From 8ecd6a4af70ec3397c1d0dbf99c0bddb94b987f7 Mon Sep 17 00:00:00 2001 From: Cornelius Roemer Date: Wed, 26 Jul 2023 11:40:45 +0200 Subject: [PATCH] Redesignate XBB.1.5.99 -> HQ.1 (XBB.1.5.92.1) as it is a sublineage Correcting mistake within <24hr --- lineage_notes.txt | 4 +- lineages.csv | 138 +++++++++++++++---------------- pango_designation/alias_key.json | 1 + 3 files changed, 72 insertions(+), 71 deletions(-) diff --git a/lineage_notes.txt b/lineage_notes.txt index 55ea0c01..c0f41bca 100644 --- a/lineage_notes.txt +++ b/lineage_notes.txt @@ -2814,7 +2814,8 @@ XBB.1.5.88 C2299T, South Africa XBB.1.5.89 S:478R, S:554A, Canada/Italy/France, from sars-cov-2-variants/lineage-proposals#175 XBB.1.5.90 S:P621S, ORF1ab:S6713L, Belgium/France, from #1849 XBB.1.5.91 S:P621S, USA -XBB.1.5.92 ORF1a:T1168I, Ecuador +XBB.1.5.92 ORF1a:T1168I, C823T, Ecuador +HQ.1 Alias of XBB.1.5.92.1, S:E554K, Ecuador XBB.1.5.93 C337T, C19186T, USA HD.1 Alias of XBB.1.5.93.1, S:T346I, USA/Dominican Republic from sars-cov-2-variants/lineage-proposals#363 HD.1.1 Alias of XBB.1.5.93.1.1, S:K356T, Dominican Republic @@ -2823,7 +2824,6 @@ XBB.1.5.95 ORF1:A1851V XBB.1.5.96 C28603T XBB.1.5.97 S:T941S, C7834T, New Zealand/Australia XBB.1.5.98 S:E554K, ORF8:V32L, Ghana -XBB.1.5.99 S:E554K, ORF1a:T1168I, C823T, Ecuador XBB.1.6 USA, S:L216F, S:H146K, from issue #1428 XBB.1.7 USA-NY, S:V608I XBB.1.8 Denmark, S:186insSGG, C3241T From #1455 diff --git a/lineages.csv b/lineages.csv index 68c51d6a..15bfd577 100644 --- a/lineages.csv +++ b/lineages.csv @@ -2452783,75 +2452783,75 @@ Spain/CT-HUB08057/2023,XBB.1.5.98 Spain/CT-HUB08054/2023,XBB.1.5.98 Spain/CT-HUB08056/2023,XBB.1.5.98 Spain/CT-HUB08055/2023,XBB.1.5.98 -Ecuador/GENSBIO-INSPI-SG-061/2023,XBB.1.5.99 -Ecuador/GENSBIO-INSPI-102210/2023,XBB.1.5.99 -Ecuador/GENSBIO-INSPI-103253/2023,XBB.1.5.99 -Ecuador/GENSBIO-INSPI-SG-290/2023,XBB.1.5.99 -Ecuador/GENSBIO-INSPI-SG-282/2023,XBB.1.5.99 -Ecuador/NIC-INSPI-434889/2023,XBB.1.5.99 -Ecuador/GENSBIO-INSPI-SG-260/2023,XBB.1.5.99 -USA/NJ-CDC-QDX80462630/2023,XBB.1.5.99 -USA/NJ-PHEL-V23011394/2023,XBB.1.5.99 -USA/NJ-PHEL-V23011676/2023,XBB.1.5.99 -USA/NJ-PHEL-V23010876/2023,XBB.1.5.99 -Ireland/D-BH-670044230/2023,XBB.1.5.99 -Ecuador/GENSBIO-INSPI-SG-112/2023,XBB.1.5.99 -Ecuador/NIC-INSPI-0006-5481/2023,XBB.1.5.99 -Ecuador/NIC-INSPI-0006-5480/2023,XBB.1.5.99 -Ecuador/GENSBIO-INSPI-SG-408/2023,XBB.1.5.99 -Ecuador/GENSBIO-INSPI-SG-258/2023,XBB.1.5.99 -Colombia/DC-INS-VG-29836/2023,XBB.1.5.99 -Ecuador/GENSBIO-INSPI-103847/2023,XBB.1.5.99 -Ecuador/GENSBIO-INSPI-103676/2023,XBB.1.5.99 -Ecuador/GENSBIO-INSPI-SG-231/2023,XBB.1.5.99 -Ecuador/GENSBIO-INSPI-103737/2023,XBB.1.5.99 -Ecuador/GENSBIO-INSPI-SG-162/2023,XBB.1.5.99 -Ecuador/GENSBIO-INSPI-103799/2023,XBB.1.5.99 -Ecuador/GENSBIO-INSPI-103205/2023,XBB.1.5.99 -Ecuador/GENSBIO-INSPI-SG-406/2023,XBB.1.5.99 -Ecuador/GENSBIO-INSPI-SG-392/2023,XBB.1.5.99 -Ecuador/GENSBIO-INSPI-SG-180/2023,XBB.1.5.99 -Spain/AN-PMC-35747/2023,XBB.1.5.99 -Ecuador/GENSBIO-INSPI-SG-373/2023,XBB.1.5.99 -Guatemala/1151-LNS/2023,XBB.1.5.99 -USA/NY-CDC-QDX81328292/2023,XBB.1.5.99 -Ecuador/GENSBIO-INSPI-SG-103/2023,XBB.1.5.99 -USA/VA-GBW-H20-309-8244/2023,XBB.1.5.99 -USA/VA-GBW-H10-012-2022/2023,XBB.1.5.99 -USA/VA-GBW-H10-012-3703/2023,XBB.1.5.99 -USA/VA-GBW-H10-013-0916/2023,XBB.1.5.99 -USA/VA-CDC-QDX80783863/2023,XBB.1.5.99 -USA/VA-GBW-H20-311-3020/2023,XBB.1.5.99 -USA/VA-GBW-H20-314-2164/2023,XBB.1.5.99 -USA/NJ-GBW-H10-014-2958/2023,XBB.1.5.99 -PuertoRico/PR-PRPHL-MB0432/2023,XBB.1.5.99 -USA/RI-CDC-LC1042160/2023,XBB.1.5.99 -USA/HI-H2321724/2023,XBB.1.5.99 -USA/NY-CDC-QDX82316912/2023,XBB.1.5.99 -DominicanRepublic/2154076-LNSPDD/2023,XBB.1.5.99 -DominicanRepublic/2146223-LNSPDD/2023,XBB.1.5.99 -USA/OH-IVY-G43Q59A7/2023,XBB.1.5.99 -USA/PR-CVL-016772/2023,XBB.1.5.99 -USA/CT-CDC-LC1042267/2023,XBB.1.5.99 -England/PHEC-YYESJAT/2023,XBB.1.5.99 -DominicanRepublic/2152800-LNSPDD/2023,XBB.1.5.99 -DominicanRepublic/2153347-LNSPDD/2023,XBB.1.5.99 -USA/MN-MDH-35618/2023,XBB.1.5.99 -USA/MN-MDH-35615/2023,XBB.1.5.99 -CHN/SH-HG20230529-1352/2023,XBB.1.5.99 -Shanghai/SCDC-HG0529-1352/2023,XBB.1.5.99 -USA/MA-CDC-VSX-A349057/2023,XBB.1.5.99 -USA/OH-PLMI-HJGT7-20172/2023,XBB.1.5.99 -USA/MI-MDHHS-SC44505/2023,XBB.1.5.99 -USA/RI-CDC-LC1042231/2023,XBB.1.5.99 -Canada/QC-L00624388001/2023,XBB.1.5.99 -Canada/QC-L00622054001/2023,XBB.1.5.99 -Canada/QC-L00624406001/2023,XBB.1.5.99 -CostaRica/INC-11628-799669/2023,XBB.1.5.99 -Canada/QC-L00629872001/2023,XBB.1.5.99 -Canada/QC-L00631618001/2023,XBB.1.5.99 -Canada/QC-L00631621001/2023,XBB.1.5.99 -Canada/QC-L00629873001/2023,XBB.1.5.99 +Ecuador/GENSBIO-INSPI-SG-061/2023,HQ.1 +Ecuador/GENSBIO-INSPI-102210/2023,HQ.1 +Ecuador/GENSBIO-INSPI-103253/2023,HQ.1 +Ecuador/GENSBIO-INSPI-SG-290/2023,HQ.1 +Ecuador/GENSBIO-INSPI-SG-282/2023,HQ.1 +Ecuador/NIC-INSPI-434889/2023,HQ.1 +Ecuador/GENSBIO-INSPI-SG-260/2023,HQ.1 +USA/NJ-CDC-QDX80462630/2023,HQ.1 +USA/NJ-PHEL-V23011394/2023,HQ.1 +USA/NJ-PHEL-V23011676/2023,HQ.1 +USA/NJ-PHEL-V23010876/2023,HQ.1 +Ireland/D-BH-670044230/2023,HQ.1 +Ecuador/GENSBIO-INSPI-SG-112/2023,HQ.1 +Ecuador/NIC-INSPI-0006-5481/2023,HQ.1 +Ecuador/NIC-INSPI-0006-5480/2023,HQ.1 +Ecuador/GENSBIO-INSPI-SG-408/2023,HQ.1 +Ecuador/GENSBIO-INSPI-SG-258/2023,HQ.1 +Colombia/DC-INS-VG-29836/2023,HQ.1 +Ecuador/GENSBIO-INSPI-103847/2023,HQ.1 +Ecuador/GENSBIO-INSPI-103676/2023,HQ.1 +Ecuador/GENSBIO-INSPI-SG-231/2023,HQ.1 +Ecuador/GENSBIO-INSPI-103737/2023,HQ.1 +Ecuador/GENSBIO-INSPI-SG-162/2023,HQ.1 +Ecuador/GENSBIO-INSPI-103799/2023,HQ.1 +Ecuador/GENSBIO-INSPI-103205/2023,HQ.1 +Ecuador/GENSBIO-INSPI-SG-406/2023,HQ.1 +Ecuador/GENSBIO-INSPI-SG-392/2023,HQ.1 +Ecuador/GENSBIO-INSPI-SG-180/2023,HQ.1 +Spain/AN-PMC-35747/2023,HQ.1 +Ecuador/GENSBIO-INSPI-SG-373/2023,HQ.1 +Guatemala/1151-LNS/2023,HQ.1 +USA/NY-CDC-QDX81328292/2023,HQ.1 +Ecuador/GENSBIO-INSPI-SG-103/2023,HQ.1 +USA/VA-GBW-H20-309-8244/2023,HQ.1 +USA/VA-GBW-H10-012-2022/2023,HQ.1 +USA/VA-GBW-H10-012-3703/2023,HQ.1 +USA/VA-GBW-H10-013-0916/2023,HQ.1 +USA/VA-CDC-QDX80783863/2023,HQ.1 +USA/VA-GBW-H20-311-3020/2023,HQ.1 +USA/VA-GBW-H20-314-2164/2023,HQ.1 +USA/NJ-GBW-H10-014-2958/2023,HQ.1 +PuertoRico/PR-PRPHL-MB0432/2023,HQ.1 +USA/RI-CDC-LC1042160/2023,HQ.1 +USA/HI-H2321724/2023,HQ.1 +USA/NY-CDC-QDX82316912/2023,HQ.1 +DominicanRepublic/2154076-LNSPDD/2023,HQ.1 +DominicanRepublic/2146223-LNSPDD/2023,HQ.1 +USA/OH-IVY-G43Q59A7/2023,HQ.1 +USA/PR-CVL-016772/2023,HQ.1 +USA/CT-CDC-LC1042267/2023,HQ.1 +England/PHEC-YYESJAT/2023,HQ.1 +DominicanRepublic/2152800-LNSPDD/2023,HQ.1 +DominicanRepublic/2153347-LNSPDD/2023,HQ.1 +USA/MN-MDH-35618/2023,HQ.1 +USA/MN-MDH-35615/2023,HQ.1 +CHN/SH-HG20230529-1352/2023,HQ.1 +Shanghai/SCDC-HG0529-1352/2023,HQ.1 +USA/MA-CDC-VSX-A349057/2023,HQ.1 +USA/OH-PLMI-HJGT7-20172/2023,HQ.1 +USA/MI-MDHHS-SC44505/2023,HQ.1 +USA/RI-CDC-LC1042231/2023,HQ.1 +Canada/QC-L00624388001/2023,HQ.1 +Canada/QC-L00622054001/2023,HQ.1 +Canada/QC-L00624406001/2023,HQ.1 +CostaRica/INC-11628-799669/2023,HQ.1 +Canada/QC-L00629872001/2023,HQ.1 +Canada/QC-L00631618001/2023,HQ.1 +Canada/QC-L00631621001/2023,HQ.1 +Canada/QC-L00629873001/2023,HQ.1 USA/CA-LACPHL-AF18704/2022,HP.1 USA/CA-CDC-QDX80078083/2023,HP.1 USA/FL-CDC-QDX49504469/2023,HP.1 diff --git a/pango_designation/alias_key.json b/pango_designation/alias_key.json index 1170cbf7..962faa1c 100644 --- a/pango_designation/alias_key.json +++ b/pango_designation/alias_key.json @@ -191,6 +191,7 @@ "HM": "XBB.1.5.30", "HN": "XBB.1.9.1.1.5.1", "HP": "XBB.1.5.55", + "HQ": "XBB.1.5.92", "XA": ["B.1.1.7","B.1.177"], "XB": ["B.1.634","B.1.631"], "XC": ["AY.29","B.1.1.7"],