-R00123-S043/2023,EA.1 +Austria/Medilab_1583/2023,EA.1 +Germany/BW-RKI-I-1095368/2023,EA.1 +Croatia/HZJZ_2429/2023,EA.1 +England/PHEC-YY89EY1/2023,EA.1 +Israel/ICH-741195044/2022,EA.1 +USA/CA-CDC-STM-84TJJ6ZYX/2022,EA.1 +USA/CA-CDC-STM-ZDU45TWPV/2022,EA.1 +Turkey/KSS-UEAH4865338076/2022,EA.1 +France/GES-IPP02275/2023,EA.1 +France/IDF-IPP01532/2023,EA.1 +Germany/HH-hpi-p18737/2022,EA.1 +Germany/NI-RKI-I-1039646/2022,EA.1 +Germany/SN-RKI-I-1086883/2022,EA.1 +Germany/SN-RKI-I-1065637/2022,EA.1 +Germany/HH-hpi-p19102/2022,EA.1 +Germany/SN-RKI-I-1072967/2022,EA.1 +Israel/ICH-741193483/2022,EA.1 +Israel/ICH-741193685/2022,EA.1 +Slovenia/08-000102-MB/2023,EA.1 +Austria/AGES-1106776/2023,EA.1 +Austria/AGES-1108693/2023,EA.1 +Germany/BY-RKI-I-1067414/2022,EA.1 +France/GES-IPP01709/2023,EA.1 +Germany/BW-RKI-I-1090917/2023,EA.1 +Germany/BW-RKI-I-1069627/2022,EA.1 +Austria/AGES-1106566/2023,EA.1 +Austria/AGES-1106666/2023,EA.1 +Austria/AGES-1106767/2023,EA.1 +Austria/AGES-1106779/2023,EA.1 +USA/MA-ASC-210964458/2023,EA.1 +Wales/PHWC-PKMGFS/2023,EA.1 +England/PHEP-YYGJSAB/2023,EA.1 +England/QEUH-326AEF62/2023,EA.1 +England/QEUH-326AFCF1/2023,EA.1 +Turkey/KSS-PFOADH4935794303/2022,EA.1 +Turkey/KSS-PFOADH4935794252/2022,EA.1 +Turkey/KSS-KEAH4910693525/2022,EA.1 +Turkey/KSS-KSS4936029091/2022,EA.1 +Turkey/KSS-BDSKEAH4935597477/2022,EA.1 +Turkey/KSS-KSS4936029190/2022,EA.1 +Turkey/KSS-UEAH4888697713/2022,EA.1 +Turkey/KSS-UEAH4889335713/2022,EA.1 +Turkey/KSS-PFOADH4882283109/2022,EA.1 +Netherlands/UT-RIVM-123764/2022,EA.1 +Turkey/KSS-SBU4935144419/2022,EA.1 +Turkey/KSS-KEAH4930117761/2022,EA.1 +Turkey/KSS-PCTSH4930663797/2022,EA.1 +Turkey/KSS-PCTSH4930665896/2022,EA.1 +Turkey/KSS-SBU4926001074/2022,EA.1 +Turkey/KSS-PFOADH4889715411/2022,EA.1 +Turkey/KSS-UEAH4879597520/2022,EA.1 +Turkey/KSS-HEEAH4882620372/2022,EA.1 +Turkey/KSS-PFOADH4930861592/2022,EA.1 +Turkey/KSS-MUPEAH4919107096/2022,EA.1 +Germany/NW-RKI-I-1072394/2022,EA.1 +Germany/HH-RKI-I-1072708/2022,EA.1 +Germany/NW-RKI-I-1067974/2022,EA.1 +Germany/NW-RKI-I-1076891/2022,EA.1 +Germany/NW-RKI-I-1081221/2022,EA.1 +Germany/SH-RKI-I-1092632/2023,EA.1 +Netherlands/LI-RIVM-124942/2023,EA.1 +Germany/NW-RKI-I-1068103/2022,EA.1 +Germany/NW-RKI-I-1093888/2023,EA.1 +Germany/NW-RKI-I-1085041/2022,EA.1 +Germany/BY-RKI-I-1085790/2023,EA.1 +Germany/NW-RKI-I-1090045/2023,EA.1 +Germany/NW-RKI-I-1090383/2022,EA.1 +Germany/NW-RKI-I-1072417/2022,EA.1 +Germany/NW-RKI-I-1067956/2022,EA.1 +Germany/NW-RKI-I-1067685/2022,EA.1 +Germany/NW-RKI-I-1068178/2022,EA.1 +Germany/RP-RKI-I-1068655/2022,EA.1 +Germany/NW-RKI-I-1090637/2022,EA.1 +Germany/NW-RKI-I-1086479/2023,EA.1 +Germany/SH-RKI-I-1092645/2023,EA.1 +Germany/NW-RKI-I-1088009/2023,EA.1 +Germany/BW-RKI-I-1080849/2022,EA.1 +Germany/NW-RKI-I-1092916/2023,EA.1 +Austria/MUIV-1261/2023,EA.1 +Germany/BY-RKI-I-1091148/2023,EA.1 +Germany/BY-RKI-I-1067662/2022,EA.2 +USA/NC-CDC-LC0928835/2022,EA.2 +USA/UT-UPHL-221219206422/2022,EA.2 +USA/NC-CDC-QDX43583382/2022,EA.2 +USA/NC-CDC-QDX43292300/2022,EA.2 +USA/NC-CDC-QDX43292301/2022,EA.2 +USA/NC-CDC-LC0950359/2022,EA.2 +USA/NC-CDC-LC0979014/2022,EA.2 +Germany/SH-RKI-I-1092587/2023,EA.2 +Germany/BW-RKI-I-1091361/2023,EA.2 +Germany/BB-RKI-I-1092388/2023,EA.2 +Germany/BB-RKI-I-1095401/2023,EA.2 +USA/NC-WakeMed-CORVASEQ-WM06690/2022,EA.2 +USA/NC-CDC-LC0931255/2022,EA.2 +USA/NC-ECU-CORVASEQ-116760605/2023,EA.2 +USA/NC-ECU-CORVASEQ-116792544/2023,EA.2 +USA/NC-CDC-QDX45341533/2023,EA.2 +USA/NC-CORVASEQ-UNC-8759/2022,EA.2 +USA/JW8759/2022,EA.2 +USA/NC-CDC-LC0955029/2022,EA.2 +USA/NC-CDC-LC0941056/2022,EA.2 +USA/NC-CDC-QDX43631362/2022,EA.2 +Germany/BB-RKI-I-1093621/2023,EA.2 +USA/NC-CORVASEQ-1085-8806/2023,EA.2 +USA/NC-CDC-LC0946662/2022,EA.2 +USA/NC-MCPH-CLT-013437/2022,EA.2 +USA/NC-MCPH-CLT-013479/2022,EA.2 diff --git a/pango_designation/alias_key.json b/pango_designation/alias_key.json index 666395e0..23bb8d38 100644 --- a/pango_designation/alias_key.json +++ b/pango_designation/alias_key.json @@ -108,6 +108,7 @@ "DW": "B.1.1.529.5.3.1.1.2.1", "DY": "B.1.1.529.5.2.48", "DZ": "B.1.1.529.5.2.49", + "EA": "B.1.1.529.5.3.1.1.1.1.1.1.52", "XA": ["B.1.1.7","B.1.177"], "XB": ["B.1.634","B.1.631"], "XC": ["AY.29","B.1.1.7"],